Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003302.1 Hibiscus syriacus cultivar Beakdansim tig00006948_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: 146899
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:297 original size:21 final size:20
Alignment explanation
Indices: 271--318 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
261 CGGTTACGAC
271 ACCACTGTATTGTCCCGAAGG
1 ACCACTGTA-TGTCCCGAAGG
*
292 ACCAC--TATGTCCCGTAGG
1 ACCACTGTATGTCCCGAAGG
310 ACCACTGTA
1 ACCACTGTA
319 ACCCTCGACC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 15 0.62
19 2 0.08
20 2 0.08
21 5 0.21
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (20 bp):
ACCACTGTATGTCCCGAAGG
Found at i:550 original size:20 final size:20
Alignment explanation
Indices: 525--562 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
515 TGTAGTTTAT
525 TTTCATATAATTCATATCAC
1 TTTCATATAATTCATATCAC
**
545 TTTCATATGTTTCATATC
1 TTTCATATAATTCATATC
563 CATATGTCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.18, G:0.03, T:0.50
Consensus pattern (20 bp):
TTTCATATAATTCATATCAC
Found at i:17195 original size:35 final size:35
Alignment explanation
Indices: 17142--17216 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
17132 CGTCACGAAC
*
17142 AGTAAGGTCCTGACCACAAATCCAAGGAGCCTACA
1 AGTAAGGTCCTGACCACAAAGCCAAGGAGCCTACA
* * *
17177 AGTAAGG-CCATGAGCACAAAGCCGAGGAGCCTCCA
1 AGTAAGGTCC-TGACCACAAAGCCAAGGAGCCTACA
17212 AGTAA
1 AGTAA
17217 TCTTCCTCCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 2 0.06
35 33 0.94
ACGTcount: A:0.37, C:0.27, G:0.24, T:0.12
Consensus pattern (35 bp):
AGTAAGGTCCTGACCACAAAGCCAAGGAGCCTACA
Found at i:17345 original size:24 final size:24
Alignment explanation
Indices: 17318--17431 Score: 85
Period size: 24 Copynumber: 4.8 Consensus size: 24
17308 AGAAATCAGG
17318 TCAAGTGA-CAGATCAAAATCCAAT
1 TCAAGT-ATCAGATCAAAATCCAAT
*
17342 TCAAGTATCAGATCAGAATCC-AT
1 TCAAGTATCAGATCAAAATCCAAT
* *
17365 GTC-AGATATCGGATCAGAATCC-AT
1 -TCAAG-TATCAGATCAAAATCCAAT
* * *
17389 GTCAAGTATCAGATCAGAATTCAAA
1 -TCAAGTATCAGATCAAAATCCAAT
**
17414 TCAAAAATCAGAT-AAAAT
1 TCAAGTATCAGATCAAAAT
17432 ATTCATGTTA
Statistics
Matches: 77, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
23 9 0.12
24 65 0.84
25 3 0.04
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (24 bp):
TCAAGTATCAGATCAAAATCCAAT
Found at i:19891 original size:18 final size:18
Alignment explanation
Indices: 19860--19898 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
19850 GCAGGTCAAT
19860 GGTCAACGGATCGGGTCG
1 GGTCAACGGATCGGGTCG
* *
19878 GGTCAGCGGGTCGGGTCG
1 GGTCAACGGATCGGGTCG
19896 GGT
1 GGT
19899 TGTGACCGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.10, C:0.21, G:0.51, T:0.18
Consensus pattern (18 bp):
GGTCAACGGATCGGGTCG
Found at i:22042 original size:24 final size:24
Alignment explanation
Indices: 22010--22076 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
22000 AAAACCCAAT
22010 TCAAGTATCCGATCAGAATCCATG
1 TCAAGTATCCGATCAGAATCCATG
*
22034 TC-AGATATCCGATCAGAATCTATG
1 TCAAG-TATCCGATCAGAATCCATG
*
22058 TCAAGTATCAGATCAGAAT
1 TCAAGTATCCGATCAGAAT
22077 TCAAATCGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 35 0.90
25 2 0.05
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (24 bp):
TCAAGTATCCGATCAGAATCCATG
Found at i:24567 original size:18 final size:18
Alignment explanation
Indices: 24536--24591 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
24526 GCAGGTCAAC
*
24536 GGTCAACGGATCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
24554 GGTCAGCGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
* *
24572 TGTCAACGGGT-TGGTCG
1 GGTCAACGGGTCGGGTCG
24589 GGT
1 GGT
24592 TGTGACTAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 7 0.22
18 25 0.78
ACGTcount: A:0.11, C:0.20, G:0.48, T:0.21
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:25706 original size:32 final size:32
Alignment explanation
Indices: 25669--25738 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
25659 GTTTTTTGTT
* *
25669 AGATGAAAGGAGTTTGTTTTGTAAGAGATTGA
1 AGATGAAAGGAGTGTGTTATGTAAGAGATTGA
*
25701 AGATGAAAGGAGTGTGTTATGTGAGAGATTGA
1 AGATGAAAGGAGTGTGTTATGTAAGAGATTGA
25733 AGATGA
1 AGATGA
25739 TGTGCACAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.36, C:0.00, G:0.34, T:0.30
Consensus pattern (32 bp):
AGATGAAAGGAGTGTGTTATGTAAGAGATTGA
Found at i:25988 original size:16 final size:17
Alignment explanation
Indices: 25956--25988 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
25946 ATTAAATATA
*
25956 AAATTATTTATAAAAAT
1 AAATTATTTAAAAAAAT
25973 AAATTA-TTAAAAAAAT
1 AAATTATTTAAAAAAAT
25989 TAGTTTAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTATTTAAAAAAAT
Found at i:27517 original size:2 final size:2
Alignment explanation
Indices: 27510--27537 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27500 GAAAAACTCG
27510 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
27538 TTAGTATAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29399 original size:15 final size:15
Alignment explanation
Indices: 29379--29460 Score: 121
Period size: 15 Copynumber: 5.5 Consensus size: 15
29369 TTCCAGAAAA
29379 TGAATTACTGGAATT
1 TGAATTACTGGAATT
29394 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
29409 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
29424 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
29439 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
29453 TGAATTAC
1 TGAATTAC
29461 ATTTCTGTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:29413 original size:30 final size:30
Alignment explanation
Indices: 29379--29460 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
29369 TTCCAGAAAA
**
29379 TGAATTACTGGAATTTGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
29409 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
29439 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
29461 ATTTCTGTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.32
30 34 0.68
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:29427 original size:45 final size:44
Alignment explanation
Indices: 29374--29460 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 44
29364 TGGTTTTCCA
**
29374 GAAAATGAATTACTGGAATTTGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACTG
29419 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
29461 ATTTCTGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (44 bp):
GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACTG
Found at i:29466 original size:20 final size:20
Alignment explanation
Indices: 29443--29512 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
29433 GGAATTTGAA
29443 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
29463 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
29483 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
29503 TTATGGAAAA
1 TTCTGGAAAA
29513 CGTTTTATGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:29709 original size:28 final size:28
Alignment explanation
Indices: 29668--29768 Score: 93
Period size: 28 Copynumber: 3.5 Consensus size: 28
29658 TTTACTAAAA
*
29668 TATTATTGAAATATATAAATAATA-TTAT
1 TATTATT-AAATATATAAATAAAATTTAT
29696 TCATTATTAAATATATAAA-AAAATTTAT
1 T-ATTATTAAATATATAAATAAAATTTAT
*
29724 TATATATTAAA-ATAAAAATATAATATCTTA-
1 TAT-TATTAAATATATAAATA-AA-AT-TTAT
29754 TATTATTATAATATA
1 TATTATTA-AATATA
29769 ATTGATTATT
Statistics
Matches: 62, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
27 11 0.18
28 25 0.40
29 13 0.21
30 7 0.11
31 6 0.10
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (28 bp):
TATTATTAAATATATAAATAAAATTTAT
Found at i:29807 original size:22 final size:23
Alignment explanation
Indices: 29782--29825 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
29772 GATTATTTTA
29782 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
29804 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
29826 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:29830 original size:22 final size:22
Alignment explanation
Indices: 29787--29830 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
29777 TTTTATATAA
*
29787 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
29809 TATTATAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
29831 ATTTTTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:30095 original size:42 final size:42
Alignment explanation
Indices: 30031--30146 Score: 214
Period size: 42 Copynumber: 2.8 Consensus size: 42
30021 ATGAATTACA
*
30031 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
30073 TTCCAGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
30115 TTCCGGAAAACGAATTACGTGAAACAAACACG
1 TTCCGGAAAACGAATTACGTGAAACAAACACG
30147 AGAATTCGGG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.45, C:0.20, G:0.19, T:0.16
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:31073 original size:13 final size:13
Alignment explanation
Indices: 31057--31087 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
31047 ATTCGAAATA
31057 AAAAGAGGAAAAC
1 AAAAGAGGAAAAC
*
31070 AAAAGAGGAAAAG
1 AAAAGAGGAAAAC
31083 AAAAG
1 AAAAG
31088 TTCTCACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (13 bp):
AAAAGAGGAAAAC
Found at i:37388 original size:38 final size:38
Alignment explanation
Indices: 37346--37438 Score: 116
Period size: 38 Copynumber: 2.4 Consensus size: 38
37336 TTTATTATGC
* * * *
37346 TCATTTTTCTAGAAACCTTAA-TTTAGTCTTTCTTAAGA
1 TCATTTCTCTAGAAACCTCAACCTT-GTCTTTCATAAGA
*
37384 TCATTTCCCTAGAAACCTCAACCTTGTCTTTCATAAGA
1 TCATTTCTCTAGAAACCTCAACCTTGTCTTTCATAAGA
*
37422 TTATTTCTCTAGAAACC
1 TCATTTCTCTAGAAACC
37439 AACTTTATCT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 45 0.96
39 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.41
Consensus pattern (38 bp):
TCATTTCTCTAGAAACCTCAACCTTGTCTTTCATAAGA
Found at i:37974 original size:131 final size:132
Alignment explanation
Indices: 37791--38132 Score: 327
Period size: 131 Copynumber: 2.6 Consensus size: 132
37781 AGCCTATTCC
* * * * * *
37791 TTTTTCTATATTTGATCTTCTCTAAAGAGTAGTGAAGCAAATCTACCTTGATTCAATCTTTCCTG
1 TTTTTCCAGATTTGATCTTCTCTAAAGAGTAGTGAAGAAAATCTACCCTGATTCAATCTTCCCTA
* * * * *
37856 AAGAATAGTGAAGTGAATCAGAGGTTCCAGATCTGATATACCCTAGAACACAACGGAGTAGATCA
66 AAGAACACTGAAGTAAATCAAAGGTTACAGATCTGATATACCCTAGAACACAACGGAGTAGATCA
37921 TT
131 TT
* * *
37923 TTTTTCCAGATTTGATCTTCTTTGAAGAG-AGTGAAGAAAATCTACCCTGATTTAATCTTCCCTA
1 TTTTTCCAGATTTGATCTTCTCTAAAGAGTAGTGAAGAAAATCTACCCTGATTCAATCTTCCCTA
* * * * * * *
37987 AAGAGCACTGAAGTAAATCAAAGTTTACAGATCTGATCTACCCT-G----GAACGCAGTTGAGCA
66 AAGAACACTGAAGTAAATCAAAGGTTACAGATCTGATATACCCTAGAACACAACGGAGTAGATCA
38047 TT
131 TT
** * * * * * ** * *
38049 TTTTTTAAGATTTGATATTCTCTAAAGCGCAGTGAAGCAAATATACCCCAATTCAATCTTCTCTG
1 TTTTTCCAGATTTGATCTTCTCTAAAGAGTAGTGAAGAAAATCTACCCTGATTCAATCTTCCCTA
* * *
38114 AAGAGCATTGAAGAAAATC
66 AAGAACACTGAAGTAAATC
38133 TACCCTGATT
Statistics
Matches: 173, Mismatches: 36, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
126 36 0.21
127 45 0.26
130 1 0.01
131 66 0.38
132 25 0.14
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (132 bp):
TTTTTCCAGATTTGATCTTCTCTAAAGAGTAGTGAAGAAAATCTACCCTGATTCAATCTTCCCTA
AAGAACACTGAAGTAAATCAAAGGTTACAGATCTGATATACCCTAGAACACAACGGAGTAGATCA
TT
Found at i:38111 original size:41 final size:41
Alignment explanation
Indices: 38066--38172 Score: 106
Period size: 41 Copynumber: 2.6 Consensus size: 41
38056 AGATTTGATA
* *
38066 TTCTCTAAAGCGCAGTGAAGCAAATATACCCCAATTCAATC
1 TTCTCTAAAGAGCAGTGAAGAAAATATACCCCAATTCAATC
* * * **
38107 TTCTCTGAAGAGCATTGAAGAAAATCTACCCTGATTCAATC
1 TTCTCTAAAGAGCAGTGAAGAAAATATACCCCAATTCAATC
* * * * *
38148 TTATCTGAAGAACAATGAAGTAAAT
1 TTCTCTAAAGAGCAGTGAAGAAAAT
38173 CAAAGTTTCT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (41 bp):
TTCTCTAAAGAGCAGTGAAGAAAATATACCCCAATTCAATC
Found at i:38173 original size:41 final size:41
Alignment explanation
Indices: 38081--38173 Score: 114
Period size: 41 Copynumber: 2.3 Consensus size: 41
38071 TAAAGCGCAG
* * * * *
38081 TGAAGCAAATATACCCCAATTCAATCTTCTCTGAAGAGCAT
1 TGAAGAAAATCTACCCCAATTCAATCTTATCTGAAGAACAA
**
38122 TGAAGAAAATCTACCCTGATTCAATCTTATCTGAAGAACAA
1 TGAAGAAAATCTACCCCAATTCAATCTTATCTGAAGAACAA
*
38163 TGAAGTAAATC
1 TGAAGAAAATC
38174 AAAGTTTCTA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (41 bp):
TGAAGAAAATCTACCCCAATTCAATCTTATCTGAAGAACAA
Found at i:38538 original size:41 final size:41
Alignment explanation
Indices: 38487--38564 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
38477 ACTTTTTTCA
* * *
38487 GATTTGATCTTCTCTGAAGAACAGTGAATTAAATCAACCCC
1 GATTTAATCTTCCCTGAAGAACAGTGAAGTAAATCAACCCC
* * *
38528 GATTTAATCTTCCCTGAATAGCAGTGAAGTGAATCAA
1 GATTTAATCTTCCCTGAAGAACAGTGAAGTAAATCAA
38565 AGTCTCCAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (41 bp):
GATTTAATCTTCCCTGAAGAACAGTGAAGTAAATCAACCCC
Found at i:38545 original size:130 final size:130
Alignment explanation
Indices: 38104--38960 Score: 585
Period size: 131 Copynumber: 6.6 Consensus size: 130
38094 CCCCAATTCA
* * * * * ** *
38104 ATCTTCTCTGAAGAGCATTGAAGAAAATCTACCCTGATTCAATCTTATCTGAAGAACAATGAAGT
1 ATCTTCTCTGAAGAACAGTGAAGCAAATCAACCCCGATTCAATCTTCCCTGAAGAACAGTGAAGT
* * * ** * * * * * ** *
38169 AAATCAAAGT-TTCTAGATCTGATATACTTTGGAACGCGA-AGTAGAT-CCCTTTTTTCATATTT
66 GAATCAAAGTCTTC-AAATCTGATCTACCCTAGAAAGCAACAGAACATATACTTTTTTCAGATTT
38231 G
130 G
* * * * *
38232 ATCTTCTATGAAGAATAGTGAAGCAAATCTACCCCGATTCAATCTTCCCTGAGGAACAGTAAAGT
1 ATCTTCTCTGAAGAACAGTGAAGCAAATCAACCCCGATTCAATCTTCCCTGAAGAACAGTGAAGT
* * * * * * *
38297 GAATCAAAGTTTTCATAA-ATGATCTACCCTAGAACGCAGCAGAGCAAATCCCTTTTTAT-AGAT
66 GAATCAAAGTCTTCA-AATCTGATCTACCCTAGAAAGCAACAGAACATAT-ACTTTTT-TCAGAT
38360 TTG
128 TTG
** ** *
38363 ATCTT-TCCTGAAGAGTAGTGAAGCAAATCAACCTTGATTCAATCTTCCCTGAAGAAAAGTGAAG
1 ATCTTCT-CTGAAGAACAGTGAAGCAAATCAACCCCGATTCAATCTTCCCTGAAGAACAGTGAAG
* * *
38427 TGAATCAAACTTTTCAAATCTGATCTACCCTAGAAAGCAACATAACATATACTTTTTTCAGATTT
65 TGAATCAAAGTCTTCAAATCTGATCTACCCTAGAAAGCAACAGAACATATACTTTTTTCAGATTT
38492 G
130 G
** * * *
38493 ATCTTCTCTGAAGAACAGTGAATTAAATCAACCCCGATTTAATCTTCCCTGAATAGCAGTGAAGT
1 ATCTTCTCTGAAGAACAGTGAAGCAAATCAACCCCGATTCAATCTTCCCTGAAGAACAGTGAAGT
* * * * * * * * *
38558 GAATCAAAGTCTCCAGATCTGGTTTGCCTTGGAACA-CAACAG-A-GTATATTTTTTTCTTAGAT
66 GAATCAAAGTCTTCAAATCTGATCTACCCTAGAA-AGCAACAGAACATATACTTTTTTC--AGAT
38620 TTG
128 TTG
* * * * ** * * * *
38623 ATTTTCTATAAACAACAGTGAAGCAAATCAACCATGATTTAATCTTCCATGAAGAGCATTGAAGT
1 ATCTTCTCTGAAGAACAGTGAAGCAAATCAACCCCGATTCAATCTTCCCTGAAGAACAGTGAAGT
* * * * * ** ** *
38688 GAATCAAAGTCTCCTTAA-CTAATCTA-TCTTGAAACGCAATGGTGCATAT-CTTTTTTCTCATA
66 GAATCAAAGTCTTC-AAATCTGATCTACCCTAGAAA-GCAACAGAACATATAC-TTTTT-TCAGA
38750 TTTG
127 TTTG
* * * * * * *
38754 ATCTTCCCTGAAGATCGGTGAAGCAAATCAACCCCGATTTAATCTTCACTAAAGAGCAGTGAAAG
1 ATCTTCTCTGAAGAACAGTGAAGCAAATCAACCCCGATTCAATCTTCCCTGAAGAACAGTG-AAG
* * * * * * * * *
38819 T-AATCAAAGTCTTCAGATCTGATCTA-CTTTGTAATGTAGCAGAGA-AAATCCCATTTTTTCAT
65 TGAATCAAAGTCTTCAAATCTGATCTACCCTAG-AAAGCAACAGA-ACATAT-AC-TTTTTTCAG
38881 ATTTG
126 ATTTG
* * * *
38886 ATCTTC-CTTGAAGAATAGCGAAGCAAATCAACCCCGATTCAATCTTCCCTAAAGAAAAGTGAAG
1 ATCTTCTC-TGAAGAACAGTGAAGCAAATCAACCCCGATTCAATCTTCCCTGAAGAACAGTGAAG
38950 TGAATCAAAGT
65 TGAATCAAAGT
38961 GTCCAGATCT
Statistics
Matches: 575, Mismatches: 126, Indels: 52
0.76 0.17 0.07
Matches are distributed among these distances:
128 90 0.16
129 13 0.02
130 183 0.32
131 197 0.34
132 84 0.15
133 8 0.01
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (130 bp):
ATCTTCTCTGAAGAACAGTGAAGCAAATCAACCCCGATTCAATCTTCCCTGAAGAACAGTGAAGT
GAATCAAAGTCTTCAAATCTGATCTACCCTAGAAAGCAACAGAACATATACTTTTTTCAGATTTG
Found at i:39340 original size:3 final size:3
Alignment explanation
Indices: 39334--39392 Score: 95
Period size: 3 Copynumber: 20.3 Consensus size: 3
39324 TCTTTTGTTG
*
39334 TTA TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
39381 TTA TTA -TA TTA T
1 TTA TTA TTA TTA T
39393 ATGCCCTTAC
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 4 0.08
3 48 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:44257 original size:20 final size:20
Alignment explanation
Indices: 44232--44284 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
44222 GATTTTCCAG
* *
44232 AATCGCAATGCGAATATGA-A
1 AATCGCAACGCGAACAT-ATA
44252 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAACATATA
44272 AATCGCAACGCGA
1 AATCGCAACGCGA
44285 TTCTGACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.43, C:0.23, G:0.19, T:0.15
Consensus pattern (20 bp):
AATCGCAACGCGAACATATA
Found at i:44337 original size:20 final size:20
Alignment explanation
Indices: 44293--44497 Score: 198
Period size: 20 Copynumber: 10.1 Consensus size: 20
44283 GATTCTGACT
*
44293 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGT-AA
44314 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
44334 ATCGCAATGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
44355 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
** * *
44375 ATCGCAACTAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
*
44395 ATCGCAACGCGTATCTGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
44415 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
* *
44435 ATCGCAATGCATATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
44455 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
*
44476 ATCGCAACGCGTATCCATAA
1 ATCGCAACGCGTATCCGTAA
44496 AT
1 AT
44498 TTCAACGTGA
Statistics
Matches: 147, Mismatches: 31, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
20 98 0.67
21 49 0.33
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:44408 original size:40 final size:41
Alignment explanation
Indices: 44293--44497 Score: 306
Period size: 40 Copynumber: 5.0 Consensus size: 41
44283 GATTCTGACT
* *
44293 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
44334 ATCGCAATGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
44375 ATCGCAACTAGAATACGT-AAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
44415 ATCGCAACGAGAATACGT-AAATCGCAATGCATATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
44455 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCATAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
44496 AT
1 AT
44498 TTCAACGTGA
Statistics
Matches: 147, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 74 0.50
41 73 0.50
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:45128 original size:21 final size:21
Alignment explanation
Indices: 45067--45145 Score: 85
Period size: 20 Copynumber: 3.9 Consensus size: 21
45057 TTCTAAACTT
45067 AAAATCGCAAC-ATGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
*
45087 AAATTCGCAAC-ACGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
**
45107 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGAGAAATG
45128 AAAATCGCAACGAGAGAA
1 AAAATCGCAACGAGAGAA
45146 TCGCAACGCG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
20 28 0.56
21 22 0.44
ACGTcount: A:0.51, C:0.18, G:0.19, T:0.13
Consensus pattern (21 bp):
AAAATCGCAACGAGAGAAATG
Found at i:45149 original size:14 final size:14
Alignment explanation
Indices: 45127--45191 Score: 58
Period size: 14 Copynumber: 4.3 Consensus size: 14
45117 CGAGAGAAAT
45127 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
45141 GAGAATCGCAACGCGAAA
1 GAAAATCGCAA--CG--A
45159 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
* *
45174 GATAATCGCAACGC
1 GAAAATCGCAACGA
45188 GAAA
1 GAAA
45192 CCAAAATCGC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
14 25 0.61
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 10 0.24
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.09
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:45163 original size:33 final size:33
Alignment explanation
Indices: 45122--45202 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
45112 CGCAACGAGA
45122 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
45155 GAAATGAAAATCGCAACGAGATAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
45188 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
45203 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:45220 original size:19 final size:19
Alignment explanation
Indices: 45198--45281 Score: 97
Period size: 19 Copynumber: 4.7 Consensus size: 19
45188 GAAACCAAAA
*
45198 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
45217 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
45231 TCTCGTTGTGATTTTAATT
1 TCGCGTTGCGATTTTCATT
45250 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
45269 TCGCGTTGCGATT
1 TCGCGTTGCGATT
45282 CTCTCGTTGC
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
14 9 0.17
16 2 0.04
17 3 0.06
19 39 0.74
ACGTcount: A:0.12, C:0.20, G:0.21, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:45303 original size:52 final size:52
Alignment explanation
Indices: 45198--45335 Score: 177
Period size: 52 Copynumber: 2.6 Consensus size: 52
45188 GAAACCAAAA
* **
45198 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGTGATTTTAATT
1 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTAATT
* *
45250 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
1 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTAATT
* ** *
45302 TCCCCATTGCGATAGTCATTCTCTCGTTGCGATT
1 T-CGCATTGCGATTTTCATT-TCGCGTTGCGATT
45336 TTCATTTCAA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
52 48 0.65
53 14 0.19
54 12 0.16
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTAATT
Found at i:45331 original size:20 final size:20
Alignment explanation
Indices: 45279--45334 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
45269 TCGCGTTGCG
45279 ATTCTCTCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATAGTC
* *
45299 ATT-TCCCCATTGCGATAGTC
1 ATTCT-CTCGTTGCGATAGTC
45319 ATTCTCTCGTTGCGAT
1 ATTCTCTCGTTGCGAT
45335 TTTCATTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.16, C:0.27, G:0.18, T:0.39
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATAGTC
Found at i:45340 original size:20 final size:19
Alignment explanation
Indices: 45203--45343 Score: 95
Period size: 19 Copynumber: 7.8 Consensus size: 19
45193 CAAAATCGCA
*
45203 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCTCG
45222 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCTCG
* * *
45236 TTGTGATTTTAATTTCGCG
1 TTGCGATTTTCATTTCTCG
*
45255 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCTCG
45274 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCTCG
** * *
45288 TTGCGATAGTCATTTCCCCA
1 TTGCGATTTTCATTT-CTCG
**
45308 TTGCGATAGTCATTCTCTCG
1 TTGCGATTTTCATT-TCTCG
45328 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
45344 AACCAAAAGA
Statistics
Matches: 96, Mismatches: 14, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
14 19 0.20
16 4 0.04
17 6 0.06
19 36 0.38
20 30 0.31
21 1 0.01
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCTCG
Found at i:47193 original size:94 final size:94
Alignment explanation
Indices: 47032--47410 Score: 620
Period size: 94 Copynumber: 4.1 Consensus size: 94
47022 TAGATTGCTT
* * * *
47032 AGTAAATTTATTCGGTTGCTGCCAATACTGGTAAATTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
47097 ATTTGTCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
47126 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
47191 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * *
47220 ATTAAATTTGTTCGGTTGCTTCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
47285 ATTTGTCTTTGTTTTTTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * *
47314 AGTAAATTTGTTCGGTTACTGCC-ATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
47378 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
47406 AGTAA
1 AGTAA
47411 TGCAATCCAT
Statistics
Matches: 270, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
92 6 0.02
93 85 0.31
94 179 0.66
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.48
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:47520 original size:17 final size:17
Alignment explanation
Indices: 47498--47532 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47488 AAAAATGACT
**
47498 ATCGCAACTCGAAATGA
1 ATCGCAACGAGAAATGA
47515 ATCGCAACGAGAAATGA
1 ATCGCAACGAGAAATGA
47532 A
1 A
47533 AATCGCAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (17 bp):
ATCGCAACGAGAAATGA
Found at i:47538 original size:19 final size:19
Alignment explanation
Indices: 47474--47562 Score: 65
Period size: 19 Copynumber: 4.7 Consensus size: 19
47464 CACGAAACTT
*
47474 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAAC--GAGAAATG
** **
47495 ACTATCGCAACTCGAAATG
1 AAAATCGCAACGAGAAATG
47514 --AATCGCAACGAGAAATG
1 AAAATCGCAACGAGAAATG
* * **
47531 AAAATCGCAATGCGAAACC
1 AAAATCGCAACGAGAAATG
47550 AAAATCGCAACGA
1 AAAATCGCAACGA
47563 CAAAATCGCA
Statistics
Matches: 52, Mismatches: 14, Indels: 6
0.72 0.19 0.08
Matches are distributed among these distances:
17 14 0.27
19 29 0.56
21 9 0.17
ACGTcount: A:0.47, C:0.21, G:0.18, T:0.13
Consensus pattern (19 bp):
AAAATCGCAACGAGAAATG
Found at i:47566 original size:14 final size:14
Alignment explanation
Indices: 47549--47575 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47539 AATGCGAAAC
47549 CAAAATCGCAACGA
1 CAAAATCGCAACGA
47563 CAAAATCGCAACG
1 CAAAATCGCAACG
47576 CGAAACCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (14 bp):
CAAAATCGCAACGA
Found at i:47573 original size:33 final size:33
Alignment explanation
Indices: 47531--47594 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
47521 ACGAGAAATG
*
47531 AAAATCGCAATGCGAAACCAAAATCGCAACGAC
1 AAAATCGCAACGCGAAACCAAAATCGCAACGAC
47564 AAAATCGCAACGCGAAACCAAAATCGCAACG
1 AAAATCGCAACGCGAAACCAAAATCGCAACG
47595 CGAAACTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.48, C:0.28, G:0.16, T:0.08
Consensus pattern (33 bp):
AAAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:47608 original size:19 final size:19
Alignment explanation
Indices: 47514--47600 Score: 103
Period size: 19 Copynumber: 4.8 Consensus size: 19
47504 ACTCGAAATG
* **
47514 AATCGCAACGAGAAATGAA
1 AATCGCAACGCGAAACCAA
*
47533 AATCGCAATGCGAAACCAA
1 AATCGCAACGCGAAACCAA
47552 AATCGCAA--CG--A-CAA
1 AATCGCAACGCGAAACCAA
47566 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
47585 AATCGCAACGCGAAAC
1 AATCGCAACGCGAAAC
47601 TATAATCGTG
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
14 11 0.19
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 42 0.71
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.08
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:47696 original size:20 final size:20
Alignment explanation
Indices: 47644--47710 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
47634 GATTCTCTCG
** *
47644 TTGCGATAGTCAAATTCTCA
1 TTGCGATAGTCATTTTCGCA
47664 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
47684 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
47704 TTGCGAT
1 TTGCGAT
47711 TTTAAGTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:49601 original size:14 final size:14
Alignment explanation
Indices: 49582--49617 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
49572 ATTGTTTAAT
49582 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
49596 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
49610 TGATTTGT
1 TGATTTGT
49618 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:49769 original size:33 final size:33
Alignment explanation
Indices: 49719--49797 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
49709 AAAACAGACT
* **
49719 ATCGCAACGCGGAAATGACTATCACAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCACAACGAGAGA
* *
49753 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
*
49786 ATCGCATTGCGA
1 ATCGCAATGCGA
49798 TTTTCATTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 30 0.77
34 9 0.23
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCACAACGAGAGA
Found at i:49874 original size:33 final size:34
Alignment explanation
Indices: 49832--49900 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 34
49822 TGTTTTGCTG
* *
49832 CGAGAGAATCGCAATGCG-AAATGAAAATCGCAA
1 CGAGAGAATCGCAATGCGAAAATAAAAATCACAA
*
49865 CGAGTGAATCGCAATGCGAAAATAAAAATCACAA
1 CGAGAGAATCGCAATGCGAAAATAAAAATCACAA
49899 CG
1 CG
49901 CGAAACCAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 17 0.53
34 15 0.47
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (34 bp):
CGAGAGAATCGCAATGCGAAAATAAAAATCACAA
Found at i:50024 original size:53 final size:52
Alignment explanation
Indices: 49909--50128 Score: 181
Period size: 60 Copynumber: 4.0 Consensus size: 52
49899 CGCGAAACCA
* **
49909 ATTTCGCGTTGCGATTTTCATTTTCGCATTGTGATTCACTCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTCA-TTTCGCATTGCGATTCACTCGTTGCGATAGTC
* * *
49962 ATTTCGCGTTGTGATTTTCATTTCGCATTGCGATTCTCTCGTTGTGATAGTC
1 ATTTCGCGTTGCGATTTTCATTTCGCATTGCGATTCACTCGTTGCGATAGTC
** * *
50014 ATTTCTGCGTTGCGATAGTCAATTTCGCGTTGCGATAGTCAATTCCGCATTGCGATAGTC
1 ATTTC-GCGTTGCGATTTTC-ATTTCGCATTGCGAT--TC-ACT-CG--TTGCGATAGTC
* ** * * *
50074 ATTTCCGTGTTGCGATAGTCATATCCGCGTTGCGATTTC-CGCGTTGCGATAGTC
1 ATTT-CGCGTTGCGATTTTCAT-TTCGCATTGCGA-TTCACTCGTTGCGATAGTC
50128 A
1 A
50129 AATGAATGTC
Statistics
Matches: 139, Mismatches: 17, Indels: 21
0.79 0.10 0.12
Matches are distributed among these distances:
52 32 0.23
53 30 0.22
54 26 0.19
56 4 0.03
57 1 0.01
58 2 0.01
59 4 0.03
60 38 0.27
61 2 0.01
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.40
Consensus pattern (52 bp):
ATTTCGCGTTGCGATTTTCATTTCGCATTGCGATTCACTCGTTGCGATAGTC
Found at i:50030 original size:20 final size:20
Alignment explanation
Indices: 50001--50109 Score: 148
Period size: 20 Copynumber: 5.5 Consensus size: 20
49991 GCGATTCTCT
* *
50001 CGTTGTGATAGTCATTTCTG
1 CGTTGCGATAGTCATTTCCG
50021 CGTTGCGATAGTCAATTT-CG
1 CGTTGCGATAGTC-ATTTCCG
*
50041 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
50061 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
50081 TGTTGCGATAGTCATATCCG
1 CGTTGCGATAGTCATTTCCG
50101 CGTTGCGAT
1 CGTTGCGAT
50110 TTCCGCGTTG
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
19 3 0.04
20 71 0.91
21 4 0.05
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:50116 original size:14 final size:14
Alignment explanation
Indices: 50097--50123 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50087 GATAGTCATA
50097 TCCGCGTTGCGATT
1 TCCGCGTTGCGATT
50111 TCCGCGTTGCGAT
1 TCCGCGTTGCGAT
50124 AGTCAAATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.30, G:0.30, T:0.33
Consensus pattern (14 bp):
TCCGCGTTGCGATT
Found at i:53500 original size:20 final size:20
Alignment explanation
Indices: 53475--53648 Score: 186
Period size: 20 Copynumber: 8.6 Consensus size: 20
53465 TTATCGATCG
*
53475 CGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACT
* **
53495 CGTTGCGATTTTACGTATTGT
1 CGTTGCGA-TTTACGGATACT
* *
53516 CATTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACT
* * *
53536 CATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACT
* *
53556 CGTTGCGATTTACAGATACG
1 CGTTGCGATTTACGGATACT
** *
53576 CGTTGCGATTTACATATTCT
1 CGTTGCGATTTACGGATACT
*
53596 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACT
*
53616 CGTTGCGATTTTATGGATACT
1 CGTTGCGA-TTTACGGATACT
53637 CGTTGCGATTTA
1 CGTTGCGATTTA
53649 TATGTTCGCG
Statistics
Matches: 126, Mismatches: 26, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
20 93 0.74
21 33 0.26
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACT
Found at i:53522 original size:60 final size:60
Alignment explanation
Indices: 53470--53667 Score: 186
Period size: 61 Copynumber: 3.3 Consensus size: 60
53460 GCGAATTATC
* *
53470 GATCGCGTTGCGATTTACGGATACACGTTGCGATTTTAC-G-TATTGTCATTGCGATTTACG
1 GATCGCGTTGCGATTTACGGATACACGTTGCGATTTTACAGATA-CG-CATTGCGATTTACA
* * * * *
53530 GATACGCATTGCGATTTACGTATTCTCGTTGCGA-TTTACAGATACGCGTTGCGATTTACA
1 GAT-CGCGTTGCGATTTACGGATACACGTTGCGATTTTACAGATACGCATTGCGATTTACA
* * * ** * * *
53590 TATTCTCGTTGCGATTTACGGATACGCGTTGCGATTTTATGGATACTCGTTGCGATTTATA
1 GA-TCGCGTTGCGATTTACGGATACACGTTGCGATTTTACAGATACGCATTGCGATTTACA
*
53651 TGTTCGCGTTGCGATTT
1 -GATCGCGTTGCGATTT
53668 TCATATTAGC
Statistics
Matches: 112, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
60 46 0.41
61 64 0.57
62 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (60 bp):
GATCGCGTTGCGATTTACGGATACACGTTGCGATTTTACAGATACGCATTGCGATTTACA
Found at i:53562 original size:40 final size:41
Alignment explanation
Indices: 53475--53648 Score: 253
Period size: 40 Copynumber: 4.3 Consensus size: 41
53465 TTATCGATCG
* *
53475 CGTTGCGATTTACGGATACACGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
53516 CATTGCGATTTACGGATACGCATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
53556 CGTTGCGATTTACAGATACGCGTTGCGA-TTTACATATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* * *
53596 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
53637 CGTTGCGATTTA
1 CGTTGCGATTTA
53649 TATGTTCGCG
Statistics
Matches: 119, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 74 0.62
41 45 0.38
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
Found at i:53659 original size:81 final size:80
Alignment explanation
Indices: 53475--53686 Score: 264
Period size: 81 Copynumber: 2.6 Consensus size: 80
53465 TTATCGATCG
* * * * *
53475 CGTTGCGATTTACGGATACACGTTGCGATTTTACGTATTGTCATTGCGATTTACGGATACGCATT
1 CGTTGCGATTTACAGATACGCGTTGCGA-TTTACATATTATCGTTGCGATTTACGGATACGCATT
* *
53540 GCGATTTACGTATTCT
65 GCGATTTACGGATACT
* *
53556 CGTTGCGATTTACAGATACGCGTTGCGATTTACATATTCTCGTTGCGATTTACGGATACGCGTTG
1 CGTTGCGATTTACAGATACGCGTTGCGATTTACATATTATCGTTGCGATTTACGGATACGCATTG
*
53621 CGATTTTATGGATACT
66 CGA-TTTACGGATACT
* * * *
53637 CGTTGCGATTTATATG-TTCGCGTTGCGATTTTCATATTAGCGTTGCGATT
1 CGTTGCGATTTACA-GATACGCGTTGCGATTTACATATTATCGTTGCGATT
53687 CTGGAAAATC
Statistics
Matches: 115, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
80 36 0.31
81 78 0.68
82 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (80 bp):
CGTTGCGATTTACAGATACGCGTTGCGATTTACATATTATCGTTGCGATTTACGGATACGCATTG
CGATTTACGGATACT
Found at i:53679 original size:20 final size:20
Alignment explanation
Indices: 53473--53686 Score: 155
Period size: 20 Copynumber: 10.6 Consensus size: 20
53463 AATTATCGAT
**
53473 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACATATA
* *
53493 CACGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACATATA
* * **
53513 TGTCATTGCGATTTACGGATA
1 CG-CGTTGCGATTTACATATA
* * *
53534 CGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTACATATA
* *
53554 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACATATA
*
53574 CGCGTTGCGATTTACATATT
1 CGCGTTGCGATTTACATATA
* **
53594 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACATATA
*
53614 CGCGTTGCGATTT-TATGGATA
1 CGCGTTGCGATTTACAT--ATA
* * * *
53635 CTCGTTGCGATTTATATGTT
1 CGCGTTGCGATTTACATATA
*
53655 CGCGTTGCGATTTTCATATTA
1 CGCGTTGCGATTTACATA-TA
53676 -GCGTTGCGATT
1 CGCGTTGCGATT
53687 CTGGAAAATC
Statistics
Matches: 154, Mismatches: 33, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
20 119 0.77
21 32 0.21
22 3 0.02
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (20 bp):
CGCGTTGCGATTTACATATA
Found at i:53785 original size:20 final size:19
Alignment explanation
Indices: 53736--53789 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
53726 ATTCTTCATA
53736 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
53755 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
53776 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
53790 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:56345 original size:3 final size:3
Alignment explanation
Indices: 56337--56362 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
56327 GTCCGGACCG
56337 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
56363 TATTTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:56377 original size:9 final size:10
Alignment explanation
Indices: 56337--56380 Score: 53
Period size: 9 Copynumber: 4.9 Consensus size: 10
56327 GTCCGGACCG
56337 TTATTA-TTA
1 TTATTATTTA
56346 TTATTA-TTA
1 TTATTATTTA
56355 TTATTATTTA
1 TTATTATTTA
56365 -T-TTATTTA
1 TTATTATTTA
56373 TT-TTATTT
1 TTATTATTT
56381 CTTACATGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 7 0.21
9 23 0.70
10 3 0.09
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTATTATTTA
Found at i:63602 original size:20 final size:20
Alignment explanation
Indices: 63579--63632 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
63569 AAAAAGAGAG
63579 AAAAGAAAAGAAAATA-ATATA
1 AAAAGAAAAGAAAA-ACATA-A
63600 AAAAG-AAAGATAAAACATAA
1 AAAAGAAAAGA-AAAACATAA
63620 AAAAG-AAAGAAAA
1 AAAAGAAAAGAAAA
63633 GAGAAAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.10
20 17 0.55
21 11 0.35
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (20 bp):
AAAAGAAAAGAAAAACATAA
Found at i:63639 original size:16 final size:15
Alignment explanation
Indices: 63620--63722 Score: 70
Period size: 15 Copynumber: 6.8 Consensus size: 15
63610 TAAAACATAA
63620 AAAAGA-AAGAAAAGAG
1 AAAAGAGAA-AAAA-AG
* *
63636 AAAAGATAGAAAAAG
1 AAAAGAGAAAAAAAG
* *
63651 AAAATAGAAAAGATAG
1 AAAAGAGAAAA-AAAG
*
63667 AAAAAAG-AAAAAAG
1 AAAAGAGAAAAAAAG
*
63681 AAAAAAGAAAAAAGAG
1 AAAAGAGAAAAAA-AG
*
63697 AAAAG-GAAAAAGAGG
1 AAAAGAGAAAAA-AAG
63712 AAAA-AGAAAAA
1 AAAAGAGAAAAA
63723 TGAGAAAGAA
Statistics
Matches: 72, Mismatches: 9, Indels: 13
0.77 0.10 0.14
Matches are distributed among these distances:
14 10 0.14
15 35 0.49
16 26 0.36
17 1 0.01
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (15 bp):
AAAAGAGAAAAAAAG
Found at i:63674 original size:45 final size:44
Alignment explanation
Indices: 63579--63692 Score: 119
Period size: 45 Copynumber: 2.6 Consensus size: 44
63569 AAAAAGAGAG
*
63579 AAAAGAAAAGA-AAATAATATAAAAAGAAAGATAAAACATAAAAA
1 AAAAGAAAAGAGAAA-AATAGAAAAAGAAAGATAAAACATAAAAA
* *
63623 AGAAAGAAAAGAGAAAAGATAGAAAAAGAAA-ATAGAAA-AGATAGAA
1 A-AAAGAAAAGAGAAAA-ATAGAAAAAGAAAGATA-AAACATA-AAAA
*
63669 AAAAGAAAAAAGAAAAA-AGAAAAA
1 AAAAGAAAAGAGAAAAATAGAAAAA
63693 AGAGAAAAGG
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
43 7 0.11
44 2 0.03
45 30 0.49
46 22 0.36
ACGTcount: A:0.77, C:0.01, G:0.15, T:0.07
Consensus pattern (44 bp):
AAAAGAAAAGAGAAAAATAGAAAAAGAAAGATAAAACATAAAAA
Found at i:63676 original size:38 final size:37
Alignment explanation
Indices: 63577--63722 Score: 118
Period size: 37 Copynumber: 3.8 Consensus size: 37
63567 TAAAAAAGAG
* *
63577 AGAAAAGAAAAGAAAATAATATAAAAAGAAAGATAA-AACAT
1 AGAAAAG-AAAGAAAA-AAGA-AAAAAGAAA-A-AAGAAAAT
* *
63618 AAAAAAGAAAGAAAAGAGAAAAGATAG-AAAAAGAAAAT
1 AGAAAAGAAAGAAAAAAGAAAA-A-AGAAAAAAGAAAAT
* *
63656 AGAAAAGATAGAAAAAAGAAAAAAGAAAAAAGAAAAA
1 AGAAAAGAAAGAAAAAAGAAAAAAGAAAAAAGAAAAT
* * *
63693 AGAGAA-AAGGAAAAAGAGGAAAAAGAAAAA
1 AGAAAAGAAAGAAAAA-AGAAAAAAGAAAAA
63723 TGAGAAAGAA
Statistics
Matches: 88, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
36 9 0.10
37 31 0.35
38 27 0.31
39 5 0.06
40 10 0.11
41 6 0.07
ACGTcount: A:0.76, C:0.01, G:0.18, T:0.05
Consensus pattern (37 bp):
AGAAAAGAAAGAAAAAAGAAAAAAGAAAAAAGAAAAT
Found at i:63716 original size:30 final size:29
Alignment explanation
Indices: 63619--63729 Score: 100
Period size: 30 Copynumber: 3.6 Consensus size: 29
63609 ATAAAACATA
63619 AAAAAGAAAGAAAAGAGAAAAGATAGAAAAAGA-
1 AAAAAG-AA-AAAAGAGAAAAG---GAAAAAGAG
* * *
63652 AAATAGAAAAGATAGAAAAAAGAAAAAAGA-
1 AAAAAGAAAA-A-AGAGAAAAGGAAAAAGAG
63682 AAAAAGAAAAAAGAGAAAAGGAAAAAGAGG
1 AAAAAGAAAAAAGAGAAAAGGAAAAAGA-G
*
63712 AAAAAGAAAAATGAGAAA
1 AAAAAGAAAAAAGAGAAA
63730 GAAAATAAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
28 15 0.22
29 1 0.01
30 33 0.49
31 2 0.03
32 3 0.04
33 13 0.19
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.04
Consensus pattern (29 bp):
AAAAAGAAAAAAGAGAAAAGGAAAAAGAG
Found at i:63722 original size:7 final size:7
Alignment explanation
Indices: 63625--63722 Score: 99
Period size: 7 Copynumber: 13.3 Consensus size: 7
63615 CATAAAAAAG
63625 AAAGAAA
1 AAAGAAA
*
63632 AGAGAAA
1 AAAGAAA
63639 AGATAG-AA
1 A-A-AGAAA
63647 AAAGAAA
1 AAAGAAA
*
63654 ATAGAAA
1 AAAGAAA
63661 AGATAGAAA
1 A-A-AGAAA
63670 AAAGAAA
1 AAAGAAA
63677 AAAGAAA
1 AAAGAAA
63684 AAAGAAA
1 AAAGAAA
63691 AAAGAGAA
1 AAAGA-AA
*
63699 AAGGAAA
1 AAAGAAA
*
63706 AAGAGGAA
1 AA-AGAAA
63714 AAAGAAA
1 AAAGAAA
63721 AA
1 AA
63723 TGAGAAAGAA
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
6 2 0.03
7 51 0.67
8 15 0.20
9 8 0.11
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (7 bp):
AAAGAAA
Found at i:67487 original size:134 final size:134
Alignment explanation
Indices: 67243--67950 Score: 617
Period size: 134 Copynumber: 5.3 Consensus size: 134
67233 AATCGAACTC
* * * * * * *
67243 GATTCAATCTTCCCTGAGGAACAGTGGAATGAATCAACATTTCC-AGATCTGATTTTCCCTAAAG
1 GATTCAATATTCCCTGAGGAACAGTAGAATGAATCAAC-GTCCCAATATCTAATTTTCCCTCAAG
* * * *
67307 AAGAAGCGGAACAGATCACTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGTTT
65 AAGAAGCGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCT
67372 GCCTCT
130 GCCT-T
* * * *
67378 -ATTCAATATTCCCTAAGGAACA-TCAGAATGAATCAATGTCCTAATATCTAATTTTCACTCAAG
1 GATTCAATATTCCCTGAGGAACAGT-AGAATGAATCAACGTCCCAATATCTAATTTTCCCTCAAG
* * * *
67441 AAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATATTCTCTGAGAAATAGTGGAACAAGTCT
65 AAGAAGCGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCT
* **
67506 ACCAC
130 GCCTT
* * * * *
67511 GATTCAATCTTCCCTGAGGAATAGTGGAATGAATCAACGTACCCAA-ATCTAATTTACCCTCATG
1 GATTCAATATTCCCTGAGGAACAGTAGAATGAATCAACGT-CCCAATATCTAATTTTCCCTCAAG
* * * * * * *
67575 AAGGAGCGGAACAAATCCTTCTCTTTTC-AGATTTTATATTCCTTGAGTAACAACT-GAATAAGT
65 AAGAAGCGGAACATATCCCTCTC-TTTCAAGATTTGATATTCCCTGAGTAAC-AGTGGAACAAGT
*
67638 TTGCCTT
128 CTGCCTT
* * * * * * *
67645 GATTTAATATTCCCTGAGCAACAGT-GAAATGAATCAACATCCCCATATTTGATTTTCCCTCAGG
1 GATTCAATATTCCCTGAGGAACAGTAG-AATGAATCAACGTCCCAATATCTAATTTTCCCTCAAG
* * * * * * * *
67709 AAGAAGCGAAATAGATCCC-CTTCTTTTC-AGATTTGATATTCTCTGAGTAACAGCGAAAAAAAT
65 AAGAAGCGGAACATATCCCTC-TC-TTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
67772 CTGCCTT
128 CTGCCTT
* * * * * * *
67779 GATTCAATCTTCCCTGAGTAACATTGGAATGAATCAACGTCCCCAGATCTAATTTTCCCTCAAAA
1 GATTCAATATTCCCTGAGGAACAGTAGAATGAATCAACGTCCCAATATCTAATTTTCCCTCAAGA
* * * * * * * *
67844 AGAAGTGGAACATATCTCTTTTTTTCAAGATTTGATATTCCCTAAGTGACAGTGGAACAAATCTA
66 AGAAGCGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTG
* *
67909 ACTC
131 CCTT
* * * *
67913 GATTGAATCTTCCCTAAAGAACAGT-GAAATGAATCAAC
1 GATTCAATATTCCCTGAGGAACAGTAG-AATGAATCAAC
67951 ATTTCTCGAT
Statistics
Matches: 459, Mismatches: 99, Indels: 31
0.78 0.17 0.05
Matches are distributed among these distances:
133 15 0.03
134 432 0.94
135 12 0.03
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.30
Consensus pattern (134 bp):
GATTCAATATTCCCTGAGGAACAGTAGAATGAATCAACGTCCCAATATCTAATTTTCCCTCAAGA
AGAAGCGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTG
CCTT
Found at i:67938 original size:268 final size:267
Alignment explanation
Indices: 67242--67952 Score: 765
Period size: 268 Copynumber: 2.7 Consensus size: 267
67232 AAATCGAACT
* ** *
67242 CGATTCAATCTTCCCTGAGGAACAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCT-AAA
1 CGATTCAATCTTCCCTGAGGAACAGTGGAATGAATCAACGTACCCAGATCTAATTTTCCCTCAAA
* * * *
67306 GAAGAAGCGGAACAGATCACTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGTT
66 -AAGAAGCGGAACAAATC-CTTTTTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTT
* * * ** *
67371 TGCCTCTATTCAATATTCCCTAAGGAACA-TCAGAATGAATCAATGTCCTAATATCTAATTTTCA
129 TGCCTCGATTCAATATTCCCTAAAGAACAGTGA-AATGAATCAACATCCCAATATCTAATTTTCA
* * * *
67435 CTCAAGAAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATATTCTCTGAGAAATAGTGGAAC
193 CTCAAGAAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATATTCTCTGAGAAACAGCGAAAA
*
67500 AAGTCTACCA
258 AAATCTACCA
* * * **
67510 CGATTCAATCTTCCCTGAGGAATAGTGGAATGAATCAACGTACCCAAATCTAATTTACCCTCATG
1 CGATTCAATCTTCCCTGAGGAACAGTGGAATGAATCAACGTACCCAGATCTAATTTTCCCTCAAA
* * * * *
67575 AAGGAGCGGAACAAATCCTTCTCTTTTC-AGATTTTATATTCCTTGAGTAACAACT-GAATAAGT
66 AAGAAGCGGAACAAATCCTT-T-TTTTCAAGATTTGATATTCCCTGAGTAAC-AGTGGAACAAGT
* * * * * *
67638 TTGCCTTGATTTAATATTCCCT-GAGCAACAGTGAAATGAATCAACATCCCCATATTTGATTTTC
128 TTGCCTCGATTCAATATTCCCTAAAG-AACAGTGAAATGAATCAACATCCCAATATCTAATTTTC
* * *
67702 CCTCAGGAAGAAGC-GAA-ATAGATCCC-CTTCTTTTC-AGATTTGATATTCTCTGAGTAACAGC
192 ACTCAAGAAGAAGCAGAACAT--ATCCCTC-TC-TTTCAAGATTTGATATTCTCTGAGAAACAGC
* *
67763 GAAAAAAATCTGCCT
253 GAAAAAAATCTACCA
* * * *
67778 TGATTCAATCTTCCCTGAGTAACATTGGAATGAATCAACGTCCCCAGATCTAATTTTCCCTCAAA
1 CGATTCAATCTTCCCTGAGGAACAGTGGAATGAATCAACGTACCCAGATCTAATTTTCCCTCAAA
* * * * * *
67843 AAGAAGTGGAACATATCTCTTTTTTTCAAGATTTGATATTCCCTAAGTGACAGTGGAACAAATCT
66 AAGAAGCGGAACAAATC-CTTTTTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTTT
** * *
67908 AACTCGATTGAATCTTCCCTAAAGAACAGTGAAATGAATCAACAT
130 GCCTCGATTCAATATTCCCTAAAGAACAGTGAAATGAATCAACAT
67953 TTCTCGATCT
Statistics
Matches: 363, Mismatches: 66, Indels: 28
0.79 0.14 0.06
Matches are distributed among these distances:
266 2 0.01
267 14 0.04
268 329 0.91
269 18 0.05
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.30
Consensus pattern (267 bp):
CGATTCAATCTTCCCTGAGGAACAGTGGAATGAATCAACGTACCCAGATCTAATTTTCCCTCAAA
AAGAAGCGGAACAAATCCTTTTTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTTTG
CCTCGATTCAATATTCCCTAAAGAACAGTGAAATGAATCAACATCCCAATATCTAATTTTCACTC
AAGAAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATATTCTCTGAGAAACAGCGAAAAAAA
TCTACCA
Found at i:74161 original size:18 final size:19
Alignment explanation
Indices: 74126--74161 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
74116 CCCTAAACTT
74126 AATATTTTGATAAAAATAA
1 AATATTTTGATAAAAATAA
*
74145 AATATTTT-ATTAAAATA
1 AATATTTTGATAAAAATA
74162 CCCTAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
AATATTTTGATAAAAATAA
Found at i:83561 original size:36 final size:36
Alignment explanation
Indices: 83514--83702 Score: 222
Period size: 36 Copynumber: 5.2 Consensus size: 36
83504 AGTCAATCCT
*
83514 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
1 AAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTG
* * *
83550 AAGCCTTCACCGGAGAATAGTGAAGCAATCAATCTG
1 AAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTG
83586 AAGCCTTCACCAGAGAATAGTGAAGCAAACCATCAT-
1 AAGCCTTCACCAGAGAATAGTGAAGCAAACCATC-TG
* *
83622 AAGTCTTCACCAGA-AAGTAGTGAAGCAAACCATCTT
1 AAGCCTTCACCAGAGAA-TAGTGAAGCAAACCATCTG
* * * * *
83658 AAGTCTTCACCA-AAAAGTAGTGAAGCAGATCCATTTT
1 AAGCCTTCACCAGAGAA-TAGTGAAGCA-AACCATCTG
83695 AAGCCTTC
1 AAGCCTTC
83703 TCAGAAGAGT
Statistics
Matches: 139, Mismatches: 9, Indels: 9
0.89 0.06 0.06
Matches are distributed among these distances:
35 4 0.03
36 120 0.86
37 15 0.11
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.21
Consensus pattern (36 bp):
AAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTG
Found at i:84149 original size:51 final size:51
Alignment explanation
Indices: 84084--84695 Score: 759
Period size: 51 Copynumber: 11.8 Consensus size: 51
84074 AAGATTATTT
* * *
84084 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTCC
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
*
84135 GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
*
84186 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGA-GATGTC
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATG-T-TC
84238 TGAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 -GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
*
84290 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGA-GATGTC
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATG-T-TC
*
84342 TGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGA-GATGTC
1 -GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATG-T-TC
* * * * * *
84395 TAAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATCC
1 -GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* *
84447 GAGTTCCATACTCCTTAATGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* ** * ** * *
84498 GAGTTCTATACTCTTTAAAGAGAGAAGGAGCGAACCCGTAAGAAGAAGATTTTT
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGT---TTGAAGATGTTC
* * *
84552 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCAG-TTGAAGATGTTC
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCC-GTTTGAAGATGTTC
* * *
84603 AAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG--TGAAGAGATGTTC
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTG-A-AGATGTTC
* * *
84654 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTG
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTG
84696 TTGAAGATTG
Statistics
Matches: 499, Mismatches: 46, Indels: 30
0.87 0.08 0.05
Matches are distributed among these distances:
49 2 0.00
50 4 0.01
51 301 0.60
52 7 0.01
53 143 0.29
54 41 0.08
55 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (51 bp):
GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
Found at i:84273 original size:104 final size:104
Alignment explanation
Indices: 84084--84695 Score: 819
Period size: 104 Copynumber: 5.9 Consensus size: 104
84074 AAGATTATTT
* * *
84084 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG-A-AGATGTCCGAGTTCCATACT
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
*
84147 CCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
66 CCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
*
84186 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
84251 CCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
66 CCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
*
84290 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
*
84355 CCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGA-GATGTC
66 CCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATG-T-TC
* * * * * *
84395 TAAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTG-A-AGATATCCGAGTTCCATAC
1 -GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATAC
* *
84458 TCCTTAATGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
65 TCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* ** * ** * * *
84498 GAGTTCTATACTCTTTAAAGAGAGAAGGAGCGAACCCGTAAGAAGAAGATTTTTGAGTTCTATAC
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-AGATGTCTGAGTTCCATAC
* *
84563 TCCCTGAAGAAAGAGGGAGCGAACCCAG-TTGAAGATGTTC
65 TCCCTAAAGAAAGAAGGAGCGAACCC-GTTTGAAGATGTTC
* * * *
84603 AAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG--TGAAGAGATGT-TCGAGTTCTATAC
1 GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCT-GAGTTCCATAC
* *
84665 TCCCTAAAGAAAGAGGGAGCGAACCCATTTG
65 TCCCTAAAGAAAGAAGGAGCGAACCCGTTTG
84696 TTGAAGATTG
Statistics
Matches: 456, Mismatches: 42, Indels: 24
0.87 0.08 0.05
Matches are distributed among these distances:
101 1 0.00
102 116 0.25
103 9 0.02
104 208 0.46
105 84 0.18
106 38 0.08
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (104 bp):
GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
CCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
Found at i:84730 original size:55 final size:54
Alignment explanation
Indices: 84649--85146 Score: 616
Period size: 55 Copynumber: 9.2 Consensus size: 54
84639 CGTGAAGAGA
* * * *
84649 TGTTCGAGT-TCTATACTCCCTAAAGAAAGAGGGAGC-GAACCCATTTGTTGAAGAT
1 TGTTCGAGTCT-TATACTCTCTGAAGAAATAGGGGGCAG-ACCCA-TTGTTGAAGAT
* *
84704 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGAT
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CCATTGTTGAAGAT
* *
84759 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGAT
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CCATTGTTGAAGAT
* *
84814 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGAT
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CCATTGTTGAAGAT
* * * *
84869 TG-T-GGGTCTTATACTCTCTAAAGAAATAGGGGGCAGACGCAATCGTTGAAGAT
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CCATTGTTGAAGAT
* *
84922 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGAT
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CCATTGTTGAAGAT
* * *
84977 TG-T-GGGTCTTATACTCTCTGAAGATATAGGGGGCAGACGCGATTGTTGAAGAT
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CCATTGTTGAAGAT
* *
85030 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGAT
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CCATTGTTGAAGAT
* * *
85085 TG-TGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTAAAGAT
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CCATTGTTGAAGAT
*
85138 TATTCGAGT
1 TGTTCGAGT
85147 TCCATACTCC
Statistics
Matches: 404, Mismatches: 30, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
53 142 0.35
54 10 0.02
55 248 0.61
56 4 0.01
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (54 bp):
TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACCCATTGTTGAAGAT
Found at i:84935 original size:108 final size:108
Alignment explanation
Indices: 84693--85146 Score: 773
Period size: 108 Copynumber: 4.2 Consensus size: 108
84683 GCGAACCCAT
* * *
84693 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGA
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGA
*
84758 TTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAA
66 TTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAA
*
84803 TCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGA
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGA
*
84868 TTGTGGGTCTTATACTCTCTAAAGAAATAGGGGGCAGACGCAA
66 TTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAA
*
84911 TCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGA
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGA
* *
84976 TTGTGGGTCTTATACTCTCTGAAGATATAGGGGGCAGACGCGA
66 TTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAA
85019 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGA
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGA
* *
85084 TTGTGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGA
66 TTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAA
* *
85127 TTGTTAAAGATTATTCGAGT
1 TTGTTGAAGATTGTTCGAGT
85147 TCCATACTCC
Statistics
Matches: 330, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
108 265 0.80
109 1 0.00
110 64 0.19
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (108 bp):
TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGA
TTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAA
Found at i:89917 original size:20 final size:20
Alignment explanation
Indices: 89892--89930 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
89882 TTCACTTTGA
89892 AGAACAAATTCTCCACCTTG
1 AGAACAAATTCTCCACCTTG
* *
89912 AGAACATATTCTCTACCTT
1 AGAACAAATTCTCCACCTT
89931 AACAAATAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (20 bp):
AGAACAAATTCTCCACCTTG
Found at i:93438 original size:3 final size:3
Alignment explanation
Indices: 93430--93498 Score: 72
Period size: 3 Copynumber: 23.3 Consensus size: 3
93420 TAAAATTATT
*
93430 TAA TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TAA TATT TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TAA TAA
**
93474 TAA TAA TAA TAA TTT TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
93499 TTAAGTAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
2 6 0.11
3 44 0.80
4 5 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:93458 original size:22 final size:24
Alignment explanation
Indices: 93430--93484 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 24
93420 TAAAATTATT
93430 TAATAATAATATAATATAT-ATAA
1 TAATAATAATATAATATATAATAA
*
93453 T-ATAAT-A-ATAATATTTAATAA
1 TAATAATAATATAATATATAATAA
93474 TAATAATAATA
1 TAATAATAATA
93485 ATTTTAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 8 0.30
21 6 0.22
22 10 0.37
23 2 0.07
24 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
TAATAATAATATAATATATAATAA
Found at i:93463 original size:25 final size:22
Alignment explanation
Indices: 93430--93498 Score: 101
Period size: 21 Copynumber: 3.3 Consensus size: 22
93420 TAAAATTATT
*
93430 TAATAATAAT-ATAATATAT-A
1 TAATAATAATAATAATATTTAA
93450 TAAT-ATAATAATAATATTTAA
1 TAATAATAATAATAATATTTAA
93471 TAATAATAATAATAAT-TTTAA
1 TAATAATAATAATAATATTTAA
93492 TAATAAT
1 TAATAAT
93499 TTAAGTAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
19 5 0.11
20 12 0.27
21 17 0.38
22 11 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAATAATAATAATAATATTTAA
Found at i:93782 original size:76 final size:75
Alignment explanation
Indices: 93656--94187 Score: 893
Period size: 76 Copynumber: 7.0 Consensus size: 75
93646 GGTCTTATGA
* * * *
93656 ATGACCCCGAGGGTTTAAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
1 ATGACCCTGAGGCTTT-AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGA
93721 AGGACTTACAG
65 AGGACTTACAG
* *
93732 ATGACCCTGAGGGTTTGAAAACATCAAAAAGTTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCTGAGGCTTT-AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGA
93797 AGGACTTACAG
65 AGGACTTACAG
* * *
93808 ATGACCCTGAGGATTTGAAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCTGAGGCTTT-AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGA
93873 AGGACTTACAG
65 AGGACTTACAG
* * *
93884 ATGACCCTGAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTCTTTGGAAACATCATGCACTGA
1 ATGACCCTGAGGCTTT-AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGA
93949 AGGACTTACAG
65 AGGACTTACAG
*
93960 ATGACCCTAAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAA
1 ATGACCCTGAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAA
94025 GGACTTACAG
66 GGACTTACAG
*
94035 ATGACCCTAAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAA
1 ATGACCCTGAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAA
94100 GGACTTACAG
66 GGACTTACAG
*
94110 ATGACCCTAAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAA
1 ATGACCCTGAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAA
94175 GGACTTACAG
66 GGACTTACAG
94185 ATG
1 ATG
94188 TGGGAAATAG
Statistics
Matches: 443, Mismatches: 13, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
75 210 0.47
76 233 0.53
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (75 bp):
ATGACCCTGAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAA
GGACTTACAG
Found at i:94230 original size:150 final size:146
Alignment explanation
Indices: 93673--94193 Score: 645
Period size: 150 Copynumber: 3.5 Consensus size: 146
93663 CGAGGGTTTA
* * *
93673 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACC
1 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG--T
** ** *
93738 CTGAGGGTTTGAAAACATCAAAAAGT-TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAC
64 GGGAATGTTT-AAAACATCAAAAACTAT---GAAGGCTTTTTGGAAACATCATGCACTGAAGGAC
* *
93802 TTACAGATGACCCTGAGGATTT
125 TTACAGATGACCCTAAGGCTTT
* *
93824 GAAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGAC
1 -AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG--
* ** *
93889 CCTGAGG-AT-TTGAAAACATCAAAAAGCTCCCGAAGGCTCTTTGGAAACATCATGCACTGAAGG
63 --TG-GGAATGTTTAAAACATCAAAAA-CT-ATGAAGGCTTTTTGGAAACATCATGCACTGAAGG
93952 ACTTACAGATGACCCTAAGGCTTT
123 ACTTACAGATGACCCTAAGGCTTT
**
93976 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
1 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG-TG
** * *
94041 CTAAGGCTTTAAAACATCAAAAA-GATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACT
65 GGAATG-TTTAAAACATCAAAAACTAT---GAAGGCTTTTTGGAAACATCATGCACTGAAGGACT
94105 TACAGATGACCCTAAGGCTTT
126 TACAGATGACCCTAAGGCTTT
94126 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGG
1 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGG
94191 GAA
66 GAA
94194 ATAGTTTACT
Statistics
Matches: 326, Mismatches: 31, Indels: 27
0.85 0.08 0.07
Matches are distributed among these distances:
148 1 0.00
149 2 0.01
150 132 0.40
151 60 0.18
152 126 0.39
153 3 0.01
154 1 0.00
155 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (146 bp):
AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGG
GAATGTTTAAAACATCAAAAACTATGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAG
ATGACCCTAAGGCTTT
Found at i:94926 original size:113 final size:113
Alignment explanation
Indices: 94595--95497 Score: 1489
Period size: 113 Copynumber: 8.0 Consensus size: 113
94585 ATAGAATTAT
* * *
94595 GCAAAAAGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
94660 ATTATGAAC-TTCTCTGGAAAAG-TTACTCCATCA-AGTGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGA-TCCATCAGA-TGATGGATTTGA
* *
94707 GCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
94772 ATTATGAACTTTCTCTGGAAAAACTGATCCATCA-AGTGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGA-TGATGGATTTGA
**
94820 GC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTT-TTCTTCCTTCTTCAGATGAGTTCTTCT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAA-TTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* *
94883 CATTATGAACTTTTTTTTGGAAAAGCTGATCCATCAGAAGATGGATTTGA
65 CATTATGAAC-TTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
**
94933 GC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTT-TTCTTCCTTCTTCAGATGAGTTCTTCT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAA-TTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* *
94996 CATTATGAACTTTTTTTTGGAAAAGCTGATCCATCAGAAGATGGATTTGA
65 CATTATGAAC-TTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
95046 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
95111 ATTATGAACTTTTTCTGGAAATGCTGATCCATCAGATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
95159 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
95224 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCATATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
*
95272 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTTAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
95337 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
* *
95385 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGCTCTTCTA
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
95450 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
95498 ATCTTTGCTA
Statistics
Matches: 761, Mismatches: 23, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
112 137 0.18
113 556 0.73
114 68 0.09
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
Found at i:95922 original size:22 final size:22
Alignment explanation
Indices: 95897--95951 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
95887 CATAAAGTTT
* *
95897 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATATA
*
95919 TCATCTTTAAAAAGAGAATATA
1 TCATCTTTGAAAAGAGAATATA
95941 TCATCTTTGAA
1 TCATCTTTGAA
95952 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATATA
Found at i:96371 original size:40 final size:40
Alignment explanation
Indices: 96316--96398 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
96306 CCATAATCAC
96316 TGGTTCATAAAACATTTGACAATACATTCATCTTTTCCTG
1 TGGTTCATAAAACATTTGACAATACATTCATCTTTTCCTG
*
96356 TGGTTTATAAAACATTTGACAATACATTCATCTTTTCCTG
1 TGGTTCATAAAACATTTGACAATACATTCATCTTTTCCTG
96396 TGG
1 TGG
96399 CTTCTGCTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (40 bp):
TGGTTCATAAAACATTTGACAATACATTCATCTTTTCCTG
Found at i:96427 original size:54 final size:54
Alignment explanation
Indices: 96358--96513 Score: 217
Period size: 54 Copynumber: 2.9 Consensus size: 54
96348 TTTTCCTGTG
*
96358 GTTTATAAAACATTTGACAATACATTCATCTTTTCCTGTGGCTTCTGCTCAGAT
1 GTTTATAAAACATTTGACAACACATTCATCTTTTCCTGTGGCTTCTGCTCAGAT
* * *
96412 GTTTGTAAAACATTTGACAACACATTCATCATTTCTTGTGG-TTCTTGCTCAGAT
1 GTTTATAAAACATTTGACAACACATTCATCTTTTCCTGTGGCTTC-TGCTCAGAT
* * *
96466 GTTCATAAAGCGTTTGACAACACATTCATCCTTTT-CTGTGGCTTCTGC
1 GTTTATAAAACATTTGACAACACATTCAT-CTTTTCCTGTGGCTTCTGC
96514 CAAGATTTCT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
53 3 0.03
54 79 0.89
55 7 0.08
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (54 bp):
GTTTATAAAACATTTGACAACACATTCATCTTTTCCTGTGGCTTCTGCTCAGAT
Found at i:100976 original size:19 final size:20
Alignment explanation
Indices: 100947--100984 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
100937 CTTGATTCAA
100947 TTTTCCTTTTTCTTTTCTTT
1 TTTTCCTTTTTCTTTTCTTT
100967 TTTTCCTTTTT-TTTTCTT
1 TTTTCCTTTTTCTTTTCTT
100985 CTTTCTTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTCCTTTTTCTTTTCTTT
Found at i:101293 original size:2 final size:2
Alignment explanation
Indices: 101286--101320 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
101276 ACAACAAAGG
101286 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
101321 AAGGATAAAT
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:105902 original size:6 final size:7
Alignment explanation
Indices: 105883--105907 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
105873 TAAATATATA
105883 AATTTTT
1 AATTTTT
105890 AATTTTT
1 AATTTTT
105897 AATTTTT
1 AATTTTT
105904 AATT
1 AATT
105908 AATGGAGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
AATTTTT
Found at i:108033 original size:3 final size:3
Alignment explanation
Indices: 108025--108093 Score: 72
Period size: 3 Copynumber: 23.3 Consensus size: 3
108015 TAAAATTATT
*
108025 TAA TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TAA TATT TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TAA TAA
**
108069 TAA TAA TAA TAA TTT TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
108094 TTAAGTAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
2 6 0.11
3 44 0.80
4 5 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:108053 original size:22 final size:24
Alignment explanation
Indices: 108025--108079 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 24
108015 TAAAATTATT
108025 TAATAATAATATAATATAT-ATAA
1 TAATAATAATATAATATATAATAA
*
108048 T-ATAAT-A-ATAATATTTAATAA
1 TAATAATAATATAATATATAATAA
108069 TAATAATAATA
1 TAATAATAATA
108080 ATTTTAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 8 0.30
21 6 0.22
22 10 0.37
23 2 0.07
24 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
TAATAATAATATAATATATAATAA
Found at i:108058 original size:25 final size:22
Alignment explanation
Indices: 108025--108093 Score: 101
Period size: 21 Copynumber: 3.3 Consensus size: 22
108015 TAAAATTATT
*
108025 TAATAATAAT-ATAATATAT-A
1 TAATAATAATAATAATATTTAA
108045 TAAT-ATAATAATAATATTTAA
1 TAATAATAATAATAATATTTAA
108066 TAATAATAATAATAAT-TTTAA
1 TAATAATAATAATAATATTTAA
108087 TAATAAT
1 TAATAAT
108094 TTAAGTAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
19 5 0.11
20 12 0.27
21 17 0.38
22 11 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAATAATAATAATAATATTTAA
Found at i:114187 original size:12 final size:12
Alignment explanation
Indices: 114172--114196 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
114162 ACCGTCACCC
114172 TCATTATCTTCT
1 TCATTATCTTCT
114184 TCATTATCTTCT
1 TCATTATCTTCT
114196 T
1 T
114197 TTAAGAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTATCTTCT
Found at i:115997 original size:23 final size:23
Alignment explanation
Indices: 115921--115997 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
115911 CGTGAATGTA
* * * *
115921 TTTATTTAACATCTATAAAAATA
1 TTTATTTAACATTTATGAATATG
* *
115944 TTTGTTTAATATTTATGAATATG
1 TTTATTTAACATTTATGAATATG
* ** *
115967 ATCGTTTAACATTTACGAATATG
1 TTTATTTAACATTTATGAATATG
115990 TTTATTTA
1 TTTATTTA
115998 GCGTTCGTTT
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.49
Consensus pattern (23 bp):
TTTATTTAACATTTATGAATATG
Found at i:123484 original size:32 final size:32
Alignment explanation
Indices: 123465--123542 Score: 147
Period size: 32 Copynumber: 2.4 Consensus size: 32
123455 TTGGGGCGTG
123465 AGAGCCTACCCAAGAGAGTACCTTAGGGCCTA
1 AGAGCCTACCCAAGAGAGTACCTTAGGGCCTA
*
123497 AGAGCCTACCCAAGAGAGTACCTTAGGGCTTA
1 AGAGCCTACCCAAGAGAGTACCTTAGGGCCTA
123529 AGAGCCTACCCAAG
1 AGAGCCTACCCAAG
123543 GTCACCTTAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.32, C:0.28, G:0.24, T:0.15
Consensus pattern (32 bp):
AGAGCCTACCCAAGAGAGTACCTTAGGGCCTA
Found at i:125414 original size:21 final size:21
Alignment explanation
Indices: 125388--125437 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
125378 GCTTACTGAG
125388 TTTGAATTTAGAGAAATATAC
1 TTTGAATTTAGAGAAATATAC
125409 TTTGAATTTAGAGAAATATAC
1 TTTGAATTTAGAGAAATATAC
125430 TTTGAATT
1 TTTGAATT
125438 CAAATTTAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.42
Consensus pattern (21 bp):
TTTGAATTTAGAGAAATATAC
Found at i:128208 original size:32 final size:33
Alignment explanation
Indices: 128168--128299 Score: 116
Period size: 32 Copynumber: 4.1 Consensus size: 33
128158 GATCCAACCT
* * *
128168 AAGG-AAGTATCTTGGGGCCTGAGAGCCTACCC
1 AAGGAAAGTACCTTAGGGCCTAAGAGCCTACCC
*
128200 AA-GAAAGTACCTTAGAGCCTAAGAGCCTACCC
1 AAGGAAAGTACCTTAGGGCCTAAGAGCCTACCC
* * *
128232 AATGG--AGTACCTTTGGACCTTAGAGCCTACCC
1 AA-GGAAAGTACCTTAGGGCCTAAGAGCCTACCC
*
128264 AAGGAAATGT--CTTATGGCCTCAA-AGCCTACCC
1 AAGGAAA-GTACCTTAGGGCCT-AAGAGCCTACCC
128296 AAGG
1 AAGG
128300 TCACCTTAGG
Statistics
Matches: 81, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
31 3 0.04
32 73 0.90
33 2 0.02
34 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (33 bp):
AAGGAAAGTACCTTAGGGCCTAAGAGCCTACCC
Found at i:129623 original size:21 final size:21
Alignment explanation
Indices: 129588--129660 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
129578 GCTAAAGGCA
* * *
129588 CATATAATTTGTCCCTAATGAC
1 CATAT-ATATGTCCCAAAAGAC
129610 CATATATATGTCCCAAAAGAC
1 CATATATATGTCCCAAAAGAC
* * *
129631 CACATATATGTCCCGAAGGAC
1 CATATATATGTCCCAAAAGAC
129652 CATATATAT
1 CATATATAT
129661 ATATCCCGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 39 0.89
22 5 0.11
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (21 bp):
CATATATATGTCCCAAAAGAC
Found at i:129660 original size:23 final size:22
Alignment explanation
Indices: 129597--129682 Score: 86
Period size: 21 Copynumber: 3.9 Consensus size: 22
129587 ACATATAATT
* *
129597 TGTCCCTAATGACC-ATATATA
1 TGTCCCGAAAGACCAATATATA
* *
129618 TGTCCCAAAAGACC-ACATATA
1 TGTCCCGAAAGACCAATATATA
*
129639 TGTCCCGAAGGACCATATATATA
1 TGTCCCGAAAGACCA-ATATATA
*
129662 TATCCCGAAAGACCACATATA
1 TGTCCCGAAAGACCA-ATATA
129683 ATTTGTAACA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
21 30 0.56
23 24 0.44
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (22 bp):
TGTCCCGAAAGACCAATATATA
Found at i:129662 original size:25 final size:23
Alignment explanation
Indices: 129610--129682 Score: 87
Period size: 23 Copynumber: 3.3 Consensus size: 23
129600 CCCTAATGAC
* *
129610 CATATATATGTCCCAAAAGACCA
1 CATATATATATCCCGAAAGACCA
* *
129633 C--ATATATGTCCCGAAGGACCA
1 CATATATATATCCCGAAAGACCA
*
129654 TATATATATATCCCGAAAGACCA
1 CATATATATATCCCGAAAGACCA
129677 CATATA
1 CATATA
129683 ATTTGTAACA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
21 18 0.43
23 24 0.57
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.23
Consensus pattern (23 bp):
CATATATATATCCCGAAAGACCA
Found at i:131356 original size:23 final size:22
Alignment explanation
Indices: 131324--131400 Score: 82
Period size: 23 Copynumber: 3.4 Consensus size: 22
131314 TCCTTTGGGA
131324 CATTTTATATGGCACTTCGGTG
1 CATTTTATATGGCACTTCGGTG
* * *
131346 CATTTCTATATGACACTTTGGTA
1 CATTT-TATATGGCACTTCGGTG
* **
131369 TATTTCTACGTGGCACTTCGGTG
1 CATTT-TATATGGCACTTCGGTG
131392 CATTTTATA
1 CATTTTATA
131401 CGAGCTGTGG
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
22 7 0.17
23 35 0.83
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (22 bp):
CATTTTATATGGCACTTCGGTG
Found at i:138219 original size:21 final size:21
Alignment explanation
Indices: 138189--138229 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
138179 TTCTACGTGG
138189 TCCTTCGGAACATATATGTAA
1 TCCTTCGGAACATATATGTAA
*
138210 TCCTTTGGAACATATATGTA
1 TCCTTCGGAACATATATGTA
138230 GTTCGTTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.37
Consensus pattern (21 bp):
TCCTTCGGAACATATATGTAA
Found at i:138245 original size:23 final size:21
Alignment explanation
Indices: 138195--138247 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
138185 GTGGTCCTTC
*
138195 GGAACATATATGTAATCCTTT
1 GGAACATATATGTAATCCGTT
* *
138216 GGAACATATATGTAGTTCGTT
1 GGAACATATATGTAATCCGTT
138237 GAGACACATAT
1 G-GA-ACATAT
138248 TTGGTCCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 19 0.70
22 2 0.07
23 6 0.22
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (21 bp):
GGAACATATATGTAATCCGTT
Found at i:138374 original size:23 final size:23
Alignment explanation
Indices: 138329--138378 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
138319 ACTTTGGTGT
*
138329 ATTTCTACGCGACACTTCGGTGC
1 ATTTCTACGCGACACTTCAGTGC
* * *
138352 ATTTCTACGTGGCATTTCAGTGC
1 ATTTCTACGCGACACTTCAGTGC
138375 ATTT
1 ATTT
138379 TATACGAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (23 bp):
ATTTCTACGCGACACTTCAGTGC
Found at i:143567 original size:21 final size:21
Alignment explanation
Indices: 143522--143568 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
143512 TGTCTGGAAT
* * *
143522 GACCATATATATGTTCTAAAT
1 GACCATATATATGTCCCAAAG
*
143543 GACCATATATATGTCCCGAAG
1 GACCATATATATGTCCCAAAG
143564 GACCA
1 GACCA
143569 CATAGAATTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (21 bp):
GACCATATATATGTCCCAAAG
Found at i:143572 original size:23 final size:24
Alignment explanation
Indices: 143546--143602 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
143536 TCTAAATGAC
143546 CATATATATGTC-CC-GAAGGACCA
1 CATATATAT-TCTCCTGAAGGACCA
* *
143569 CATAGA-ATTCTCCTTAAGGACCA
1 CATATATATTCTCCTGAAGGACCA
143592 CATATATATTC
1 CATATATATTC
143603 CAACGGACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.07
22 4 0.14
23 18 0.64
24 4 0.14
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (24 bp):
CATATATATTCTCCTGAAGGACCA
Found at i:144466 original size:19 final size:19
Alignment explanation
Indices: 144442--144490 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
144432 CAAGCCTATA
144442 GTATCGATACCATCCCACG
1 GTATCGATACCATCCCACG
144461 GTATCGATACCATCCCACG
1 GTATCGATACCATCCCACG
144480 GTATCGATACC
1 GTATCGATACC
144491 TATTCAGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.22
Consensus pattern (19 bp):
GTATCGATACCATCCCACG
Done.