Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 272 of 332
Found at i:91022325 original size:16 final size:16
Alignment explanation
Indices: 91022297--91022351 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 16
91022287 CTTATTTTCA
91022297 TATTATATATTATATAAG
1 TATT-TATATTATAT-AG
*
91022315 TATTT-TATTATATAT
1 TATTTATATTATATAG
*
91022330 TATTTATATTAT-TAT
1 TATTTATATTATATAG
91022345 TATTTAT
1 TATTTAT
91022352 TATTTATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
15 16 0.46
16 14 0.40
17 1 0.03
18 4 0.11
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TATTTATATTATATAG
Found at i:91022339 original size:9 final size:10
Alignment explanation
Indices: 91022297--91022362 Score: 64
Period size: 10 Copynumber: 6.4 Consensus size: 10
91022287 CTTATTTTCA
91022297 TATTATATAT
1 TATTATATAT
*
91022307 TATATAAGTATTT
1 TAT-T-A-TATAT
91022320 TATTATATAT
1 TATTATATAT
91022330 TATT-TATAT
1 TATTATATAT
91022339 TATTAT-TATT
1 TATTATATA-T
*
91022349 TATTATTTAT
1 TATTATATAT
91022359 TATT
1 TATT
91022363 TTTCACAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
9 11 0.23
10 24 0.50
11 4 0.08
12 2 0.04
13 7 0.15
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (10 bp):
TATTATATAT
Found at i:91022399 original size:20 final size:19
Alignment explanation
Indices: 91022376--91022425 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
91022366 CACAAATTGT
91022376 TATTATTTATATACATTATA
1 TATTATTTATATACA-TATA
* *
91022396 TATTATTTTTTTACATATA
1 TATTATTTATATACATATA
*
91022415 TACT-TTTATAT
1 TATTATTTATAT
91022426 TATATATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 5 0.20
19 7 0.28
20 13 0.52
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTATTTATATACATATA
Found at i:91022476 original size:19 final size:19
Alignment explanation
Indices: 91022444--91022483 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
91022434 ATAATTATGG
* *
91022444 TATTAAATCTTTTATATAT
1 TATTAAATCATTTATACAT
*
91022463 TATTATATCATTTATACAT
1 TATTAAATCATTTATACAT
91022482 TA
1 TA
91022484 AATGCTAGTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTAAATCATTTATACAT
Found at i:91025138 original size:22 final size:21
Alignment explanation
Indices: 91025103--91025185 Score: 68
Period size: 18 Copynumber: 4.1 Consensus size: 21
91025093 AAAAGGTATC
* *
91025103 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
91025124 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
91025147 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
91025166 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
91025184 TA
1 TA
91025186 TATCATATCT
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
18 15 0.28
19 11 0.20
21 3 0.06
22 15 0.28
23 10 0.19
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:91025146 original size:23 final size:22
Alignment explanation
Indices: 91025103--91025160 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
91025093 AAAAGGTATC
* *
91025103 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
91025124 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
91025147 TGCATATCATATCT
1 TACAAATCATATCT
91025161 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:91025193 original size:35 final size:35
Alignment explanation
Indices: 91025132--91025222 Score: 125
Period size: 35 Copynumber: 2.6 Consensus size: 35
91025122 ATTACAAAAT
91025132 CATATC-TTCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATTCTAAGATT--ATATCATATCTAAGATTG
91025168 CA-ATCATATCTAAGATTATATCATATCTAAGATTG
1 CATATCAT-TCTAAGATTATATCATATCTAAGATTG
*
91025203 CATATCATT-GAAGATTATAT
1 CATATCATTCTAAGATTATAT
91025223 TTCCATATAA
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
34 10 0.20
35 24 0.47
36 8 0.16
37 9 0.18
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (35 bp):
CATATCATTCTAAGATTATATCATATCTAAGATTG
Found at i:91025218 original size:17 final size:19
Alignment explanation
Indices: 91025139--91025210 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
91025129 AATCATATCT
91025139 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
91025158 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
91025176 TCTAAGATT--ATATCATA
1 TCTAAGATTGCATATCATA
91025193 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
91025211 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.02
17 15 0.30
18 15 0.30
19 19 0.38
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:91028086 original size:23 final size:23
Alignment explanation
Indices: 91028046--91028093 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
91028036 TTCCTGATTG
* *
91028046 ATGGCTCTCTAGAGCTTCCCGAT
1 ATGGCTCACTAGAACTTCCCGAT
*
91028069 ATGGCTCACTTGAACTTCCCGAT
1 ATGGCTCACTAGAACTTCCCGAT
91028092 AT
1 AT
91028094 ATGGCTATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (23 bp):
ATGGCTCACTAGAACTTCCCGAT
Found at i:91028183 original size:24 final size:24
Alignment explanation
Indices: 91028022--91028185 Score: 97
Period size: 25 Copynumber: 6.7 Consensus size: 24
91028012 TTCGATTAAA
*
91028022 GGCTCTTTTTGAGCTTCCTGATTGAT
1 GGCTC-TTATGAGCTTCCTGATT-AT
*
91028048 GGCTCTCTA-GAGCTTCCCGA-TAT
1 GGCTCT-TATGAGCTTCCTGATTAT
* * *
91028071 GGCTCACT-TGAACTTCCCGATATAT
1 GGCTC-TTATGAGCTTCCTGAT-TAT
* *
91028096 GGCTATCCA-GAGCTTCCTGATTAAT
1 GGCTCT-TATGAGCTTCCTGATT-AT
* *
91028121 GGCTCTTCA-GAGCTACCCG-TTATT
1 GGCTCTT-ATGAGCTTCCTGATTA-T
**
91028145 GGCTCGCATGAGCTTCCTGATTAT
1 GGCTCTTATGAGCTTCCTGATTAT
*
91028169 GGCTCTTATGTGCTTCC
1 GGCTCTTATGAGCTTCC
91028186 CGTTATACAG
Statistics
Matches: 106, Mismatches: 20, Indels: 26
0.70 0.13 0.17
Matches are distributed among these distances:
23 20 0.19
24 33 0.31
25 47 0.44
26 6 0.06
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.35
Consensus pattern (24 bp):
GGCTCTTATGAGCTTCCTGATTAT
Found at i:91028185 original size:73 final size:73
Alignment explanation
Indices: 91028032--91028172 Score: 187
Period size: 73 Copynumber: 1.9 Consensus size: 73
91028022 GGCTCTTTTT
* * *
91028032 GAGCTTCCTGATTGATGGCTCTCTAGAGCTTCCCGATATGGCTCACTTGAACTTCCCGATATATG
1 GAGCTTCCTGATTAATGGCTCTCTAGAGCTACCCGATATGGCTCACATGAACTTCCCGATATATG
91028097 GCTATCCA
66 GCTATCCA
* * * *
91028105 GAGCTTCCTGATTAATGGCTCT-TCAGAGCTACCCGTTATTGGCTCGCATGAGCTTCCTGAT-TA
1 GAGCTTCCTGATTAATGGCTCTCT-AGAGCTACCCGATA-TGGCTCACATGAACTTCCCGATATA
91028168 TGGCT
64 TGGCT
91028173 CTTATGTGCT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
72 1 0.02
73 40 0.68
74 18 0.31
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (73 bp):
GAGCTTCCTGATTAATGGCTCTCTAGAGCTACCCGATATGGCTCACATGAACTTCCCGATATATG
GCTATCCA
Found at i:91034418 original size:26 final size:26
Alignment explanation
Indices: 91034389--91034441 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
91034379 TTAGCAACCC
91034389 ATTTAAAAGTAAAATAGAATAAGACA
1 ATTTAAAAGTAAAATAGAATAAGACA
*
91034415 ATTTAAAAGTAGAATAGAATAAGACA
1 ATTTAAAAGTAAAATAGAATAAGACA
91034441 A
1 A
91034442 GTGTGACTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.60, C:0.04, G:0.13, T:0.23
Consensus pattern (26 bp):
ATTTAAAAGTAAAATAGAATAAGACA
Found at i:91037495 original size:15 final size:16
Alignment explanation
Indices: 91037454--91037495 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
91037444 AACAAGATAT
91037454 TCAAATTTAAAGGAGG
1 TCAAATTTAAAGGAGG
* **
91037470 TTATTTTTAAAGGA-G
1 TCAAATTTAAAGGAGG
91037485 TCAAATTTAAA
1 TCAAATTTAAA
91037496 TTTAAATATG
Statistics
Matches: 20, Mismatches: 6, Indels: 1
0.74 0.22 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.36
Consensus pattern (16 bp):
TCAAATTTAAAGGAGG
Found at i:91039271 original size:20 final size:22
Alignment explanation
Indices: 91039248--91039293 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
91039238 ACTTTTTTTC
91039248 TAAAAA-AAACAAATT-TAT-TT
1 TAAAAATAAA-AAATTATATATT
91039268 TAAAAATAAAAAATTATATATT
1 TAAAAATAAAAAATTATATATT
91039290 TAAA
1 TAAA
91039294 TTTAAATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.48
21 6 0.26
22 6 0.26
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAAATAAAAAATTATATATT
Found at i:91045702 original size:39 final size:39
Alignment explanation
Indices: 91045647--91045816 Score: 223
Period size: 39 Copynumber: 4.3 Consensus size: 39
91045637 GTATGAGATT
* *
91045647 GAAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
1 GAAAA-ATATCCGGACATGAGATCCGCAGGCTATATGCTA
*
91045687 GAAAAATATCCGGACATGAGATTCGCAGGCTATATGCTA
1 GAAAAATATCCGGACATGAGATCCGCAGGCTATATGCTA
* *
91045726 GAAATATATTCGGACATGAGATCCGCAGGCTATATGCTA
1 GAAAAATATCCGGACATGAGATCCGCAGGCTATATGCTA
* * * ** * *
91045765 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGTTG
1 GAAAAATATCCGGACATGAGATCCGCAGGCTATATGCTA
91045804 GAAAAATATCCGG
1 GAAAAATATCCGG
91045817 GTTAAAGACC
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 111 0.96
40 5 0.04
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (39 bp):
GAAAAATATCCGGACATGAGATCCGCAGGCTATATGCTA
Found at i:91045830 original size:78 final size:78
Alignment explanation
Indices: 91045647--91045842 Score: 198
Period size: 78 Copynumber: 2.5 Consensus size: 78
91045637 GTATGAGATT
* ** * *
91045647 GAAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGATTCG
1 GAAAA-ATATCCGGACATAAGACCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGATCCG
*
91045712 CAGGCTATATGCTA
65 CAGGCTACATGCTA
* * * * * * *
91045726 GAAATATATTCGGACATGAGATCCGCAGGCTATATGCTAGAAATATATCCGGACTTGAGGTCCGC
1 GAAAAATATCCGGACATAAGACCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGC
* * *
91045791 AGGCTACGTGTTG
66 AGGCTACATGCTA
**
91045804 GAAAAATATCCGG-GTTAAAGACCCGCAGGCT-TATGCTAG
1 GAAAAATATCCGGACAT-AAGACCCGCAGGCTATATGCTAG
91045843 TAATGTATTC
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
77 9 0.09
78 85 0.87
79 4 0.04
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.23
Consensus pattern (78 bp):
GAAAAATATCCGGACATAAGACCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGC
AGGCTACATGCTA
Found at i:91050773 original size:39 final size:39
Alignment explanation
Indices: 91050718--91050884 Score: 199
Period size: 39 Copynumber: 4.3 Consensus size: 39
91050708 GTATGAGATT
* * *
91050718 GAAAATATATCCGGACATGAGGTCCGCAGGCTATATGTTG
1 GAAAA-ATATCCGGACATGAGATCCGCAGGCTATATGCTA
* * *
91050758 GAAAAATATCTGGACATGAGATCCGTAGGGTATATGCTA
1 GAAAAATATCCGGACATGAGATCCGCAGGCTATATGCTA
*
91050797 GAAATATATCCGGACATGAGATCCGCAGGCTATATGCTA
1 GAAAAATATCCGGACATGAGATCCGCAGGCTATATGCTA
* * * * ** *
91050836 GAAATATATCCGAACTTGAGGTCCGCAGGCTACGTGCTG
1 GAAAAATATCCGGACATGAGATCCGCAGGCTATATGCTA
91050875 GAAAAATATC
1 GAAAAATATC
91050885 TGGGTTAAAG
Statistics
Matches: 110, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 105 0.95
40 5 0.05
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (39 bp):
GAAAAATATCCGGACATGAGATCCGCAGGCTATATGCTA
Found at i:91051105 original size:2 final size:2
Alignment explanation
Indices: 91051100--91051183 Score: 168
Period size: 2 Copynumber: 42.0 Consensus size: 2
91051090 ACGATATATA
91051100 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
91051142 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
91051184 AATGAATTCG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:91053084 original size:5 final size:5
Alignment explanation
Indices: 91053074--91053104 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
91053064 AAGAAAATAT
91053074 TATTA TATTA TATTA TATTA TATTA TATTA T
1 TATTA TATTA TATTA TATTA TATTA TATTA T
91053105 TAAAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:91053143 original size:19 final size:20
Alignment explanation
Indices: 91053121--91053158 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
91053111 AATAGTTAAA
*
91053121 AGAAATAATA-AAACAAAAT
1 AGAAATAAAAGAAACAAAAT
91053140 AGAAATAAAAGAAACAAAA
1 AGAAATAAAAGAAACAAAA
91053159 GATAGAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.76, C:0.05, G:0.08, T:0.11
Consensus pattern (20 bp):
AGAAATAAAAGAAACAAAAT
Found at i:91053814 original size:41 final size:41
Alignment explanation
Indices: 91053757--91053838 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
91053747 CGAGGAGTAG
*
91053757 CTCGAGAATTCTGGTTTGTATTTTTATAATCCAAATCTAAT
1 CTCGAGAATTCTGGTTTGTATTTCTATAATCCAAATCTAAT
*
91053798 CTCGAGAATTCTGGTTTGTATTTCTATAATCCGAATCTAAT
1 CTCGAGAATTCTGGTTTGTATTTCTATAATCCAAATCTAAT
91053839 AATTATTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (41 bp):
CTCGAGAATTCTGGTTTGTATTTCTATAATCCAAATCTAAT
Found at i:91053905 original size:25 final size:25
Alignment explanation
Indices: 91053871--91053926 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
91053861 TTAATATGCA
* *
91053871 TGGTAAGTGAAATTGCGGTGAGTGT
1 TGGTATGTGAAATTGCGATGAGTGT
91053896 TGGTATGTGAAATTGCGATGAGTGT
1 TGGTATGTGAAATTGCGATGAGTGT
91053921 TGGTAT
1 TGGTAT
91053927 TGTGGTATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.23, C:0.04, G:0.38, T:0.36
Consensus pattern (25 bp):
TGGTATGTGAAATTGCGATGAGTGT
Found at i:91057645 original size:14 final size:15
Alignment explanation
Indices: 91057626--91057654 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
91057616 AGAGGCATAG
91057626 TAAATAT-TAAAAAA
1 TAAATATGTAAAAAA
91057640 TAAATATGTAAAAAA
1 TAAATATGTAAAAAA
91057655 AGAGACACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
TAAATATGTAAAAAA
Found at i:91058961 original size:17 final size:17
Alignment explanation
Indices: 91058923--91059009 Score: 72
Period size: 18 Copynumber: 5.1 Consensus size: 17
91058913 GTAAATTTTC
*
91058923 TTTAAAAATTATTTAAAAT
1 TTTAAAAA-TA-TAAAAAT
*
91058942 TTTAAAAATATAACAATT
1 TTTAAAAATATAA-AAAT
91058960 TTTAAAAAT-TAAAAAT
1 TTTAAAAATATAAAAAT
* **
91058976 TTT-AGAAT-TTTAAAT
1 TTTAAAAATATAAAAAT
91058991 TTTAAAAATTATAAAAAT
1 TTTAAAAA-TATAAAAAT
91059009 T
1 T
91059010 ACAAAAAGTT
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
15 12 0.22
16 9 0.16
17 6 0.11
18 20 0.36
19 8 0.15
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (17 bp):
TTTAAAAATATAAAAAT
Found at i:91058962 original size:18 final size:17
Alignment explanation
Indices: 91058923--91058978 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 17
91058913 GTAAATTTTC
91058923 TTTAAAAATTATTTAAAA-T
1 TTTAAAAATTA---AAAATT
*
91058942 TTTAAAAATATAACAATT
1 TTTAAAAAT-TAAAAATT
91058960 TTTAAAAATTAAAAATT
1 TTTAAAAATTAAAAATT
91058977 TT
1 TT
91058979 AGAATTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 12 0.36
18 10 0.30
19 9 0.27
20 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTAAAAATTAAAAATT
Found at i:91059006 original size:8 final size:8
Alignment explanation
Indices: 91058934--91058997 Score: 58
Period size: 8 Copynumber: 7.9 Consensus size: 8
91058924 TTAAAAATTA
91058934 TTTAAAAT
1 TTTAAAAT
*
91058942 TTTAAAAA
1 TTTAAAAT
*
91058950 TATAACAATT
1 TTTAA-AA-T
*
91058960 TTTAAAAA
1 TTTAAAAT
*
91058968 TTAAAAAT
1 TTTAAAAT
*
91058976 TTTAGAAT
1 TTTAAAAT
91058984 TTT-AAAT
1 TTTAAAAT
91058991 TTTAAAA
1 TTTAAAA
91058998 ATTATAAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
7 6 0.14
8 29 0.67
9 4 0.09
10 4 0.09
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (8 bp):
TTTAAAAT
Found at i:91059638 original size:22 final size:22
Alignment explanation
Indices: 91059613--91059656 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
91059603 TAGTCATATA
91059613 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
91059635 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
91059657 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:91059692 original size:13 final size:14
Alignment explanation
Indices: 91059676--91059717 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
91059666 TTTCAATTTT
91059676 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
91059689 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
91059704 ATTTTAAATAATAT
1 ATTTT-AATAATAT
91059718 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:91059702 original size:16 final size:16
Alignment explanation
Indices: 91059680--91059716 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
91059670 AATTTTATTT
91059680 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
91059697 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
91059712 TAATA
1 TAATA
91059717 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:91059769 original size:15 final size:15
Alignment explanation
Indices: 91059749--91059805 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
91059739 ATTCAATATT
91059749 AATATTTTAATAATA
1 AATATTTTAATAATA
*
91059764 AATATTTATTGCAATTATA
1 AATA-TT-TT--AATAATA
*
91059783 AATATATTAATAATA
1 AATATTTTAATAATA
*
91059798 AATGTTTT
1 AATATTTT
91059806 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:91062900 original size:4 final size:4
Alignment explanation
Indices: 91062891--91062946 Score: 67
Period size: 4 Copynumber: 14.0 Consensus size: 4
91062881 TATCTCTGTG
* ** * *
91062891 CATA CATA CATA CATA CATA CATA CATA CGTA TGTA CGTA CGTA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
91062939 CATA CATA
1 CATA CATA
91062947 TGAGAATACA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (4 bp):
CATA
Found at i:91067707 original size:21 final size:21
Alignment explanation
Indices: 91067683--91067722 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
91067673 TTATGAGAGT
* *
91067683 AGTTTATATTTTTTTTTAATA
1 AGTTTATAATTGTTTTTAATA
*
91067704 AGTTTGTAATTGTTTTTAA
1 AGTTTATAATTGTTTTTAA
91067723 AAATGGATGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (21 bp):
AGTTTATAATTGTTTTTAATA
Found at i:91072822 original size:135 final size:132
Alignment explanation
Indices: 91072583--91072844 Score: 384
Period size: 135 Copynumber: 2.0 Consensus size: 132
91072573 GAAGTGCATG
* *
91072583 GTTTGTTTCCTCAGCAAAGCAACTACTGCTAATTTTAAGGTGACTACTATCACTGTTTTCAGGAA
1 GTTTGTTTCCTCACCAAAGCAACTACTGCTAACTTTAAGGTGACTACTATCACTGTTTTCAGGAA
* * *
91072648 AAGTGCTTCTCGGATCCATGCATTCTAGAAGTCCATTAGGAACAGATTGGCAAAGACTAGTTACA
66 AAGTGCTCCTCAGATCCATGCATTCTAGAAGTCCATTAGGAACAGATTGGCAAAGACCAGTTACA
91072713 CA
131 CA
*
91072715 GTTTGTTTCCTCACCAAAGCAACTACTGCTAACTTTAAGGTGACTTTTTCTATCA-TCGCTTTT-
1 GTTTGTTTCCTCACCAAAGCAACTACTGCTAACTTTAAGGTGAC---TACTATCACT-G-TTTTC
* * *
91072778 AGGAAGAGTGCTCCTCAGATCCATGCATTCTAGAAGTCCTTTAGGAACAGATTGGTAAAGACCAG
61 AGGAAAAGTGCTCCTCAGATCCATGCATTCTAGAAGTCCATTAGGAACAGATTGGCAAAGACCAG
91072843 TT
126 TT
91072845 GCTTGGTGCA
Statistics
Matches: 116, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
132 42 0.36
134 1 0.01
135 69 0.59
136 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (132 bp):
GTTTGTTTCCTCACCAAAGCAACTACTGCTAACTTTAAGGTGACTACTATCACTGTTTTCAGGAA
AAGTGCTCCTCAGATCCATGCATTCTAGAAGTCCATTAGGAACAGATTGGCAAAGACCAGTTACA
CA
Found at i:91077842 original size:12 final size:12
Alignment explanation
Indices: 91077821--91077852 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
91077811 TCGACATTGC
*
91077821 TCTTCTTCTTCT
1 TCTTCCTCTTCT
91077833 TCTTCCTCTTCT
1 TCTTCCTCTTCT
91077845 TCTTCCTC
1 TCTTCCTC
91077853 AATAGCCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (12 bp):
TCTTCCTCTTCT
Found at i:91078317 original size:18 final size:18
Alignment explanation
Indices: 91078289--91078326 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
91078279 TGATTTTTTT
91078289 AAATGATAAAAATTATTAA
1 AAATGATAAAAATTA-TAA
*
91078308 AAAT-ATAAAACTTATAA
1 AAATGATAAAAATTATAA
91078325 AA
1 AA
91078327 GGAGTAGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 9 0.50
19 4 0.22
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
AAATGATAAAAATTATAA
Found at i:91078850 original size:9 final size:9
Alignment explanation
Indices: 91078832--91078898 Score: 52
Period size: 9 Copynumber: 7.3 Consensus size: 9
91078822 AACATAATAA
91078832 TAAT-TTTT
1 TAATATTTT
91078840 TAATATTTT
1 TAATATTTT
91078849 TAATAATTTT
1 TAAT-ATTTT
91078859 T-ATAGTTTT
1 TAATA-TTTT
91078868 CT-ATAATTTT
1 -TAAT-ATTTT
91078878 ATAATA-TTT
1 -TAATATTTT
*
91078887 TAATAATTT
1 TAATATTTT
91078896 TAA
1 TAA
91078899 GCTAAAATAA
Statistics
Matches: 51, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
8 10 0.20
9 23 0.45
10 15 0.29
11 3 0.06
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (9 bp):
TAATATTTT
Found at i:91078897 original size:19 final size:20
Alignment explanation
Indices: 91078829--91078897 Score: 81
Period size: 19 Copynumber: 3.5 Consensus size: 20
91078819 CATAACATAA
* *
91078829 TAATAATTTTTTAATATTTT
1 TAATAATTTTATAATAGTTT
91078849 TAATAATTTT-T-ATAGTTT
1 TAATAATTTTATAATAGTTT
*
91078867 TCTATAATTTTATAATA-TTT
1 T-AATAATTTTATAATAGTTT
91078887 TAATAATTTTA
1 TAATAATTTTA
91078898 AGCTAAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
18 7 0.16
19 18 0.42
20 15 0.35
21 3 0.07
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (20 bp):
TAATAATTTTATAATAGTTT
Found at i:91088550 original size:221 final size:221
Alignment explanation
Indices: 91088167--91088580 Score: 783
Period size: 221 Copynumber: 1.9 Consensus size: 221
91088157 CTTATTAGAA
*
91088167 GTTTACAAATTGCAGTAGGATTTTCGCATGAGGCCTTAGAAATATCAATTTTAAAAAAAGGCTAC
1 GTTTACAAATTGCAGTAGGATTTTCGCATGAGGCCTTAGAAATATCAATTTTAAAAAAAGGCCAC
* *
91088232 AACCGTAAGATCTTTTGTCACAGAGCTCACTAAGAAGCTTTCATGCAAAATAGAACTCTGTATTG
66 AACCGTAAGATCTTCTATCACAGAGCTCACTAAGAAGCTTTCATGCAAAATAGAACTCTGTATTG
91088297 ATAATTTGCAAGCCTTTAGGAGCCCATTTCACCATTACACTTAGTATATAAAGCTTCATGGTTTC
131 ATAATTTGCAAGCCTTTAGGAGCCCATTTCACCATTACACTTAGTATATAAAGCTTCATGGTTTC
91088362 ACATCTCAAACATCAGGGCTCATGAT
196 ACATCTCAAACATCAGGGCTCATGAT
*
91088388 GTTTACAAATTGCAGTAGGATTTTCGCATGAGGCGTTAGAAATATCAATTTTAAAAAAAGGCCAC
1 GTTTACAAATTGCAGTAGGATTTTCGCATGAGGCCTTAGAAATATCAATTTTAAAAAAAGGCCAC
91088453 AACCGTAAGATCTTCTATCACAGAGCTCACTAAGAAGCTTTCATGCAAAATAGAACTCTGTATTG
66 AACCGTAAGATCTTCTATCACAGAGCTCACTAAGAAGCTTTCATGCAAAATAGAACTCTGTATTG
*
91088518 ATAATTTGCAAGCCTTTAGGAGCCCATTTCACCATTACACTTAGTTTATAAAGCTTCATGGTT
131 ATAATTTGCAAGCCTTTAGGAGCCCATTTCACCATTACACTTAGTATATAAAGCTTCATGGTT
91088581 AAGGGAACTT
Statistics
Matches: 188, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
221 188 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (221 bp):
GTTTACAAATTGCAGTAGGATTTTCGCATGAGGCCTTAGAAATATCAATTTTAAAAAAAGGCCAC
AACCGTAAGATCTTCTATCACAGAGCTCACTAAGAAGCTTTCATGCAAAATAGAACTCTGTATTG
ATAATTTGCAAGCCTTTAGGAGCCCATTTCACCATTACACTTAGTATATAAAGCTTCATGGTTTC
ACATCTCAAACATCAGGGCTCATGAT
Found at i:91089042 original size:7 final size:7
Alignment explanation
Indices: 91089030--91089058 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
91089020 GACACCACAA
91089030 ACTTGAC
1 ACTTGAC
91089037 ACTTGAC
1 ACTTGAC
91089044 ACTTGAC
1 ACTTGAC
91089051 ACTTGAC
1 ACTTGAC
91089058 A
1 A
91089059 TGTAACATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (7 bp):
ACTTGAC
Found at i:91095533 original size:3 final size:3
Alignment explanation
Indices: 91095525--91095561 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
91095515 AAAAGTAGAT
91095525 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
91095562 AAGGTTTAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:91098635 original size:20 final size:20
Alignment explanation
Indices: 91098598--91098636 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
91098588 ATAATTTCTA
*
91098598 AAAATCAATTAAATAATCAT
1 AAAATCAATTAAAAAATCAT
91098618 AAAAT-AATTAGAAAAATCA
1 AAAATCAATTA-AAAAATCA
91098637 ATTAAATCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.26
Consensus pattern (20 bp):
AAAATCAATTAAAAAATCAT
Found at i:91101862 original size:26 final size:26
Alignment explanation
Indices: 91101820--91101871 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
91101810 CGAGCCCGTA
91101820 AGTTGGTTAACTAGTAATTCAACATG
1 AGTTGGTTAACTAGTAATTCAACATG
* *
91101846 AGTTGGTTTACTTGTAATTCAACATG
1 AGTTGGTTAACTAGTAATTCAACATG
91101872 TACTTGTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (26 bp):
AGTTGGTTAACTAGTAATTCAACATG
Found at i:91105295 original size:54 final size:54
Alignment explanation
Indices: 91105231--91105342 Score: 224
Period size: 54 Copynumber: 2.1 Consensus size: 54
91105221 AAGTGATGAG
91105231 TATGCATAAATATTTATTCTTACATCAAGTATTAAACAAGAGTTCTAATGGCCT
1 TATGCATAAATATTTATTCTTACATCAAGTATTAAACAAGAGTTCTAATGGCCT
91105285 TATGCATAAATATTTATTCTTACATCAAGTATTAAACAAGAGTTCTAATGGCCT
1 TATGCATAAATATTTATTCTTACATCAAGTATTAAACAAGAGTTCTAATGGCCT
91105339 TATG
1 TATG
91105343 AAAACCATTG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.38
Consensus pattern (54 bp):
TATGCATAAATATTTATTCTTACATCAAGTATTAAACAAGAGTTCTAATGGCCT
Found at i:91119644 original size:41 final size:40
Alignment explanation
Indices: 91119550--91119661 Score: 120
Period size: 41 Copynumber: 2.7 Consensus size: 40
91119540 TTAAAATTAC
* **
91119550 ATTAGATTTCAGATTTTTAATTTTAATTAGATTTAAGTTTAA
1 ATTAGATTTTAGATTTTT-ATTTTAATTA-ATTTAAGACTAA
*
91119592 ATTAG-TGTTTAGATTTTTATGTTTAAATT-TTTTAAGACTAA
1 ATTAGAT-TTTAGATTTTTAT-TTT-AATTAATTTAAGACTAA
91119633 ATTAGATTTTAGATTTTTAATTTTAATTA
1 ATTAGATTTTAGATTTTT-ATTTTAATTA
91119662 TTTCTTTTAA
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
40 4 0.07
41 31 0.52
42 21 0.35
43 4 0.07
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (40 bp):
ATTAGATTTTAGATTTTTATTTTAATTAATTTAAGACTAA
Found at i:91119712 original size:26 final size:28
Alignment explanation
Indices: 91119668--91119721 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
91119658 ATTATTTCTT
91119668 TTAAGTTAAGATTAGATTTTTAA-ATTA
1 TTAAGTTAAGATTAGATTTTTAATATTA
* *
91119695 TTAAGTTTA-ATTATATTTTTAATATTA
1 TTAAGTTAAGATTAGATTTTTAATATTA
91119722 AATTAATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (28 bp):
TTAAGTTAAGATTAGATTTTTAATATTA
Found at i:91122491 original size:16 final size:17
Alignment explanation
Indices: 91122460--91122492 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
91122450 TTCATAAGTA
91122460 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
91122477 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
91122493 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:91122905 original size:16 final size:14
Alignment explanation
Indices: 91122892--91122922 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
91122882 TGCCATGGTA
91122892 TCTTTCAACCATGG
1 TCTTTCAACCATGG
91122906 -CTTTCAACCATGG
1 TCTTTCAACCATGG
91122919 TCTT
1 TCTT
91122923 ACACATTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.81
14 3 0.19
ACGTcount: A:0.19, C:0.29, G:0.13, T:0.39
Consensus pattern (14 bp):
TCTTTCAACCATGG
Found at i:91122921 original size:59 final size:59
Alignment explanation
Indices: 91122847--91122964 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
91122837 GCCATGGTAT
*
91122847 CTTTCAACCATGGTCTTACACATTTCATATTAGGTTGCCATGGTATCTTTCAACCATGG
1 CTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGG
91122906 CTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGG
1 CTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGG
91122965 TCTTACACAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (59 bp):
CTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGG
Found at i:91126955 original size:37 final size:37
Alignment explanation
Indices: 91126904--91126989 Score: 129
Period size: 37 Copynumber: 2.3 Consensus size: 37
91126894 TTAGTTGAAG
* *
91126904 ATAGAAAAATTGGCGTAATGGAGGAATGGACAGATTTA
1 ATAG-AAAATTGGCGTAATAGAGGAATGGACAGATTGA
91126942 ATAGAAAATTGGCGTAATAGAGGAATGGACAGATTGA
1 ATAGAAAATTGGCGTAATAGAGGAATGGACAGATTGA
*
91126979 AT-GAGAATTGG
1 ATAGAAAATTGG
91126990 AGTCACTGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
36 8 0.18
37 33 0.73
38 4 0.09
ACGTcount: A:0.42, C:0.05, G:0.30, T:0.23
Consensus pattern (37 bp):
ATAGAAAATTGGCGTAATAGAGGAATGGACAGATTGA
Found at i:91127121 original size:35 final size:35
Alignment explanation
Indices: 91127079--91127158 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
91127069 TTGGATGGAT
* * *
91127079 AAATGATCTACTGGTTCTA-AGGAACGACATCATGG
1 AAATGATCTACTGGCTCTACA-GAACGACACCATGA
91127114 AAATGATCTACTGGCTCTACAGAACGACACCATGA
1 AAATGATCTACTGGCTCTACAGAACGACACCATGA
*
91127149 AAATGGTCTA
1 AAATGATCTA
91127159 TTGACTCTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 39 0.98
36 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (35 bp):
AAATGATCTACTGGCTCTACAGAACGACACCATGA
Found at i:91128794 original size:25 final size:25
Alignment explanation
Indices: 91128749--91128798 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
91128739 TTAGTGTTAG
* *
91128749 CGATTCATAGCTCGTGAGAGCATAC
1 CGATTCATAACTCATGAGAGCATAC
91128774 CGATTCATAACTCAT-ATGAGCATAC
1 CGATTCATAACTCATGA-GAGCATAC
91128799 ATGTACATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (25 bp):
CGATTCATAACTCATGAGAGCATAC
Found at i:91130058 original size:41 final size:42
Alignment explanation
Indices: 91130013--91130093 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
91130003 CTGGCACACA
*
91130013 GGCGTGTGGGGTTACAT-TAAGGGTACACAGCCTGACACATG
1 GGCGTGTGGGGTTACATCGAAGGGTACACAGCCTGACACATG
* * *
91130054 GGCGTGTGGGGTTACATCGAAGGGTGCACGGCCTGGCACA
1 GGCGTGTGGGGTTACATCGAAGGGTACACAGCCTGACACA
91130094 CAGGTGTGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 17 0.49
42 18 0.51
ACGTcount: A:0.21, C:0.21, G:0.38, T:0.20
Consensus pattern (42 bp):
GGCGTGTGGGGTTACATCGAAGGGTACACAGCCTGACACATG
Found at i:91130103 original size:42 final size:41
Alignment explanation
Indices: 91129996--91130104 Score: 146
Period size: 41 Copynumber: 2.6 Consensus size: 41
91129986 ACGGCCTAGC
*
91129996 ACACGGCCTGGCACACAGGCGTGTGGGGTTACATTAAGGGT
1 ACACGGCCTGGCACACAGGCGTGTGGGGTTACATGAAGGGT
* * **
91130037 ACACAGCCTGACACATGGGCGTGTGGGGTTACATCGAAGGGT
1 ACACGGCCTGGCACACAGGCGTGTGGGGTTACAT-GAAGGGT
* *
91130079 GCACGGCCTGGCACACAGGTGTGTGG
1 ACACGGCCTGGCACACAGGCGTGTGG
91130105 CTTGGCTGTG
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
41 30 0.54
42 26 0.46
ACGTcount: A:0.21, C:0.23, G:0.38, T:0.18
Consensus pattern (41 bp):
ACACGGCCTGGCACACAGGCGTGTGGGGTTACATGAAGGGT
Found at i:91130897 original size:21 final size:21
Alignment explanation
Indices: 91130863--91130902 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
91130853 ATCATGTACC
91130863 AATTAATAATATATATAAATT
1 AATTAATAATATATATAAATT
*
91130884 AATT-ATAATGATATCTAAA
1 AATTAATAAT-ATATATAAA
91130903 AATATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (21 bp):
AATTAATAATATATATAAATT
Found at i:91131203 original size:17 final size:16
Alignment explanation
Indices: 91131171--91131203 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
91131161 TACAATGGTA
91131171 TGTTTTTATTAGTTTT
1 TGTTTTTATTAGTTTT
91131187 TGTTTTATATTA-TTTT
1 TGTTTT-TATTAGTTTT
91131203 T
1 T
91131204 AATTAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (16 bp):
TGTTTTTATTAGTTTT
Found at i:91131239 original size:23 final size:24
Alignment explanation
Indices: 91131200--91131246 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
91131190 TTTATATTAT
*
91131200 TTTTAATTAATATATAT-TTTTAA
1 TTTTAATTAATAAATATATTTTAA
91131223 TTTTAATTAGA-AAATATATTTTAA
1 TTTTAATTA-ATAAATATATTTTAA
91131247 AAATAGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTTAATTAATAAATATATTTTAA
Found at i:91132053 original size:29 final size:29
Alignment explanation
Indices: 91131987--91132053 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
91131977 TTCTTAGTCT
* *
91131987 AAAATTTA-AAAAAAATGTCATTTTTTTA
1 AAAATTTACAAAAAAAGGTCAATTTTTTA
* *
91132015 AAAATATTACAAAAATAGGTCAATTTTTTG
1 AAAAT-TTACAAAAAAAGGTCAATTTTTTA
91132045 AAAATTTAC
1 AAAATTTAC
91132054 GAGAATAAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 5 0.15
29 7 0.21
30 21 0.64
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (29 bp):
AAAATTTACAAAAAAAGGTCAATTTTTTA
Found at i:91133046 original size:15 final size:15
Alignment explanation
Indices: 91133016--91133044 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
91133006 ACTATTAGTA
91133016 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
91133031 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
91133045 TAACATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:91139069 original size:41 final size:40
Alignment explanation
Indices: 91139023--91139102 Score: 108
Period size: 42 Copynumber: 2.0 Consensus size: 40
91139013 TTGTAATATT
91139023 ATTA-TTTATACTAACTATTTAAAAGATATTTAAATATTTAG
1 ATTATTTTATACTAACTATTTAAAA-ATATTTAAA-ATTTAG
* * *
91139064 ATTATTTTATATTAATTATTTACAAATATTTAAAATTTA
1 ATTATTTTATACTAACTATTTAAAAATATTTAAAATTTA
91139103 TATTTCATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
40 5 0.14
41 13 0.37
42 17 0.49
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.50
Consensus pattern (40 bp):
ATTATTTTATACTAACTATTTAAAAATATTTAAAATTTAG
Found at i:91142253 original size:17 final size:18
Alignment explanation
Indices: 91142216--91142253 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
91142206 TTACTTGGGT
*
91142216 AACAATCCTCGATATCAA
1 AACAATCCTCGATAGCAA
*
91142234 AACAATCCT-TATAGCAA
1 AACAATCCTCGATAGCAA
91142251 AAC
1 AAC
91142254 TTACAATGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.47, C:0.26, G:0.05, T:0.21
Consensus pattern (18 bp):
AACAATCCTCGATAGCAA
Found at i:91151548 original size:26 final size:26
Alignment explanation
Indices: 91151519--91151579 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
91151509 CATTTAGAAA
*
91151519 GCTTTGAGCAGGTGA-TATTTTAACAG
1 GCTTTGAGCAGATGATTA-TTTAACAG
** *
91151545 GCTTTGAGTTGATGATTATTTAGCAG
1 GCTTTGAGCAGATGATTATTTAACAG
91151571 GCTTTGAGC
1 GCTTTGAGC
91151580 TAGTATTTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 27 0.93
27 2 0.07
ACGTcount: A:0.23, C:0.11, G:0.28, T:0.38
Consensus pattern (26 bp):
GCTTTGAGCAGATGATTATTTAACAG
Found at i:91152755 original size:21 final size:21
Alignment explanation
Indices: 91152729--91152774 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
91152719 CGGTTTGAGA
*
91152729 ACACGGGCGTGTGAAGTAGTC
1 ACACGGGCGTGTGAAGTAGCC
*
91152750 ACACGGGCGTGTGCAGTAGCC
1 ACACGGGCGTGTGAAGTAGCC
91152771 ACAC
1 ACAC
91152775 AGGCTAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.26, G:0.35, T:0.15
Consensus pattern (21 bp):
ACACGGGCGTGTGAAGTAGCC
Found at i:91152972 original size:40 final size:40
Alignment explanation
Indices: 91152901--91152993 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
91152891 ACGTAGAGTG
* *** *
91152901 CTTTACCTCGTGTCAGCAAAAGCGTGTTGACGTGGGCACA
1 CTTTACCCCGTGTCAGCAAAAGCGCACTGACGTGGCCACA
* * *
91152941 CTTTACCCCTTGTCAGCAAAAGTGCACTGACGTGGCCACG
1 CTTTACCCCGTGTCAGCAAAAGCGCACTGACGTGGCCACA
*
91152981 CTTTACCTCGTGT
1 CTTTACCCCGTGT
91152994 TTGATTAGGG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (40 bp):
CTTTACCCCGTGTCAGCAAAAGCGCACTGACGTGGCCACA
Found at i:91155398 original size:20 final size:20
Alignment explanation
Indices: 91155352--91155391 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
91155342 ATTTTTGGAT
91155352 AACTCGAATTGTGTAATTTA
1 AACTCGAATTGTGTAATTTA
91155372 AACTCGAATTGTGTAATTTA
1 AACTCGAATTGTGTAATTTA
91155392 GATTCGAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (20 bp):
AACTCGAATTGTGTAATTTA
Found at i:91157658 original size:40 final size:40
Alignment explanation
Indices: 91157614--91157717 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 40
91157604 AGAAAAACAT
* * *
91157614 GGGGTAAAATGCACCCACGTTAGCGCGCTTTTGCTGACAC
1 GGGGTAAAGTGCACCCACGTCAGCGCACTTTTGCTGACAC
* * * * *
91157654 GGGGTAATGTTCGCCCACGTCAGCTCACTTTTGTTGACAC
1 GGGGTAAAGTGCACCCACGTCAGCGCACTTTTGCTGACAC
*
91157694 GGGGTAAAGTGCTCCCACGTCAGC
1 GGGGTAAAGTGCACCCACGTCAGC
91157718 ATGCTTTTCT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.20, C:0.28, G:0.28, T:0.24
Consensus pattern (40 bp):
GGGGTAAAGTGCACCCACGTCAGCGCACTTTTGCTGACAC
Found at i:91163468 original size:28 final size:28
Alignment explanation
Indices: 91163428--91163484 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
91163418 GAACTGAAAG
*
91163428 TTGGTACGCTAGGTATATGAGTTCTACA
1 TTGGTACACTAGGTATATGAGTTCTACA
91163456 TTGGTACACTAGGTATATGAGTTCTACA
1 TTGGTACACTAGGTATATGAGTTCTACA
91163484 T
1 T
91163485 GATGTAGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (28 bp):
TTGGTACACTAGGTATATGAGTTCTACA
Found at i:91164125 original size:21 final size:21
Alignment explanation
Indices: 91164080--91164126 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
91164070 ATAGGACTTA
**
91164080 TAAATTA--ATTTAATTTCTT
1 TAAATTATTATTTAATTGATT
91164099 TAAATTATTATTTAATTGATT
1 TAAATTATTATTTAATTGATT
*
91164120 TTAATTA
1 TAAATTA
91164127 AGTAATTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
21 16 0.70
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TAAATTATTATTTAATTGATT
Found at i:91168490 original size:17 final size:17
Alignment explanation
Indices: 91168466--91168500 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
91168456 TTGGGTTGAG
91168466 AAAATAA-TTTAATTAA
1 AAAATAATTTTAATTAA
91168482 AAAATTAATTTTAATTAA
1 AAAA-TAATTTTAATTAA
91168500 A
1 A
91168501 TGAATTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 3 0.18
18 10 0.59
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATAATTTTAATTAA
Found at i:91173106 original size:44 final size:43
Alignment explanation
Indices: 91173056--91173212 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
91173046 TGTGATTTTG
*
91173056 TGTAAGACCACATCTGGGACATTGGCATCGACT-TTTGTTTTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTG-TTTACA
* * * *
91173100 TGTAAGACCATGTCTAGGACATCGGCATCG-TATTTGATTT-CG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTG-TTTACA
** * * * *
91173142 TGTAAGACCTTGTTTGGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGTTTACA
* *
91173185 TGTAAGATCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
91173213 TGTATATGTT
Statistics
Matches: 90, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 29 0.32
43 35 0.39
44 26 0.29
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGTTTACA
Found at i:91173162 original size:42 final size:43
Alignment explanation
Indices: 91173056--91173191 Score: 125
Period size: 42 Copynumber: 3.2 Consensus size: 43
91173046 TGTGATTTTG
** * * *
91173056 TGTAAGACCACATCTGGGACATTGGCATCGACT-TTTGTTTTACA
1 TGTAAGACCATGTCTAGGACAGTGGCATCGA-TATTTG-ATTACA
* *
91173100 TGTAAGACCATGTCTAGGACA-TCGGCATCG-TATTTGATTTCG
1 TGTAAGACCATGTCTAGGACAGT-GGCATCGATATTTGATTACA
* * * *
91173142 TGTAAGACCTTGTTTGGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTAGGACAGTGGCATCGATATTTGATTACA
91173185 TGTAAGA
1 TGTAAGA
91173192 TCACGTCTGG
Statistics
Matches: 76, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
42 29 0.38
43 22 0.29
44 25 0.33
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACAGTGGCATCGATATTTGATTACA
Found at i:91177761 original size:28 final size:28
Alignment explanation
Indices: 91177721--91177825 Score: 110
Period size: 27 Copynumber: 3.9 Consensus size: 28
91177711 GTCTCAATTT
* * *
91177721 GCCACAAAAGCTTTC-CTTTCCTTAGATC
1 GCCACAAAGGCTTTCAATTT-CATAGATC
*
91177749 GCCACAAAGGC-TTCAATTTCATAGATT
1 GCCACAAAGGCTTTCAATTTCATAGATC
*
91177776 GCCACAAAGGC-TTCAATTTCATAGATT
1 GCCACAAAGGCTTTCAATTTCATAGATC
* *
91177803 ACCACAAAGGC-TTCCATTTCATA
1 GCCACAAAGGCTTTCAATTTCATA
91177826 TATTTCCACA
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
27 57 0.81
28 13 0.19
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (28 bp):
GCCACAAAGGCTTTCAATTTCATAGATC
Found at i:91177773 original size:27 final size:27
Alignment explanation
Indices: 91177743--91177848 Score: 149
Period size: 27 Copynumber: 3.9 Consensus size: 27
91177733 TTCCTTTCCT
*
91177743 TAGATCGCCACAAAGGCTTCAATTTCA
1 TAGATTGCCACAAAGGCTTCAATTTCA
91177770 TAGATTGCCACAAAGGCTTCAATTTCA
1 TAGATTGCCACAAAGGCTTCAATTTCA
* *
91177797 TAGATTACCACAAAGGCTTCCATTTCA
1 TAGATTGCCACAAAGGCTTCAATTTCA
* * * *
91177824 TATATTTCCACAAATGCTTCTATTT
1 TAGATTGCCACAAAGGCTTCAATTT
91177849 TCTCGTGAGT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (27 bp):
TAGATTGCCACAAAGGCTTCAATTTCA
Found at i:91177778 original size:55 final size:55
Alignment explanation
Indices: 91177719--91177842 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 55
91177709 ATGTCTCAAT
* * *
91177719 TTGCCACAAAAGCTTTC-CTTTCCTTAGATCGCCACAAAGGCTTCAATTTCATAGA
1 TTGCCACAAAAGCTTTCAATTT-CATAGATCACCACAAAGGCTTCAATTTCATAGA
* * * *
91177774 TTGCCACAAAGGC-TTCAATTTCATAGATTACCACAAAGGCTTCCATTTCATATA
1 TTGCCACAAAAGCTTTCAATTTCATAGATCACCACAAAGGCTTCAATTTCATAGA
* *
91177828 TTTCCACAAATGCTT
1 TTGCCACAAAAGCTT
91177843 CTATTTTCTC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
54 42 0.72
55 16 0.28
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (55 bp):
TTGCCACAAAAGCTTTCAATTTCATAGATCACCACAAAGGCTTCAATTTCATAGA
Found at i:91182557 original size:52 final size:52
Alignment explanation
Indices: 91182448--91182603 Score: 143
Period size: 52 Copynumber: 3.0 Consensus size: 52
91182438 TGACGGAAAA
** * *
91182448 GATGTGATATGTGCGCCTGTATAAGACCATAGCTAGGCTATGGTATCGGTAC
1 GATGTGATATGTGTTCCCGTATAAGACCATAGCTAGGCTATGGCATCGGTAC
* * * * * **
91182500 AATGTGATACGTGTTCCCGTATAAGACCATAGTTGGGCTATGGCGTCGGTGT
1 GATGTGATATGTGTTCCCGTATAAGACCATAGCTAGGCTATGGCATCGGTAC
* * * * *
91182552 GATGTGGTAATGTGATT-CCGTATAAGACCATATCTGGGATATAGCATCGGTA
1 GATGTGAT-ATGTG-TTCCCGTATAAGACCATAGCTAGGCTATGGCATCGGTA
91182604 TTATATGTGA
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
52 47 0.57
53 33 0.40
54 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (52 bp):
GATGTGATATGTGTTCCCGTATAAGACCATAGCTAGGCTATGGCATCGGTAC
Found at i:91197303 original size:44 final size:43
Alignment explanation
Indices: 91197205--91197321 Score: 146
Period size: 44 Copynumber: 2.7 Consensus size: 43
91197195 AGCTTGTACA
* * * * *
91197205 ATGCCAACGTCCTAGACGTGGTCTTAC-CCAAAATCATATACG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAAATCACAAACG
* * *
91197247 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAAATCACAAA-CG
91197291 ATGCCAACGTCCCAGACATGGTCTTACACGA
1 ATGCCAACGTCCCAGACATGGTCTTACACGA
91197322 TAACACATAT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 24 0.38
43 9 0.14
44 30 0.48
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAAATCACAAACG
Found at i:91199276 original size:34 final size:35
Alignment explanation
Indices: 91199199--91199282 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 35
91199189 ATCCTTTGTT
* *
91199199 TGCATACTG-TACTAAAATGGGTTAAGGCCCAGAC
1 TGCATACTGTTACTGAAATGGGTCAAGGCCCAGAC
*
91199233 TGCCT-CTGTTACTGAAATGGGCTCAA-GCCCAGAC
1 TGCATACTGTTACTGAAATGGG-TCAAGGCCCAGAC
*
91199267 TG-ATACTGTTAATGAA
1 TGCATACTGTTACTGAA
91199283 CAGGGGCTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
33 4 0.10
34 35 0.83
35 3 0.07
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (35 bp):
TGCATACTGTTACTGAAATGGGTCAAGGCCCAGAC
Found at i:91210919 original size:34 final size:35
Alignment explanation
Indices: 91210842--91210925 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 35
91210832 ATCCTTTGTT
* *
91210842 TGCATACTG-TACTAAAATGGGTTAAGGCCCAGAC
1 TGCATACTGTTACTGAAATGGGTCAAGGCCCAGAC
*
91210876 TGCCT-CTGTTACTGAAATGGGCTCAA-GCCCAGAC
1 TGCATACTGTTACTGAAATGGG-TCAAGGCCCAGAC
*
91210910 TG-ATACTGTTAATGAA
1 TGCATACTGTTACTGAA
91210926 CAGGGGCTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
33 4 0.10
34 35 0.83
35 3 0.07
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (35 bp):
TGCATACTGTTACTGAAATGGGTCAAGGCCCAGAC
Found at i:91216456 original size:43 final size:43
Alignment explanation
Indices: 91216386--91216492 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
91216376 TGTGGTTTCG
** ** * *
91216386 TGTAAGACCATATCTGGGGCATTGGCATCAATATGAGATTACG
1 TGTAAGACCATATCTGGGATAGAGGCATCAATATGAGATAACA
* * * *
91216429 TGTAAGACCCTATTTGGGATAGAGGCATCGATATGTGATAACA
1 TGTAAGACCATATCTGGGATAGAGGCATCAATATGAGATAACA
91216472 TGTAAGACCATATCTGGGATA
1 TGTAAGACCATATCTGGGATA
91216493 TGGCATTGTA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGATAGAGGCATCAATATGAGATAACA
Found at i:91220304 original size:25 final size:26
Alignment explanation
Indices: 91220241--91220311 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 26
91220231 AAAACCAAAC
*
91220241 AAAGCC-TATGTGACAAATTATCTAG
1 AAAGCCTTATGTGGCAAATTATCTAG
* *
91220266 AAAGCCTT-TATGGCAAGTTATCT-G
1 AAAGCCTTATGTGGCAAATTATCTAG
* *
91220290 AAAGGCTTATGTGGCATATTAT
1 AAAGCCTTATGTGGCAAATTAT
91220312 TTGGAAAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
24 8 0.22
25 28 0.76
26 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (26 bp):
AAAGCCTTATGTGGCAAATTATCTAG
Found at i:91220407 original size:25 final size:25
Alignment explanation
Indices: 91220241--91220407 Score: 65
Period size: 25 Copynumber: 6.7 Consensus size: 25
91220231 AAAACCAAAC
* * * *
91220241 AAAGCCTATGTGACAAATTATCTAG
1 AAAGCCTTTATGACAAGTTATCTGG
*
91220266 AAAGCCTTTATGGCAAGTTATCT-G
1 AAAGCCTTTATGACAAGTTATCTGG
* * * *
91220290 AAAGGCTTATGTGGCATA-TTATTTGG
1 AAAGCCTT-TATGACA-AGTTATCTGG
**** ** *
91220316 AAAAAAATTATGATGAGTTATCTGA
1 AAAGCCTTTATGACAAGTTATCTGG
* * *
91220341 AAAGCCTATGTGAC-A-TTATTTGG
1 AAAGCCTTTATGACAAGTTATCTGG
* **
91220364 GAAGCC-TTAGTGGTGAAGTTATCTGG
1 AAAGCCTTTA-T-GACAAGTTATCTGG
91220390 AAAGCCTTTATGACAAGT
1 AAAGCCTTTATGACAAGT
91220408 CATATGAAAA
Statistics
Matches: 98, Mismatches: 35, Indels: 18
0.65 0.23 0.12
Matches are distributed among these distances:
22 1 0.01
23 12 0.12
24 11 0.11
25 52 0.53
26 19 0.19
27 3 0.03
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (25 bp):
AAAGCCTTTATGACAAGTTATCTGG
Found at i:91224302 original size:15 final size:12
Alignment explanation
Indices: 91224248--91224290 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
91224238 AGTTATATTA
91224248 TAAATATAA-TT
1 TAAATATAATTT
*
91224259 TAATATATAGTATT
1 TAA-ATATAAT-TT
91224273 TAAATATAATTT
1 TAAATATAATTT
91224285 TAAATA
1 TAAATA
91224291 ATAAATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 3 0.11
12 13 0.48
13 6 0.22
14 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (12 bp):
TAAATATAATTT
Found at i:91227752 original size:17 final size:18
Alignment explanation
Indices: 91227732--91227765 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
91227722 ATATAATTAG
*
91227732 TTTAAATTAT-TTTTTAT
1 TTTAAATGATATTTTTAT
91227749 TTTAAATGATATTTTTA
1 TTTAAATGATATTTTTA
91227766 CTTATTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTAAATGATATTTTTAT
Found at i:91228446 original size:23 final size:23
Alignment explanation
Indices: 91228393--91228446 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
91228383 ATATTTATTC
* *
91228393 AAAAAAAT-AAAAAAAAATATTT
1 AAAAAATTCAAAAAAAAAAATTT
* *
91228415 -TAAATTTCAAAAAAAAAAATTT
1 AAAAAATTCAAAAAAAAAAATTT
91228437 AAAAAATTCA
1 AAAAAATTCA
91228447 TATGTAACAA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
21 4 0.17
22 13 0.54
23 7 0.29
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (23 bp):
AAAAAATTCAAAAAAAAAAATTT
Found at i:91229309 original size:16 final size:16
Alignment explanation
Indices: 91229290--91229323 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
91229280 AAGATTACCA
91229290 TAATTCATGTAAAAGG
1 TAATTCATGTAAAAGG
91229306 TAATTCATGTAAAAGG
1 TAATTCATGTAAAAGG
91229322 TA
1 TA
91229324 TCATAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (16 bp):
TAATTCATGTAAAAGG
Found at i:91230802 original size:41 final size:41
Alignment explanation
Indices: 91230752--91230834 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
91230742 GGAAAAGTAC
91230752 TCTAAAATTTTAATTTTATCATTTCAACCAAAATACAGAAG
1 TCTAAAATTTTAATTTTATCATTTCAACCAAAATACAGAAG
* *
91230793 TCTAAAATTTTAATTTTATTATTTCAACCAAAATACGGAAG
1 TCTAAAATTTTAATTTTATCATTTCAACCAAAATACAGAAG
91230834 T
1 T
91230835 GTTACATTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (41 bp):
TCTAAAATTTTAATTTTATCATTTCAACCAAAATACAGAAG
Found at i:91231357 original size:31 final size:30
Alignment explanation
Indices: 91231322--91231388 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
91231312 TGAGAAACCC
* *
91231322 TTATTTAAAC-ATTTGTAAAAAGTTTTGATTT
1 TTATTT-AACTATTT-TAAAAAGTTTTAACTT
* *
91231353 TTATTTGACTATTTTAAAATGTTTTAACTT
1 TTATTTAACTATTTTAAAAAGTTTTAACTT
91231383 TTATTT
1 TTATTT
91231389 GAGCACGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 21 0.68
31 10 0.32
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.57
Consensus pattern (30 bp):
TTATTTAACTATTTTAAAAAGTTTTAACTT
Found at i:91231377 original size:30 final size:31
Alignment explanation
Indices: 91231332--91231390 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
91231322 TTATTTAAAC
* *
91231332 ATTTGTAAAAAGTTTTGATTTTTATTTGACT
1 ATTTGTAAAAAGTTTTAACTTTTATTTGACT
*
91231363 ATTT-TAAAATGTTTTAACTTTTATTTGA
1 ATTTGTAAAAAGTTTTAACTTTTATTTGA
91231391 GCACGTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (31 bp):
ATTTGTAAAAAGTTTTAACTTTTATTTGACT
Found at i:91232429 original size:11 final size:11
Alignment explanation
Indices: 91232415--91232460 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
91232405 CTCCTCTCAC
91232415 AATTCTCTCTA
1 AATTCTCTCTA
*
91232426 AATTCTTTCTA
1 AATTCTCTCTA
91232437 AATTCTCTC-A
1 AATTCTCTCTA
*
91232447 AATT-TCTCTC
1 AATTCTCTCTA
91232457 AATT
1 AATT
91232461 TTTGTCAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 4 0.13
10 9 0.29
11 18 0.58
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (11 bp):
AATTCTCTCTA
Found at i:91232691 original size:25 final size:24
Alignment explanation
Indices: 91232654--91232705 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
91232644 TTGAATAGTA
** *
91232654 TTTAATTTTTTTTCATTTATGTAAT
1 TTTAATTAATTTTCATTT-TATAAT
*
91232679 TTTAATTAATTTTTATTTTATAAT
1 TTTAATTAATTTTCATTTTATAAT
91232703 TTT
1 TTT
91232706 TTTATAATAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTAATTAATTTTCATTTTATAAT
Found at i:91237449 original size:125 final size:127
Alignment explanation
Indices: 91237208--91237572 Score: 560
Period size: 129 Copynumber: 2.9 Consensus size: 127
91237198 AAAACATTTC
* *
91237208 TATATAG-TTTCATATAATAAAATAAAAGTTGTTTTTAATATTTTAAGTGTACTTTA-TTTTTTA
1 TATATAGTTTTAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTTTTA
*
91237271 ATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTA-TTTT-TA-TATTTTT
65 ATTTTATTAAAATAAATGTTATTTTAAATTAGCCAATATTTTTATTATTTTTATATTATTTTT
*
91237331 TATATAGTTTTAATTAATAAAATAAAATTTGTTTTTAATATTTTAATTGTACTTTACTTTTTCTA
1 TATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTTT-TA
91237396 ATTTTATTAAAATAAATGTTATTTTAAATTAGCCAATATTTTTATTATTTTTATATTTATTTTT
65 ATTTTATTAAAATAAATGTTATTTTAAATTAGCCAATATTTTTATTATTTTTATA-TTATTTTT
*
91237460 TATATAGTTTTAATTAATAAAATAAAAGTTATTTTTAATATTTTAATTGTACTTTACTTTTTTTA
1 TATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAC-TTTTTTA
* * * * *
91237525 ATTTTAATACATTAAATATTTTTTTAAATTAGCCAATAATTTTTATTA
65 ATTTTATTAAAATAAATGTTATTTTAAATTAGCCAAT-ATTTTTATTA
91237573 AAATAAATGT
Statistics
Matches: 222, Mismatches: 11, Indels: 11
0.91 0.05 0.05
Matches are distributed among these distances:
123 47 0.21
124 10 0.05
125 48 0.22
126 4 0.02
127 2 0.01
129 96 0.43
130 15 0.07
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (127 bp):
TATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTTTTAA
TTTTATTAAAATAAATGTTATTTTAAATTAGCCAATATTTTTATTATTTTTATATTATTTTT
Found at i:91246590 original size:46 final size:46
Alignment explanation
Indices: 91246536--91247357 Score: 1190
Period size: 46 Copynumber: 18.0 Consensus size: 46
91246526 GCTCTCTGAA
91246536 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
91246582 -TAGAAATGTGTAAAACCATGGTTGAAAGATATCATGGCAACATGAT
1 AT-GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
91246628 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
91246674 ATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * *
91246720 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGTAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
91246765 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
91246811 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
**
91246857 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
91246902 ATGAAATGTGCAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
91246948 -TAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 AT-GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
91246994 ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * * *
91247040 ATGAAA-GAATAAGACCATAGTTGAAAGATACCATGGCAACCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
91247085 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATTAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
91247131 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
91247177 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACTTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
91247222 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * * *
91247268 ATGAAATGAACAAGACCATGGTTGTAAGATACCATGACAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
91247314 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
91247358 TCAAAGATAA
Statistics
Matches: 697, Mismatches: 70, Indels: 18
0.89 0.09 0.02
Matches are distributed among these distances:
45 161 0.23
46 534 0.77
47 2 0.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:91246632 original size:25 final size:25
Alignment explanation
Indices: 91246604--91246679 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
91246594 AAACCATGGT
91246604 TGAAAGATATCATGGCAACATGATA
1 TGAAAGATATCATGGCAACATGATA
* * * *
91246629 TGAAATG-TGT-A-AG-ACCATGGT-
1 TGAAA-GATATCATGGCAACATGATA
*
91246650 TGAAAGATACCATGGCAACATGATA
1 TGAAAGATATCATGGCAACATGATA
91246675 TGAAA
1 TGAAA
91246680 TGTGTAAGAC
Statistics
Matches: 36, Mismatches: 9, Indels: 12
0.63 0.16 0.21
Matches are distributed among these distances:
20 1 0.03
21 6 0.17
22 7 0.19
23 2 0.06
24 7 0.19
25 12 0.33
26 1 0.03
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (25 bp):
TGAAAGATATCATGGCAACATGATA
Found at i:91246783 original size:137 final size:138
Alignment explanation
Indices: 91246536--91247357 Score: 1190
Period size: 137 Copynumber: 6.0 Consensus size: 138
91246526 GCTCTCTGAA
** *
91246536 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT-TAGAAATGTGTAAAACCA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT-GAAATGAATAAGACCA
* * *
91246600 TGGTTGAAAGATATCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGG
65 TGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGG
91246665 CAACATGAT
130 CAACATGAT
* * *
91246674 ATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAACGTGACATGAAA-GAATAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCAT
* * * * *
91246738 GGTTGAAAGATACCATGGTAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGA
66 GGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGC
91246803 AACATGAT
131 AACATGAT
* * *
91246811 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTAACATGAAA-GAATAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCAT
* * *
91246875 GGTTGAAAGATACCATGGCAACATGATATGAAATGTGCAAGACCATGGTTGAAAGATACCATGGC
66 GGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGC
91246940 AACATGAT
131 AACATGAT
**
91246948 -TAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCA
1 AT-GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCA
* * * *
91247012 TGGTTGAAAGATACTATGGCAACGTGACATGAAA-GAATAAGACCATAGTTGAAAGATACCATGG
65 TGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGG
* *
91247076 CAACCTAAT
130 CAACATGAT
* **
91247085 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATTATATGAAATGTGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCAT
* *
91247150 GGTTGAAAGATACCATGGCAACGTGACATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGC
66 GGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGC
*
91247214 AACTTGAT
131 AACATGAT
* *
91247222 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCAT
* * * * *
91247287 GGTTGTAAGATACCATGACAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGG
66 GGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGG
*
91247351 CATCATG
130 CAACATG
91247358 TCAAAGATAA
Statistics
Matches: 629, Mismatches: 49, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
136 2 0.00
137 507 0.81
138 119 0.19
139 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (138 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCAT
GGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGC
AACATGAT
Found at i:91246919 original size:183 final size:184
Alignment explanation
Indices: 91246536--91247357 Score: 1208
Period size: 183 Copynumber: 4.5 Consensus size: 184
91246526 GCTCTCTGAA
*
91246536 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT-TAGAAATGTGTAAAACCA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT-GAAATGTGTAAGACCA
*
91246600 TGGTTGAAAGATATCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGG
65 TGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGG
* * ** * *
91246665 CAACATGATATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAACGTGAC
130 CAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
** * *
91246720 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGTAACCTGATATGAAATGTGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCAT
*
91246784 GGTTGAAAGATACCATGGAAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
66 GGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
* *
91246849 AACGTAACATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
131 AACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
*
91246902 ATGAAATGTGCAAGACCATGGTTGAAAGATACCATGGCAACATGAT-TAGAAATGTGTAAGACCA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT-GAAATGTGTAAGACCA
*
91246966 TGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACTATGG
65 TGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGG
* * *
91247031 CAACGTGACATGAAA-GAATAAGACCATAGTTGAAAGATACCATGGCAACCTAAT
130 CAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
*
91247085 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATTATATGAAATGTGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCAT
* * **
91247150 GGTTGAAAGATACCATGGCAACGTGACATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGC
66 GGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
* * **
91247214 AACTTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
131 AACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
*** * * * *
91247268 ATGAAATGAACAAGACCATGGTTGTAAGATACCATGACAACATGACA-GAAAATGAGTAAGACCA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGTGTAAGACCA
* * * *
91247332 TAGTTGAAAGACACTATGGCATCATG
65 TGGTTGAAAGATACCATGGCAACATG
91247358 TCAAAGATAA
Statistics
Matches: 579, Mismatches: 53, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
182 82 0.14
183 489 0.84
184 8 0.01
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (184 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCAT
GGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
AACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
Found at i:91255910 original size:41 final size:41
Alignment explanation
Indices: 91255864--91255945 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
91255854 TAAATAATTA
*
91255864 TTTTTTTCTAACACTGGCATGTCACATATCAGCTCTTGGTG
1 TTTTTTGCTAACACTGGCATGTCACATATCAGCTCTTGGTG
91255905 TTTTTTGCTAACACTGGCATGTCACATATCAGCTCTTGGTG
1 TTTTTTGCTAACACTGGCATGTCACATATCAGCTCTTGGTG
91255946 GCTGTCATCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (41 bp):
TTTTTTGCTAACACTGGCATGTCACATATCAGCTCTTGGTG
Found at i:91259732 original size:17 final size:17
Alignment explanation
Indices: 91259712--91259763 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
91259702 AAAGTAAAAC
91259712 AAAAGAAAAAGAAATGA
1 AAAAGAAAAAGAAATGA
* *
91259729 AAAAAAAAAAGAGAT-A
1 AAAAGAAAAAGAAATGA
*
91259745 GAAAAGAAACAG-AATGA
1 -AAAAGAAAAAGAAATGA
91259762 AA
1 AA
91259764 CGAAACAGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
16 5 0.18
17 23 0.82
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (17 bp):
AAAAGAAAAAGAAATGA
Found at i:91259747 original size:23 final size:23
Alignment explanation
Indices: 91259707--91259753 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
91259697 TATATAAAGT
* *
91259707 AAAACAAAAGAAAAAGAAATGAA
1 AAAAAAAAAGAAAAAGAAAAGAA
* *
91259730 AAAAAAAAAGAGATAGAAAAGAA
1 AAAAAAAAAGAAAAAGAAAAGAA
91259753 A
1 A
91259754 CAGAATGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (23 bp):
AAAAAAAAAGAAAAAGAAAAGAA
Found at i:91261628 original size:18 final size:18
Alignment explanation
Indices: 91261600--91261664 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
91261590 TAACTGATTA
*
91261600 TTACTGAATAATTAACTG
1 TTACTGGATAATTAACTG
* *
91261618 TTATTGGATAATTGACTG
1 TTACTGGATAATTAACTG
91261636 TTACTGGAT-ATTAGACTG
1 TTACTGGATAATTA-ACTG
*
91261654 TTACTGAATAA
1 TTACTGGATAA
91261665 CTGAATATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
17 3 0.08
18 35 0.90
19 1 0.03
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (18 bp):
TTACTGGATAATTAACTG
Found at i:91261675 original size:18 final size:18
Alignment explanation
Indices: 91261654--91261791 Score: 93
Period size: 18 Copynumber: 7.7 Consensus size: 18
91261644 TATTAGACTG
91261654 TTACTGAATAACTGAATA
1 TTACTGAATAACTGAATA
*
91261672 TTACTGAATAATTG-ATCA
1 TTACTGAATAACTGAAT-A
* *
91261690 TTACTGAATAACTGATTG
1 TTACTGAATAACTGAATA
* * *
91261708 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AACTGAATA
* * *
91261726 TTATTGAATAACTTAATTG
1 TTACTGAATAACTGAA-TA
* *
91261745 TTACTGAATACCTG-ATT
1 TTACTGAATAACTGAATA
* * *
91261762 TTACTGAATAATTTACTA
1 TTACTGAATAACTGAATA
*
91261780 TTACTGGATAAC
1 TTACTGAATAAC
91261792 CGATCAATTG
Statistics
Matches: 93, Mismatches: 21, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
17 16 0.17
18 61 0.66
19 16 0.17
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.38
Consensus pattern (18 bp):
TTACTGAATAACTGAATA
Found at i:91261676 original size:36 final size:37
Alignment explanation
Indices: 91261588--91261754 Score: 139
Period size: 36 Copynumber: 4.6 Consensus size: 37
91261578 AAAGGTATAA
* *
91261588 AATAACTGATTATTACTGAATAATTA-ACTGTTATTG
1 AATAACTGAATATTACTGAATAATTAGACTGTTACTG
* * * * *
91261624 GATAATTGACTGTTACTGGAT-ATTAGACTGTTACTG
1 AATAACTGAATATTACTGAATAATTAGACTGTTACTG
*
91261660 AATAACTGAATATTACTGAATAATT-GA-TCATTACTG
1 AATAACTGAATATTACTGAATAATTAGACT-GTTACTG
* * * *
91261696 AATAACTGATTGTCACTGAATGAA-T-GACTGTTATTG
1 AATAACTGAATATTACTGAAT-AATTAGACTGTTACTG
* *
91261732 AATAACTTAATTGTTACTGAATA
1 AATAACTGAA-TATTACTGAATA
91261755 CCTGATTTTA
Statistics
Matches: 105, Mismatches: 20, Indels: 12
0.77 0.15 0.09
Matches are distributed among these distances:
35 5 0.05
36 84 0.80
37 16 0.15
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (37 bp):
AATAACTGAATATTACTGAATAATTAGACTGTTACTG
Found at i:91261714 original size:54 final size:53
Alignment explanation
Indices: 91261656--91261791 Score: 139
Period size: 54 Copynumber: 2.5 Consensus size: 53
91261646 TTAGACTGTT
* *
91261656 ACTGAATAACTGAATATTACTGAATAA-TTGATCATTACTGAATAACTGATTGTC
1 ACTGAATAA-TGACTATTACTGAATAACTTAATCATTACTGAATAACTGATT-TC
* * ** * *
91261710 ACTGAATGAATGACTGTTATTGAATAACTTAATTGTTACTGAATACCTGATTTT
1 ACTGAAT-AATGACTATTACTGAATAACTTAATCATTACTGAATAACTGATTTC
* *
91261764 ACTGAATAATTTACTATTACTGGATAAC
1 ACTGAATAA-TGACTATTACTGAATAAC
91261792 CGATCAATTG
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
53 2 0.03
54 43 0.64
55 22 0.33
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (53 bp):
ACTGAATAATGACTATTACTGAATAACTTAATCATTACTGAATAACTGATTTC
Found at i:91261725 original size:72 final size:72
Alignment explanation
Indices: 91261588--91261772 Score: 178
Period size: 72 Copynumber: 2.6 Consensus size: 72
91261578 AAAGGTATAA
* * * * * * * * *
91261588 AATAACTGATTATTACTGAATAATT-AACTGTTATTGGATAATTGACTGTTACTGGATATTAGAC
1 AATAACTGAATATTACTGAATAATTGATC-ATTACTGAATAACTGACTGTCACTGAATAATAGAC
91261652 TGTTACTG
65 TGTTACTG
*
91261660 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTGTCACTGAATGAAT-GAC
1 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAAT-AATAGAC
*
91261724 TGTTATTG
65 TGTTACTG
* * ** *
91261732 AATAACTTAATTGTTACTGAATACCTGAT-TTTACTGAATAA
1 AATAACTGAA-TATTACTGAATAATTGATCATTACTGAATAA
91261773 TTTACTATTA
Statistics
Matches: 94, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
72 75 0.80
73 19 0.20
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (72 bp):
AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAATAATAGACT
GTTACTG
Found at i:91261770 original size:36 final size:35
Alignment explanation
Indices: 91261654--91261772 Score: 107
Period size: 36 Copynumber: 3.3 Consensus size: 35
91261644 TATTAGACTG
* *
91261654 TTACTGAATAACTGAA-TATTACTGAATAATTGATCA
1 TTACTGAATAACTTAATTGTTACTGAATAA-TGAT-A
* * *
91261690 TTACTGAATAAC-TGATTGTCACTGAATGAATGACTG
1 TTACTGAATAACTTAATTGTTACTGAAT-AATGA-TA
* * *
91261726 TTATTGAATAACTTAATTGTTACTGAATACCTGATT
1 TTACTGAATAACTTAATTGTTACTGAATA-ATGATA
91261762 TTACTGAATAA
1 TTACTGAATAA
91261773 TTTACTATTA
Statistics
Matches: 67, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
35 1 0.01
36 47 0.70
37 19 0.28
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (35 bp):
TTACTGAATAACTTAATTGTTACTGAATAATGATA
Found at i:91261868 original size:18 final size:18
Alignment explanation
Indices: 91261811--91261870 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
91261801 GATCGATACT
* *
91261811 GAATAACTGGTTATTATC
1 GAATAACTGATTGTTATC
* *
91261829 GAATAATTGATTGTTACC
1 GAATAACTGATTGTTATC
* *
91261847 GAATAACTGACTGTTATT
1 GAATAACTGATTGTTATC
91261865 GAATAA
1 GAATAA
91261871 ATAATTGTTC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (18 bp):
GAATAACTGATTGTTATC
Found at i:91261869 original size:36 final size:36
Alignment explanation
Indices: 91261797--91261879 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 36
91261787 ATAACCGATC
* * * **
91261797 AATTGATCGATACTGAATAACTGGTTATTATCGAAT
1 AATTGATTGTTACCGAATAACTGACTATTATCGAAT
* *
91261833 AATTGATTGTTACCGAATAACTGACTGTTATTGAAT
1 AATTGATTGTTACCGAATAACTGACTATTATCGAAT
* *
91261869 AAATAATTGTT
1 AATTGATTGTT
91261880 CTAATTGTTA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.39
Consensus pattern (36 bp):
AATTGATTGTTACCGAATAACTGACTATTATCGAAT
Found at i:91261922 original size:28 final size:27
Alignment explanation
Indices: 91261870--91261936 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
91261860 TTATTGAATA
* *
91261870 AATAATTGTTCTAATTGTTAATGAACATT
1 AATAATTGAT-TAATTGCTAATGAA-ATT
* *
91261899 ACTAATTGATTAATTGCTATTGAAATT
1 AATAATTGATTAATTGCTAATGAAATT
*
91261926 AATAAATGATT
1 AATAATTGATT
91261937 TGAAATTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 12 0.38
28 12 0.38
29 8 0.25
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.43
Consensus pattern (27 bp):
AATAATTGATTAATTGCTAATGAAATT
Found at i:91264463 original size:26 final size:26
Alignment explanation
Indices: 91264427--91264476 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
91264417 ATTCTATAAC
91264427 TTCTTCAACATGCTAGAATCGGTTCT
1 TTCTTCAACATGCTAGAATCGGTTCT
91264453 TTCTTCAACATGCTAGAATCGGTT
1 TTCTTCAACATGCTAGAATCGGTT
91264477 TTTGGAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (26 bp):
TTCTTCAACATGCTAGAATCGGTTCT
Found at i:91264568 original size:17 final size:18
Alignment explanation
Indices: 91264543--91264578 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
91264533 TTCCATAAAT
91264543 TTTACATTTTTTATATAA
1 TTTACATTTTTTATATAA
*
91264561 TTTA-ATTTTTTTTATAA
1 TTTACATTTTTTATATAA
91264578 T
1 T
91264579 GTTTAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTACATTTTTTATATAA
Found at i:91265345 original size:20 final size:19
Alignment explanation
Indices: 91265293--91265345 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
91265283 ATATATTTTA
91265293 TTTTTAAAAAAT-ATTAAT
1 TTTTTAAAAAATAATTAAT
* *
91265311 TTTTAAAATAAATAATTGAT
1 TTTTTAAA-AAATAATTAAT
91265331 GTTTTTAAAAAATAA
1 -TTTTTAAAAAATAA
91265346 ACTATATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 7 0.24
19 4 0.14
20 11 0.38
21 7 0.24
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (19 bp):
TTTTTAAAAAATAATTAAT
Found at i:91265611 original size:15 final size:16
Alignment explanation
Indices: 91265582--91265623 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
91265572 TACTTTTCAA
*
91265582 GTAAAAAATGCATTTT
1 GTAAAAAATGTATTTT
91265598 GTAAAAAA-GTATTTT
1 GTAAAAAATGTATTTT
*
91265613 TTAAAAAATGT
1 GTAAAAAATGT
91265624 GTCTTATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (16 bp):
GTAAAAAATGTATTTT
Found at i:91265644 original size:14 final size:15
Alignment explanation
Indices: 91265583--91265644 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
91265573 ACTTTTCAAG
* *
91265583 TAAAAAATGCATTTTG
1 TAAAAAA-GTATTTTA
*
91265599 TAAAAAAGTATTTTT
1 TAAAAAAGTATTTTA
* *
91265614 TAAAAAATGTGTCTTA
1 TAAAAAA-GTATTTTA
91265630 T-AAAAAGTATTTTA
1 TAAAAAAGTATTTTA
91265644 T
1 T
91265645 CTCTTCAACG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
14 7 0.18
15 18 0.47
16 13 0.34
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (15 bp):
TAAAAAAGTATTTTA
Found at i:91268647 original size:12 final size:12
Alignment explanation
Indices: 91268630--91268655 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
91268620 AATTAAATTT
91268630 AAAAAAAGAAAA
1 AAAAAAAGAAAA
91268642 AAAAAAAGAAAA
1 AAAAAAAGAAAA
91268654 AA
1 AA
91268656 GAAGGAAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:91294347 original size:13 final size:13
Alignment explanation
Indices: 91294329--91294353 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91294319 TGGTGAATCC
91294329 GAGTAGTTCCCTT
1 GAGTAGTTCCCTT
91294342 GAGTAGTTCCCT
1 GAGTAGTTCCCT
91294354 GTCTCCTTTT
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:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (13 bp):
GAGTAGTTCCCTT
Found at i:91298528 original size:55 final size:54
Alignment explanation
Indices: 91298481--91298584 Score: 136
Period size: 55 Copynumber: 1.9 Consensus size: 54
91298471 ACGGTTGCTT
* * *
91298481 GGCACGAGTGTGTCGCACGCCCGTGTTAATTTGACAGGTTCAGCCACGGGTTCAA
1 GGCAAGAGTGTGTCGCACGCCCGTGCTAATTTGACAGGTTCACCCAC-GGTTCAA
* ** *
91298536 GGCAAGGGTGTGTCGCACGCCCGTGCTGTTTTGGCAGGTTCACCCACGG
1 GGCAAGAGTGTGTCGCACGCCCGTGCTAATTTGACAGGTTCACCCACGG
91298585 CCATGTCGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
54 2 0.05
55 40 0.95
ACGTcount: A:0.16, C:0.27, G:0.34, T:0.23
Consensus pattern (54 bp):
GGCAAGAGTGTGTCGCACGCCCGTGCTAATTTGACAGGTTCACCCACGGTTCAA
Found at i:91302936 original size:120 final size:120
Alignment explanation
Indices: 91302779--91303290 Score: 830
Period size: 120 Copynumber: 4.2 Consensus size: 120
91302769 TATATTTAGA
* * * *
91302779 AAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 AAAA-TATATTTAATAATAATTATGTTAAATTATATTTTACAGTATCATATATTATGATTTGAGT
*
91302844 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATCATATATTTTAATT
65 AAATTCATATAAGAATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATT
* * *
91302900 AAAATATATTTAATAATAATTAT-TTCAAATTATATTTTATAGTATCATATATTATAATTTTAGT
1 AAAATATATTTAATAATAATTATGTT-AAATTATATTTTACAGTATCATATATTATGATTTGAGT
*
91302964 AAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATCATATATTTTAATT
65 AAATTCATATAAGAATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATT
*
91303020 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTA
1 AAAATATATTTAATAATAATTATGTTAAATTATATTTTACAGTATCATATATTATGATTTGAGTA
* *
91303085 AATTAATATAAGAATATT-AATTATTAAGAATTTTATTAAATTATATATTTTAATT
66 AATTCATATAAGAATATTGAA-TATTAAGAATTTTATTAAATCATATATTTTAATT
*
91303140 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTA
1 AAAATATATTTAATAATAATTATGTTAAATTATATTTTACAGTATCATATATTATGATTTGAGTA
* *
91303205 AATTCATATAAGAATATTGATTATTAAGAATTTTATTATAAATTATATATTTTAATT
66 AATTCATATAAGAATATTGAATATTAAGAATTTTA-T-TAAATCATATATTTTAATT
91303262 AAAATATATTTAATAATAATTATGTTAAA
1 AAAATATATTTAATAATAATTATGTTAAA
91303291 ATATGATTAA
Statistics
Matches: 371, Mismatches: 14, Indels: 11
0.94 0.04 0.03
Matches are distributed among these distances:
119 3 0.01
120 313 0.84
121 8 0.02
122 47 0.13
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (120 bp):
AAAATATATTTAATAATAATTATGTTAAATTATATTTTACAGTATCATATATTATGATTTGAGTA
AATTCATATAAGAATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATT
Found at i:91303142 original size:18 final size:17
Alignment explanation
Indices: 91303114--91303148 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
91303104 ATTATTAAGA
*
91303114 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
91303131 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
91303149 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:91303269 original size:18 final size:19
Alignment explanation
Indices: 91303234--91303270 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
91303224 ATTATTAAGA
91303234 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
91303253 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
91303271 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:91303527 original size:16 final size:16
Alignment explanation
Indices: 91303506--91303574 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
91303496 TATTAGCTAT
91303506 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
91303522 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
91303539 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
91303555 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
91303571 TACA
1 TACA
91303575 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:91303548 original size:33 final size:32
Alignment explanation
Indices: 91303506--91303574 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
91303496 TATTAGCTAT
91303506 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
91303539 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
91303571 TACA
1 TACA
91303575 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:91307213 original size:19 final size:19
Alignment explanation
Indices: 91307189--91307227 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
91307179 AATATTTATC
91307189 ATACAATTCAAAAATAATA
1 ATACAATTCAAAAATAATA
91307208 ATACAATTCAAAAATAATA
1 ATACAATTCAAAAATAATA
91307227 A
1 A
91307228 CAAATTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (19 bp):
ATACAATTCAAAAATAATA
Done.