Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold202
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: 2706578
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 13 of 16
Found at i:2077174 original size:25 final size:26
Alignment explanation
Indices: 2077124--2077175 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
2077114 AATTAAGTCA
* *
2077124 AAAAATAAATTTAAATTTTTATAAAT
1 AAAAATAAATTTAAATTTTAAAAAAT
*
2077150 AAAAATAAA-TTATATTTTAAAAAAT
1 AAAAATAAATTTAAATTTTAAAAAAT
2077175 A
1 A
2077176 TAAACTCTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
AAAAATAAATTTAAATTTTAAAAAAT
Found at i:2077546 original size:74 final size:73
Alignment explanation
Indices: 2077465--2077648 Score: 210
Period size: 73 Copynumber: 2.5 Consensus size: 73
2077455 ATTTTAGAAG
* * * *
2077465 TAAAAATAAATTATA-CTTTAAACAAATTTTAACTCCTATAATCAACCCAAAAAACAAATTTAAA
1 TAAAAATAAATCATATC-TTAAA-AAAATTAAACTCCTATAATCAAACCAAAAAACAAATTTAAA
* *
2077529 CTTTTATAAA
64 CTTCTACAAA
* ** *
2077539 TGAAAATAAATCATATCTTAAAAAAATTAAACTTGTATAATCAAACCAAAAAATAAATTTAAACT
1 TAAAAATAAATCATATCTTAAAAAAATTAAACTCCTATAATCAAACCAAAAAACAAATTTAAACT
2077604 TCTACAAA
66 TCTACAAA
* * * *
2077612 TAAAAATAAACCATA-CCTAAAAAATTTAAACTTCTAT
1 TAAAAATAAATCATATCTTAAAAAAATTAAACTCCTAT
2077649 GATTATACCT
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
72 19 0.20
73 56 0.60
74 18 0.19
75 1 0.01
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.30
Consensus pattern (73 bp):
TAAAAATAAATCATATCTTAAAAAAATTAAACTCCTATAATCAAACCAAAAAACAAATTTAAACT
TCTACAAA
Found at i:2077664 original size:73 final size:73
Alignment explanation
Indices: 2077495--2077648 Score: 211
Period size: 73 Copynumber: 2.1 Consensus size: 73
2077485 AACAAATTTT
* * * * * * *
2077495 AACTCCTATAATCAACCCAAAAAACAAATTTAAACTTTTATAAATGAAAATAAATCATATCTTAA
1 AACTTCTATAATCAAACCAAAAAACAAATTTAAACTTCTACAAATAAAAATAAACCATATCCTAA
2077560 AAAAATTA
66 AAAAATTA
* *
2077568 AACTTGTATAATCAAACCAAAAAATAAATTTAAACTTCTACAAATAAAAATAAACCATA-CCTAA
1 AACTTCTATAATCAAACCAAAAAACAAATTTAAACTTCTACAAATAAAAATAAACCATATCCTAA
*
2077632 AAAATTTA
66 AAAAATTA
2077640 AACTTCTAT
1 AACTTCTAT
2077649 GATTATACCT
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
72 19 0.27
73 51 0.73
ACGTcount: A:0.55, C:0.16, G:0.01, T:0.29
Consensus pattern (73 bp):
AACTTCTATAATCAAACCAAAAAACAAATTTAAACTTCTACAAATAAAAATAAACCATATCCTAA
AAAAATTA
Found at i:2078066 original size:72 final size:72
Alignment explanation
Indices: 2077905--2078101 Score: 243
Period size: 72 Copynumber: 2.7 Consensus size: 72
2077895 AAATCAAATT
* * ** * *
2077905 AATTTTACAAATAAAAATAAATAATACCTTAAAATAATTTATACTCCTATAGTCAACCCAAAAAA
1 AATTTTACAAATAAAAATAAATAATACATTAAAA-AATTTAAACTTATATAATCAACACAAAAAA
2077970 CATATTTA
65 CATATTTA
* **
2077978 AATTTCTACAAATAAAAATAAATAATACATTAAAAAATTTAAACTTGTATAATCAA-ATTAAAAA
1 AATTT-TACAAATAAAAATAAATAATACATTAAAAAATTTAAACTTATATAATCAACACAAAAAA
*
2078042 TATATTTA
65 CATATTTA
** *
2078050 AATTTATACAAATAAAAATAAATAATATTTTAAAAAATTTAAATTTATATAA
1 AATTT-TACAAATAAAAATAAATAATACATTAAAAAATTTAAACTTATATAA
2078102 ACATACCCAA
Statistics
Matches: 109, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
72 59 0.54
73 22 0.20
74 28 0.26
ACGTcount: A:0.56, C:0.09, G:0.01, T:0.35
Consensus pattern (72 bp):
AATTTTACAAATAAAAATAAATAATACATTAAAAAATTTAAACTTATATAATCAACACAAAAAAC
ATATTTA
Found at i:2079257 original size:26 final size:26
Alignment explanation
Indices: 2079228--2079302 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 26
2079218 TTTTCAATGT
*
2079228 TTTCCTTTTTATTTAATTTTTTTAAG
1 TTTCATTTTTATTTAATTTTTTTAAG
* * *
2079254 TTTCATTTTTATGT-ATTTATTTAAT
1 TTTCATTTTTATTTAATTTTTTTAAG
*
2079279 TTTAATTTTTTATTTTAATTTTTT
1 TTTCA-TTTTTA-TTTAATTTTTT
2079303 CTGTTAAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
25 13 0.33
26 18 0.46
27 2 0.05
28 6 0.15
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.72
Consensus pattern (26 bp):
TTTCATTTTTATTTAATTTTTTTAAG
Found at i:2079271 original size:25 final size:26
Alignment explanation
Indices: 2079228--2079288 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 26
2079218 TTTTCAATGT
* * *
2079228 TTTCCTTTTTATTTAATTTTTTTAAG
1 TTTCATTTTTATGTAATTTATTTAAG
*
2079254 TTTCATTTTTATGT-ATTTATTTAAT
1 TTTCATTTTTATGTAATTTATTTAAG
*
2079279 TTTAATTTTT
1 TTTCATTTTT
2079289 TATTTTAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 18 0.60
26 12 0.40
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.70
Consensus pattern (26 bp):
TTTCATTTTTATGTAATTTATTTAAG
Found at i:2079295 original size:13 final size:13
Alignment explanation
Indices: 2079277--2079302 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2079267 TATTTATTTA
2079277 ATTTTAATTTTTT
1 ATTTTAATTTTTT
2079290 ATTTTAATTTTTT
1 ATTTTAATTTTTT
2079303 CTGTTAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTTAATTTTTT
Found at i:2079892 original size:28 final size:28
Alignment explanation
Indices: 2079852--2079921 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
2079842 AAACAAGCCT
*
2079852 CCATATTTGACAAATC-CAAAAGAAACCA
1 CCATTTTTGACAAATCACAAAA-AAACCA
* *
2079880 CCATTTTTTACAAA-CACAAAATAACCA
1 CCATTTTTGACAAATCACAAAAAAACCA
*
2079907 CCCTTTTTGACAAAT
1 CCATTTTTGACAAAT
2079922 AAATGGGTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 18 0.51
28 17 0.49
ACGTcount: A:0.44, C:0.26, G:0.04, T:0.26
Consensus pattern (28 bp):
CCATTTTTGACAAATCACAAAAAAACCA
Found at i:2082159 original size:13 final size:13
Alignment explanation
Indices: 2082141--2082165 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2082131 CATAATGTGT
2082141 TGTATCGATACAA
1 TGTATCGATACAA
2082154 TGTATCGATACA
1 TGTATCGATACA
2082166 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2082163 original size:33 final size:33
Alignment explanation
Indices: 2082121--2082187 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
2082111 TTCAACGATT
2082121 TGTATCGATACATAATGTGTTGTATCGATACAA
1 TGTATCGATACATAATGTGTTGTATCGATACAA
* * *
2082154 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAATGTGTTGTATCGATACAA
2082187 T
1 T
2082188 TTAAGCTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAATGTGTTGTATCGATACAA
Found at i:2082247 original size:13 final size:13
Alignment explanation
Indices: 2082229--2082253 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2082219 ATCACTTAAA
2082229 TGTATCGATACAT
1 TGTATCGATACAT
2082242 TGTATCGATACA
1 TGTATCGATACA
2082254 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2082318 original size:52 final size:52
Alignment explanation
Indices: 2082262--2082390 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
2082252 CACTGATCTT
*
2082262 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
2082314 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2082366 TGTATCGATACATGCAGGAAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2082391 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2086538 original size:10 final size:10
Alignment explanation
Indices: 2086523--2086549 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2086513 TGCTAACTAA
2086523 GTTTTTGTTT
1 GTTTTTGTTT
2086533 GTTTTTGTTT
1 GTTTTTGTTT
2086543 GTTTTTG
1 GTTTTTG
2086550 CTTGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:2094200 original size:1 final size:1
Alignment explanation
Indices: 2094194--2094273 Score: 61
Period size: 1 Copynumber: 80.0 Consensus size: 1
2094184 CGTCCTCCAC
* * * ** ** * * *
2094194 AAAAAAAAAAAAACAAAACAAAACAAAAAAAAACCAAAAACTAAAAAACAAAGAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
2094259 AAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAA
2094274 GGGTCTGGAT
Statistics
Matches: 60, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.86, C:0.11, G:0.01, T:0.01
Consensus pattern (1 bp):
A
Found at i:2094232 original size:35 final size:37
Alignment explanation
Indices: 2094193--2094263 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
2094183 GCGTCCTCCA
*
2094193 CAAAAAAAAAAAAAC-AA-AACAAAACAAAAAAAAAC
1 CAAAAAAAAAAAAACAAAGAAAAAAACAAAAAAAAAC
**
2094228 CAAAAACTAAAAAACAAAGAAAAAAACAAAAAAAAA
1 CAAAAAAAAAAAAACAAAGAAAAAAACAAAAAAAAA
2094264 AAACAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 13 0.42
36 2 0.06
37 16 0.52
ACGTcount: A:0.85, C:0.13, G:0.01, T:0.01
Consensus pattern (37 bp):
CAAAAAAAAAAAAACAAAGAAAAAAACAAAAAAAAAC
Found at i:2095952 original size:34 final size:36
Alignment explanation
Indices: 2095861--2095952 Score: 102
Period size: 35 Copynumber: 2.7 Consensus size: 36
2095851 TTTCCAAAGT
*
2095861 CCACAACTC-CGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGC
* * *
2095896 TCACAACTCTA-TAGCACTCTTTTTCTTTT-TCAGC
1 CCACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGC
* *
2095930 CCACAAGT-TAGTGGCACCCTTTT
1 CCACAACTCTAGTGGCACTCTTTT
2095953 CAAAAGCCCA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
33 2 0.04
34 20 0.43
35 25 0.53
ACGTcount: A:0.20, C:0.30, G:0.12, T:0.38
Consensus pattern (36 bp):
CCACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGC
Found at i:2096045 original size:58 final size:59
Alignment explanation
Indices: 2095707--2096183 Score: 352
Period size: 58 Copynumber: 8.0 Consensus size: 59
2095697 TTCATCACCC
* *** **
2095707 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTC-AAAGCCCACAAGTCAGTGGCATTTTCT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCA--ACCT
* * *
2095767 TT-AAAAGCCCACAAGTCAGTGGCAACC--TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
* * * * * * *
2095823 TTCCAAAGCCCACAAGTCGGTGGCA-TCTTTTCCAAAGTCCACAACTCCGTGGC-ACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAAC-C--T
** * * * * *** * *
2095883 TTCTTTTGTAAGCTCACAACTCTA-TAGCACTCTTTTTCTTTTTCAGCCCACAAGTTAGTGGCAC
1 TTC----AAAAGCCCACAAGTC-AGTGGCAC-CCTTTTC---AAAAGCCCACAAGTCAGTGGCAA
2095947 CCTT
57 CC-T
***
2095951 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
* * **
2096010 TT-AAAAGCCCACAAGTTAGTGGCACCCTTTGCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCT
*
2096069 TTCAAAAGCCCACAAGTCAGTGGCAACC-TTT-AAAAGCCCACAAGTCAGTGGCAACC-
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
* ** *
2096125 TTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCCACAAGTCGGTGGC-ACCT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
2096182 TT
1 TT
2096184 TCCATCTTTA
Statistics
Matches: 334, Mismatches: 59, Indels: 51
0.75 0.13 0.11
Matches are distributed among these distances:
55 23 0.07
56 13 0.04
57 64 0.19
58 73 0.22
59 48 0.14
60 50 0.15
63 7 0.02
64 30 0.09
66 5 0.01
68 5 0.01
69 15 0.04
70 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (59 bp):
TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
Found at i:2096076 original size:88 final size:87
Alignment explanation
Indices: 2095927--2096183 Score: 394
Period size: 88 Copynumber: 3.0 Consensus size: 87
2095917 TTTCTTTTTC
2095927 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTTAGTGGCACCC-TTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
2095992 ACAAGTCAGTGGCAACCTTTAAA
65 ACAAGTCAGTGGCAACCTTTAAA
2096015 AGCCCACAAGTTAGTGGCACCCTTTGCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTTAGTGGCACCCTTT-CAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
2096080 ACAAGTCAGTGGCAACCTTTAAA
65 ACAAGTCAGTGGCAACCTTTAAA
* * * *** **
2096103 AGCCCACAAGTCAGTGGCAACC-TTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCCA
1 AGCCCACAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCA
*
2096166 CAAGTCGGTGGC-ACCTTT
66 CAAGTCAGTGGCAACCTTT
2096184 TCCATCTTTA
Statistics
Matches: 159, Mismatches: 9, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
84 6 0.04
85 43 0.27
86 1 0.01
87 5 0.03
88 104 0.65
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (87 bp):
AGCCCACAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCA
CAAGTCAGTGGCAACCTTTAAA
Found at i:2096165 original size:30 final size:30
Alignment explanation
Indices: 2095707--2096185 Score: 366
Period size: 30 Copynumber: 16.1 Consensus size: 30
2095697 TTCATCACCC
* ***
2095707 TTCAAAAGTCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
**
2095737 TTC-AAAGCCCACAAGTCAGTGGC-ATTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
*
2095765 CTTTAAAAGCCCACAAGTCAGTGGCAACC--
1 -TTCAAAAGCCCACAAGTCAGTGGCAACCTT
* *
2095794 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
* * *
2095823 TTCCAAAGCCCACAAGTCGGTGGC-ATCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
* * * *
2095852 TTCCAAAGTCCACAACTCCGTGGC-ACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-C-TT
** * * *
2095883 TTCTTTTGTAAGCTCACAACTCTA-TAGC-ACTCTTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCAAC-C-TT
*** * *
2095918 TTCTTTTTCAGCCCACAAGTTAGTGGCACCCTT
1 TTC---AAAAGCCCACAAGTCAGTGGCAACCTT
*
2095951 TTCAAAAGCCCACAAGTCAGTGGCATA-TTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTT
2095981 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
* *
2096010 TT-AAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
* *
2096039 TGCAAAAGCCCACAAGTCAGTGGCATA-TTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTT
2096069 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
2096098 TT-AAAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
* *
2096125 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
** *
2096154 TTCCGAAGCCCACAAGTCGGTGGC-ACCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
2096183 TTC
1 TTC
2096186 CATCTTTAAG
Statistics
Matches: 374, Mismatches: 50, Indels: 51
0.79 0.11 0.11
Matches are distributed among these distances:
27 46 0.12
28 54 0.14
29 69 0.18
30 151 0.40
31 6 0.02
33 6 0.02
34 17 0.05
35 25 0.07
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTT
Found at i:2096213 original size:115 final size:115
Alignment explanation
Indices: 2095927--2096184 Score: 347
Period size: 115 Copynumber: 2.2 Consensus size: 115
2095917 TTTCTTTTTC
* ** **
2095927 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTCAGTGGCACATTTTTCAAAAGCCCACAAGTCAGTGG-A-ACCTTT-AAAAGCCC
* *
2095992 ACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTTTGCAAA
63 ACAAGTCAGTGGCAACCTTTAAAAGCCCACAAATCAGTGGCACCCTTTGCAAA
*
2096045 AGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCAC
1 AGCCCACAAGTCAGTGGCACATTTTTCAAAAGCCCACAAGTCAGTGG-AACCTTTAAAAGCCCAC
* * **
2096110 AAGTCAGTGGCAACC-TTCAAAGCCCACAAATCAGTGGCACCCTTTTCCGA
65 AAGTCAGTGGCAACCTTTAAAAGCCCACAAATCAGTGGCACCCTTTGCAAA
* *
2096160 AGCCCACAAGTCGGTGGCACCTTTT
1 AGCCCACAAGTCAGTGGCACATTTT
2096185 CCATCTTTAA
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
115 51 0.41
116 25 0.20
117 4 0.03
118 45 0.36
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.21
Consensus pattern (115 bp):
AGCCCACAAGTCAGTGGCACATTTTTCAAAAGCCCACAAGTCAGTGGAACCTTTAAAAGCCCACA
AGTCAGTGGCAACCTTTAAAAGCCCACAAATCAGTGGCACCCTTTGCAAA
Found at i:2096231 original size:52 final size:52
Alignment explanation
Indices: 2096174--2096385 Score: 199
Period size: 52 Copynumber: 4.2 Consensus size: 52
2096164 CACAAGTCGG
*
2096174 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* *
2096226 TGGCA-------C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* *
2096269 TGGCACCTTTTTCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* * * * * * * * *
2096321 TGACATCCTTTTTCTCAGCTTTAAGCCCAATATTGATGGCCGTGAATCAACATAT
1 TGGCA-CC-TTTTC-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
*
2096376 TGGCATCTTT
1 TGGCACCTTT
2096386 ATCACTTTTC
Statistics
Matches: 129, Mismatches: 19, Indels: 23
0.75 0.11 0.13
Matches are distributed among these distances:
43 39 0.30
45 1 0.01
50 1 0.01
52 43 0.33
53 5 0.04
54 5 0.04
55 35 0.27
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (52 bp):
TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
Found at i:2096250 original size:43 final size:43
Alignment explanation
Indices: 2096189--2096278 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
2096179 CCTTTTCCAT
*
2096189 CTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
* *
2096232 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
2096275 CTTT
1 CTTT
2096279 TTCATCTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
Found at i:2097207 original size:13 final size:13
Alignment explanation
Indices: 2097189--2097213 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2097179 CATAATGTGT
2097189 TGTATCGATACAA
1 TGTATCGATACAA
2097202 TGTATCGATACA
1 TGTATCGATACA
2097214 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2097211 original size:33 final size:33
Alignment explanation
Indices: 2097169--2097235 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
2097159 TTCAACGATT
2097169 TGTATCGATACATAATGTGTTGTATCGATACAA
1 TGTATCGATACATAATGTGTTGTATCGATACAA
* * *
2097202 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAATGTGTTGTATCGATACAA
2097235 T
1 T
2097236 TTAAGCTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAATGTGTTGTATCGATACAA
Found at i:2097295 original size:13 final size:13
Alignment explanation
Indices: 2097277--2097301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2097267 ATCACTTAAA
2097277 TGTATCGATACAT
1 TGTATCGATACAT
2097290 TGTATCGATACA
1 TGTATCGATACA
2097302 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2097366 original size:52 final size:52
Alignment explanation
Indices: 2097310--2097438 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
2097300 CACTGATCTT
*
2097310 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
2097362 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2097414 TGTATCGATACATGCAGGAAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2097439 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2100694 original size:51 final size:51
Alignment explanation
Indices: 2100534--2100704 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
2100524 GAAATAACGA
* * *
2100534 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
2100586 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
2100639 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
2100690 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2100705 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:2100750 original size:27 final size:28
Alignment explanation
Indices: 2100687--2100762 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
2100677 AAAATAAAGT
*
2100687 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
2100715 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
2100742 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2100763 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:2103255 original size:13 final size:13
Alignment explanation
Indices: 2103237--2103262 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2103227 ACAAAGATCC
2103237 ATGTATCGATACA
1 ATGTATCGATACA
2103250 ATGTATCGATACA
1 ATGTATCGATACA
2103263 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2103258 original size:33 final size:33
Alignment explanation
Indices: 2103216--2103282 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2103206 AAAATTTCCA
***
2103216 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2103249 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2103282 A
1 A
2103283 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2103326 original size:19 final size:18
Alignment explanation
Indices: 2103302--2103369 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2103292 CAGTAGCTAA
2103302 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2103321 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2103336 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2103353 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2103370 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2103342 original size:13 final size:13
Alignment explanation
Indices: 2103324--2103348 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2103314 ACAATACTTA
2103324 TGTATCGATACAT
1 TGTATCGATACAT
2103337 TGTATCGATACA
1 TGTATCGATACA
2103349 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2103346 original size:32 final size:32
Alignment explanation
Indices: 2103305--2103367 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2103295 TAGCTAATTA
*
2103305 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2103337 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2103368 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2103449 original size:21 final size:21
Alignment explanation
Indices: 2103425--2103481 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2103415 CATTTGTAGG
2103425 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
2103446 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
2103467 ATGTATCGATACATT
1 ATGTATCGATACATT
2103482 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:2103492 original size:1 final size:1
Alignment explanation
Indices: 2103486--2103535 Score: 82
Period size: 1 Copynumber: 50.0 Consensus size: 1
2103476 TACATTTAAA
**
2103486 TTTTTTTTTTTTTTTTTTTTTTTTCATTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2103536 CAAACACTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.02, C:0.02, G:0.00, T:0.96
Consensus pattern (1 bp):
T
Found at i:2103519 original size:24 final size:24
Alignment explanation
Indices: 2103488--2103533 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
2103478 CATTTAAATT
2103488 TTTTTTTTTTTTTTTTTTTTTTCA
1 TTTTTTTTTTTTTTTTTTTTTTCA
2103512 TTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTT
2103534 TTCAAACACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.02, C:0.02, G:0.00, T:0.96
Consensus pattern (24 bp):
TTTTTTTTTTTTTTTTTTTTTTCA
Found at i:2103520 original size:25 final size:25
Alignment explanation
Indices: 2103487--2103534 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
2103477 ACATTTAAAT
2103487 TTTTTTTTTTTTTTTTTTTTTTTCA
1 TTTTTTTTTTTTTTTTTTTTTTTCA
2103512 TTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTT
2103535 TCAAACACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.02, C:0.02, G:0.00, T:0.96
Consensus pattern (25 bp):
TTTTTTTTTTTTTTTTTTTTTTTCA
Found at i:2103521 original size:26 final size:26
Alignment explanation
Indices: 2103485--2103537 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
2103475 ATACATTTAA
2103485 ATTTTTTTTTTTTTTTTTTTTTTTTC
1 ATTTTTTTTTTTTTTTTTTTTTTTTC
2103511 ATTTTTTTTTTTTTTTTTTTTTTTTC
1 ATTTTTTTTTTTTTTTTTTTTTTTTC
2103537 A
1 A
2103538 AACACTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.06, C:0.04, G:0.00, T:0.91
Consensus pattern (26 bp):
ATTTTTTTTTTTTTTTTTTTTTTTTC
Found at i:2104215 original size:55 final size:54
Alignment explanation
Indices: 2104131--2105193 Score: 1645
Period size: 55 Copynumber: 19.3 Consensus size: 54
2104121 ATAAATTGTA
* * * * * *
2104131 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* *
2104186 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* *
2104241 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
2104296 TCCTGCTCTTTGAGGACTGGAAA-ATGCCATCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* *
2104351 TCCTGTTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
2104406 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
2104461 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
2104516 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
2104571 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
2104626 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
2104681 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
2104736 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
2104791 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
2104846 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
2104901 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
2104956 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
2105011 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* * *
2105066 TCCTACTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
2105121 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
2105176 TCCTGCTCTTTGGGGACT
1 TCCTGCTCTTTGAGGACT
2105194 AAAAAGCGGA
Statistics
Matches: 947, Mismatches: 36, Indels: 50
0.92 0.03 0.05
Matches are distributed among these distances:
53 4 0.00
54 26 0.03
55 889 0.94
56 24 0.03
57 4 0.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGTG
Found at i:2106179 original size:1 final size:1
Alignment explanation
Indices: 2106175--2106226 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
2106165 CTTTTCTCTC
* * * * * *
2106175 TTTTTCTTTGTTTTGTTTTTTTTGTTTTTTTTTTTGTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2106227 GAAGAGAAGG
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (1 bp):
T
Found at i:2106195 original size:26 final size:26
Alignment explanation
Indices: 2106158--2106223 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
2106148 GCTTAAGTAG
2106158 GTTTT-TTCTTTTCTCTCTTTTTCTTT
1 GTTTTGTT-TTTTCTCTCTTTTTCTTT
* * * *
2106184 GTTTTGTTTTTTTTGTTTTTTTTTTT
1 GTTTTGTTTTTTCTCTCTTTTTCTTT
2106210 GTTTTTTGTTTTTT
1 G--TTTTGTTTTTT
2106224 TTTGAAGAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 20 0.61
27 2 0.06
28 11 0.33
ACGTcount: A:0.00, C:0.08, G:0.09, T:0.83
Consensus pattern (26 bp):
GTTTTGTTTTTTCTCTCTTTTTCTTT
Found at i:2106215 original size:9 final size:9
Alignment explanation
Indices: 2106175--2106225 Score: 66
Period size: 9 Copynumber: 5.6 Consensus size: 9
2106165 CTTTTCTCTC
*
2106175 TTTTTCTTT
1 TTTTTGTTT
*
2106184 GTTTTGTTT
1 TTTTTGTTT
2106193 TTTTTGTTT
1 TTTTTGTTT
*
2106202 TTTTTTTTGT
1 TTTTTGTT-T
2106212 TTTTTGTTT
1 TTTTTGTTT
2106221 TTTTT
1 TTTTT
2106226 TGAAGAGAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
9 28 0.78
10 8 0.22
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:2107566 original size:21 final size:21
Alignment explanation
Indices: 2107541--2107595 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
2107531 TTGTAGCGAA
2107541 CATCTTTTTTGCTAGAAGATC
1 CATCTTTTTTGCTAGAAGATC
*
2107562 CATCTTTCTTGCTAGAAGATC
1 CATCTTTTTTGCTAGAAGATC
2107583 CATCTTTCTTTGC
1 CATCTTT-TTTGC
2107596 AAATACCCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.44
Consensus pattern (21 bp):
CATCTTTTTTGCTAGAAGATC
Found at i:2108442 original size:21 final size:21
Alignment explanation
Indices: 2108417--2108471 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
2108407 TTGTAGCGAA
2108417 CATCTTTTTTGCTAGAAGATC
1 CATCTTTTTTGCTAGAAGATC
*
2108438 CATCTTTCTTGCTAGAAGATC
1 CATCTTTTTTGCTAGAAGATC
2108459 CATCTTTCTTTGC
1 CATCTTT-TTTGC
2108472 AAATACCCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.44
Consensus pattern (21 bp):
CATCTTTTTTGCTAGAAGATC
Found at i:2111284 original size:13 final size:13
Alignment explanation
Indices: 2111266--2111290 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2111256 CATAAAGTGT
2111266 TGTATCGATACAA
1 TGTATCGATACAA
2111279 TGTATCGATACA
1 TGTATCGATACA
2111291 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2111288 original size:33 final size:33
Alignment explanation
Indices: 2111246--2111312 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2111236 ATCAACGATT
2111246 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
2111279 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2111312 T
1 T
2111313 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2111371 original size:13 final size:13
Alignment explanation
Indices: 2111353--2111377 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2111343 ATCACTTAAA
2111353 TGTATCGATACAT
1 TGTATCGATACAT
2111366 TGTATCGATACA
1 TGTATCGATACA
2111378 CTGATCTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2114997 original size:28 final size:27
Alignment explanation
Indices: 2114957--2115027 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
2114947 AAACAAGCCT
*
2114957 CCATATTTGACAAATC-CAAAAGAAACCA
1 CCATTTTTGACAAA-CACAAAA-AAACCA
* *
2114985 CCATTTTTAACAAACACAAAATAACCA
1 CCATTTTTGACAAACACAAAAAAACCA
*
2115012 CCCTTTTTGACAAACA
1 CCATTTTTGACAAACA
2115028 AATGGGTGGC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 20 0.54
28 17 0.46
ACGTcount: A:0.46, C:0.27, G:0.04, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAAAAACCA
Found at i:2116666 original size:3 final size:3
Alignment explanation
Indices: 2116658--2116686 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2116648 AAAATTATAA
2116658 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2116687 CAACAGTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2119382 original size:17 final size:18
Alignment explanation
Indices: 2119362--2119398 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
2119352 TAAAAATTAA
2119362 TATATT-TATATTAT-TTT
1 TATATTATA-ATTATATTT
2119379 TATATTATAATTATATTT
1 TATATTATAATTATATTT
2119397 TA
1 TA
2119399 AATATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATATTATAATTATATTT
Found at i:2119412 original size:62 final size:56
Alignment explanation
Indices: 2119346--2119475 Score: 127
Period size: 62 Copynumber: 2.2 Consensus size: 56
2119336 TAACTAAAAG
* *
2119346 TAATTTTAAAAATTAATATATTTATATTATTTTTA-TATTATAATTATATTTTAAATATTAAA
1 TAATTTTAAAAATTAACATA-TTA-ATAATTTTTATTATT-TAA-T-T-TTTT-AATATTAAA
**
2119408 TAATTATATAAATTTTAACATATTAATAATTTTTATTATTTAATTTTTTAATATTAAA
1 TAATT-T-TAAAAATTAACATATTAATAATTTTTATTATTTAATTTTTTAATATTAAA
2119466 TAAATTTTAA
1 T-AATTTTAA
2119476 TATATTTTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
57 3 0.05
58 11 0.18
59 8 0.13
60 1 0.02
61 1 0.02
62 17 0.28
63 8 0.13
64 11 0.18
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.55
Consensus pattern (56 bp):
TAATTTTAAAAATTAACATATTAATAATTTTTATTATTTAATTTTTTAATATTAAA
Found at i:2119475 original size:17 final size:17
Alignment explanation
Indices: 2119410--2119478 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 17
2119400 ATATTAAATA
*
2119410 ATTATATAAATTTTAACAT
1 ATTAAATAAATTTT-A-AT
* *
2119429 ATT-AATAATTTTTATT
1 ATTAAATAAATTTTAAT
* *
2119445 ATTTAAT--TTTTTAAT
1 ATTAAATAAATTTTAAT
2119460 ATTAAATAAATTTTAAT
1 ATTAAATAAATTTTAAT
2119477 AT
1 AT
2119479 ATTTTTATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
15 13 0.32
16 4 0.10
17 13 0.32
18 8 0.20
19 3 0.07
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTAAATAAATTTTAAT
Found at i:2119853 original size:30 final size:30
Alignment explanation
Indices: 2119797--2119852 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 30
2119787 ATAAATAATT
*
2119797 ATTTTTAAAAAATAATAAATTATTTTTAAA
1 ATTTTTAAAAAATAAAAAATTATTTTTAAA
*
2119827 ATTTTT-AAAAGTAAAAAATTATTTTT
1 ATTTTTAAAAAATAAAAAATTATTTTT
2119853 TTATAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (30 bp):
ATTTTTAAAAAATAAAAAATTATTTTTAAA
Found at i:2119912 original size:35 final size:32
Alignment explanation
Indices: 2119883--2119950 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
2119873 ATATTTTAAA
*
2119883 AAATTAAAAATAATATTTATTTTTAATATTATT
1 AAATCAAAAA-AATATTTATTTTTAATATTATT
* *
2119916 AAATCATAAAAATATTTATTTTTAATATAATT
1 AAATCAAAAAAATATTTATTTTTAATATTATT
2119948 AAA
1 AAA
2119951 CTTAAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 24 0.75
33 8 0.25
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (32 bp):
AAATCAAAAAAATATTTATTTTTAATATTATT
Found at i:2119915 original size:16 final size:16
Alignment explanation
Indices: 2119891--2119942 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
2119881 AAAAATTAAA
2119891 AATAATATTTATTTTT
1 AATAATATTTATTTTT
* * * **
2119907 AATATTATTAAATCAT
1 AATAATATTTATTTTT
*
2119923 AAAAATATTTATTTTT
1 AATAATATTTATTTTT
2119939 AATA
1 AATA
2119943 TAATTAAACT
Statistics
Matches: 24, Mismatches: 12, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
AATAATATTTATTTTT
Found at i:2120103 original size:26 final size:26
Alignment explanation
Indices: 2120067--2120126 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
2120057 CAATAAGTGT
* *
2120067 TTTTACAAATTTAAATTTT-TTATTTA
1 TTTTA-AAAATTAAATTTTAATATTTA
*
2120093 TTTTAAAAATTATATTTTAATATTTA
1 TTTTAAAAATTAAATTTTAATATTTA
2120119 TATTTAAA
1 T-TTTAAA
2120127 TATATATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 11 0.38
26 12 0.41
27 6 0.21
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (26 bp):
TTTTAAAAATTAAATTTTAATATTTA
Found at i:2120128 original size:14 final size:14
Alignment explanation
Indices: 2120087--2120129 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
2120077 TTAAATTTTT
2120087 TATTTAT-TTTAAA
1 TATTTATATTTAAA
* *
2120100 -AATTATATTTTAA
1 TATTTATATTTAAA
2120113 TATTTATATTTAAA
1 TATTTATATTTAAA
2120127 TAT
1 TAT
2120130 ATATTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 5 0.21
13 5 0.21
14 14 0.58
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTTATATTTAAA
Found at i:2120324 original size:24 final size:24
Alignment explanation
Indices: 2120277--2120324 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
2120267 TAACAAAAAT
* ** *
2120277 TAAATATTACCTTAATTTTTTTAA
1 TAAATATTACATTAATCATATTAA
2120301 TAAATATTACATTAATCATATTAA
1 TAAATATTACATTAATCATATTAA
2120325 ATTTTTTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAATATTACATTAATCATATTAA
Found at i:2120686 original size:29 final size:28
Alignment explanation
Indices: 2120642--2120696 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
2120632 ATCTTCGTAT
*
2120642 AATTATTTTTTATATTTTTATTTAAAAA
1 AATTATTTTTTATATTTATATTTAAAAA
2120670 AATTATATTTTTATATTTATATTTAAA
1 AATTAT-TTTTTATATTTATATTTAAA
2120697 TATATATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
AATTATTTTTTATATTTATATTTAAAAA
Found at i:2121058 original size:14 final size:14
Alignment explanation
Indices: 2121020--2121081 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
2121010 AATAAAAAAT
2121020 AAATA-TATATAAA
1 AAATATTATATAAA
* *
2121033 AATTATTTTATAAA
1 AAATATTATATAAA
*
2121047 AAATATCATATAAA
1 AAATATTATATAAA
*
2121061 ATATATTATGATATAA
1 AAATATTAT-ATA-AA
2121077 AAATA
1 AAATA
2121082 ATATGAATAT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
13 4 0.11
14 25 0.66
15 3 0.08
16 6 0.16
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (14 bp):
AAATATTATATAAA
Found at i:2121076 original size:17 final size:17
Alignment explanation
Indices: 2121054--2121093 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
2121044 AAAAAATATC
*
2121054 ATATAAAATATATTATG-
1 ATATAAAA-ATAATATGA
2121071 ATATAAAAATAATATGA
1 ATATAAAAATAATATGA
2121088 ATATAA
1 ATATAA
2121094 TGTAAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
ATATAAAAATAATATGA
Found at i:2121085 original size:28 final size:27
Alignment explanation
Indices: 2121020--2121085 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
2121010 AATAAAAAAT
*
2121020 AAATATATATAAAAATTATTTTATAAA
1 AAATATATATAAAAATTATTTGATAAA
2121047 AAATATCATAT-AAAATATATTATGATATAA
1 AAATAT-ATATAAAAAT-TATT-TGATA-AA
2121077 AAATA-ATAT
1 AAATATATAT
2121086 GAATATAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
27 11 0.32
28 12 0.35
29 4 0.12
30 7 0.21
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (27 bp):
AAATATATATAAAAATTATTTGATAAA
Found at i:2121093 original size:11 final size:11
Alignment explanation
Indices: 2121071--2121113 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
2121061 ATATATTATG
*
2121071 ATATAAAAATA
1 ATATAAATATA
*
2121082 ATATGAATATA
1 ATATAAATATA
*
2121093 ATGTAAATATA
1 ATATAAATATA
2121104 A-ATAAATATA
1 ATATAAATATA
2121114 TCAAAAATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (11 bp):
ATATAAATATA
Found at i:2124030 original size:22 final size:22
Alignment explanation
Indices: 2123996--2124051 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
2123986 CTGGACATGT
*
2123996 TAAAAAAA-ACATGAAACATAA
1 TAAAAAAATGCATGAAACATAA
2124017 TAAAAAAATGCATGAAACATAA
1 TAAAAAAATGCATGAAACATAA
2124039 TAAAAAAATGCAT
1 TAAAAAAATGCAT
2124052 AGTCAAAGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 8 0.24
22 25 0.76
ACGTcount: A:0.66, C:0.09, G:0.07, T:0.18
Consensus pattern (22 bp):
TAAAAAAATGCATGAAACATAA
Found at i:2125008 original size:20 final size:20
Alignment explanation
Indices: 2124961--2125035 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
2124951 AAAAAGACAT
*
2124961 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
2124980 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
2125001 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
2125021 AATGTATCGATACAT
1 AATGTATCGATACAT
2125036 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:2125029 original size:40 final size:39
Alignment explanation
Indices: 2124958--2125035 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2124948 GGTAAAAAGA
* *
2124958 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
2124997 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
2125036 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:2130833 original size:17 final size:17
Alignment explanation
Indices: 2130811--2130849 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2130801 TAGAACCAAT
2130811 AATTTGTT-TTTCAATTA
1 AATTTGTTCTTT-AATTA
*
2130828 AATTTGTTCTTTAATTT
1 AATTTGTTCTTTAATTA
2130845 AATTT
1 AATTT
2130850 ATTTAAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (17 bp):
AATTTGTTCTTTAATTA
Found at i:2131052 original size:2 final size:2
Alignment explanation
Indices: 2131045--2131070 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2131035 GTAAAATAGA
2131045 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
2131071 TATTAATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2132223 original size:17 final size:17
Alignment explanation
Indices: 2132176--2132226 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
2132166 ATATTTATAT
* *
2132176 TTATATATATT-TAATA
1 TTATATAAATTATAAAA
* **
2132192 TAATATAAAAAATAAAA
1 TTATATAAATTATAAAA
2132209 TTATATAAATTATAAAA
1 TTATATAAATTATAAAA
2132226 T
1 T
2132227 AATTAATTAA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
16 7 0.27
17 19 0.73
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTATATAAATTATAAAA
Found at i:2132792 original size:17 final size:17
Alignment explanation
Indices: 2132770--2132803 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2132760 ATATTATATT
*
2132770 TTTAATATATTTGTAAA
1 TTTAATATATTTATAAA
2132787 TTTAATATATTTATAAA
1 TTTAATATATTTATAAA
2132804 AAATATATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTAATATATTTATAAA
Found at i:2133076 original size:13 final size:12
Alignment explanation
Indices: 2133056--2133101 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
2133046 AAATATGATA
2133056 AATATATTTTACT
1 AATATATTTTA-T
*
2133069 ATTATATTTTAT
1 AATATATTTTAT
*
2133081 AAAATATTTTAAT
1 AATATATTTT-AT
2133094 AATATATT
1 AATATATT
2133102 ATATTTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 9 0.32
13 19 0.68
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (12 bp):
AATATATTTTAT
Found at i:2133119 original size:29 final size:31
Alignment explanation
Indices: 2133068--2133131 Score: 105
Period size: 29 Copynumber: 2.1 Consensus size: 31
2133058 TATATTTTAC
2133068 TATTATATTTTATAAAATATTTT-AATAATA
1 TATTATATTTTATAAAATATTTTAAATAATA
2133098 TATTATATTTT-TAAAATATTTTGAAATAATA
1 TATTATATTTTATAAAATATTTT-AAATAATA
2133129 TAT
1 TAT
2133132 ATTTAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 11 0.34
30 11 0.34
31 10 0.31
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (31 bp):
TATTATATTTTATAAAATATTTTAAATAATA
Found at i:2133126 original size:31 final size:30
Alignment explanation
Indices: 2133068--2133154 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 30
2133058 TATATTTTAC
2133068 TATTATATTTTATAAAATATTTTAATAATA
1 TATTATATTTTATAAAATATTTTAATAATA
*
2133098 TATTATATTTT-TAAAATATTTTGA-AATA
1 TATTATATTTTATAAAATATTTTAATAATA
* *
2133126 -A-TATATATTTA-AAAATATTATATTAATA
1 TATTATAT-TTTATAAAATATTTTAATAATA
2133154 T
1 T
2133155 TCTATGCTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
26 5 0.10
27 13 0.27
28 8 0.16
29 12 0.24
30 11 0.22
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (30 bp):
TATTATATTTTATAAAATATTTTAATAATA
Found at i:2133153 original size:28 final size:27
Alignment explanation
Indices: 2133071--2133153 Score: 64
Period size: 28 Copynumber: 3.0 Consensus size: 27
2133061 ATTTTACTAT
*
2133071 TATAT-TTTATAAAATATTTTAATAAT-A
1 TATATATTTA-AAAATA-TTTATTAATAA
* *
2133098 TATTATATTTTTAAAATATTT-TGAAATAA
1 TA-TATA-TTTAAAAATATTTAT-TAATAA
2133127 TATATATTTAAAAATATTATATTAATA
1 TATATATTTAAAAATATT-TATTAATA
2133154 TTCTATGCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
27 13 0.30
28 18 0.41
29 10 0.23
30 3 0.07
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (27 bp):
TATATATTTAAAAATATTTATTAATAA
Found at i:2133290 original size:11 final size:11
Alignment explanation
Indices: 2133240--2133322 Score: 59
Period size: 11 Copynumber: 7.8 Consensus size: 11
2133230 ATATATATAT
2133240 ATATTTATATATA
1 ATATTT-TA-ATA
* *
2133253 ATATTTTGACA
1 ATATTTTAATA
*
2133264 ATATATT--TA
1 ATATTTTAATA
2133273 A-ATTTTAATA
1 ATATTTTAATA
2133283 ATATTTTAA-A
1 ATATTTTAATA
*
2133293 ATATGTTAATA
1 ATATTTTAATA
*
2133304 ATA-TTTAAAA
1 ATATTTTAATA
*
2133314 ATCTTTTAA
1 ATATTTTAA
2133323 CAGTATTTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
8 4 0.07
9 2 0.04
10 19 0.34
11 24 0.43
12 1 0.02
13 6 0.11
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (11 bp):
ATATTTTAATA
Found at i:2133322 original size:21 final size:21
Alignment explanation
Indices: 2133274--2133322 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
2133264 ATATATTTAA
*
2133274 ATTTTAATAATATTTTAAAAT
1 ATTTTAATAATATTTAAAAAT
*
2133295 ATGTTAATAATATTTAAAAAT
1 ATTTTAATAATATTTAAAAAT
*
2133316 CTTTTAA
1 ATTTTAA
2133323 CAGTATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTTTAATAATATTTAAAAAT
Found at i:2133537 original size:17 final size:17
Alignment explanation
Indices: 2133515--2133548 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2133505 AATGTGTAAA
*
2133515 TCAAAAAGATAATGCTT
1 TCAAAAAGATAACGCTT
2133532 TCAAAAAGATAACGCTT
1 TCAAAAAGATAACGCTT
2133549 AAGCATTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (17 bp):
TCAAAAAGATAACGCTT
Found at i:2133801 original size:14 final size:14
Alignment explanation
Indices: 2133768--2133800 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
2133758 TCAAATTTAG
2133768 TTTTTTCTTTTTCT
1 TTTTTTCTTTTTCT
2133782 TTTTTTCTTTTT-T
1 TTTTTTCTTTTTCT
2133795 TTTTTT
1 TTTTTT
2133801 TTAAAATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (14 bp):
TTTTTTCTTTTTCT
Found at i:2134916 original size:28 final size:28
Alignment explanation
Indices: 2134884--2134939 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
2134874 GAACTCGGAA
2134884 TAAAGGAGGTATGAAATGGTTACACCCC
1 TAAAGGAGGTATGAAATGGTTACACCCC
2134912 TAAAGGAGGTATGAAATGGTTACACCCC
1 TAAAGGAGGTATGAAATGGTTACACCCC
2134940 AACCGAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (28 bp):
TAAAGGAGGTATGAAATGGTTACACCCC
Found at i:2135992 original size:14 final size:14
Alignment explanation
Indices: 2135960--2135993 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
2135950 CCAAATAATG
2135960 TTATT-TTAAAATA
1 TTATTATTAAAATA
2135973 -TATTATTAAAATA
1 TTATTATTAAAATA
2135986 TTATTATT
1 TTATTATT
2135994 TTTGCCACGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.21
13 8 0.42
14 7 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATTATTAAAATA
Found at i:2139261 original size:23 final size:24
Alignment explanation
Indices: 2139235--2139279 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
2139225 TATGGATAGG
*
2139235 AAAATTTTTTAAT-TTTAAATTAA
1 AAAATTATTTAATATTTAAATTAA
*
2139258 AAAATTATTTAATATTTTAATT
1 AAAATTATTTAATATTTAAATT
2139280 TTTAAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
AAAATTATTTAATATTTAAATTAA
Found at i:2139941 original size:3 final size:3
Alignment explanation
Indices: 2139933--2139973 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
2139923 AACGAACCCG
*
2139933 ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2139974 TCGGAGCTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2140591 original size:22 final size:22
Alignment explanation
Indices: 2140566--2140610 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
2140556 ATGCATTTAA
2140566 ATATATTTTTAT-ATTAATATTT
1 ATATATTTTTATAATTAA-ATTT
2140588 ATATATTTTTATAATTAAATTT
1 ATATATTTTTATAATTAAATTT
2140610 A
1 A
2140611 AAGTGAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATATTTTTATAATTAAATTT
Found at i:2143743 original size:2 final size:2
Alignment explanation
Indices: 2143736--2143776 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2143726 CTTAGTAATT
2143736 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2143777 TTCTTCTACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2144193 original size:18 final size:18
Alignment explanation
Indices: 2144146--2144193 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
2144136 AATGCAAACT
*
2144146 TTATTTCAAAAATATTTA
1 TTATTTAAAAAATATTTA
2144164 TTA-TTAACAAAATATTTA
1 TTATTTAA-AAAATATTTA
2144182 TTATTTAAAAAA
1 TTATTTAAAAAA
2144194 ATTAACTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 3 0.11
18 20 0.74
19 4 0.15
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
TTATTTAAAAAATATTTA
Found at i:2150649 original size:16 final size:17
Alignment explanation
Indices: 2150630--2150662 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2150620 AATATAATAT
2150630 TATTTA-AAAAATTTTA
1 TATTTATAAAAATTTTA
*
2150646 TATTTATATAAATTTTA
1 TATTTATAAAAATTTTA
2150663 CTATACCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTTATAAAAATTTTA
Found at i:2150694 original size:16 final size:16
Alignment explanation
Indices: 2150614--2150722 Score: 56
Period size: 14 Copynumber: 6.8 Consensus size: 16
2150604 TTATATATTT
*
2150614 TATTAGAATATAATATTA
1 TATTA-AATA-AATTTTA
2150632 T-TTAAA-AAATTTTA
1 TATTAAATAAATTTTA
*
2150646 TATTTATATAAATTTTA
1 TA-TTAAATAAATTTTA
2150663 CTA-TACCAAT-AA-TTTA
1 -TATTA--AATAAATTTTA
2150679 TATTAAATAAA-TTT-
1 TATTAAATAAATTTTA
2150693 TA--AAATAAATATTTA
1 TATTAAATAAAT-TTTA
2150708 TATTATAATATAATT
1 TATTA-AATA-AATT
2150723 ATTTTATTTT
Statistics
Matches: 73, Mismatches: 3, Indels: 30
0.69 0.03 0.28
Matches are distributed among these distances:
12 7 0.10
14 15 0.21
15 10 0.14
16 14 0.19
17 14 0.19
18 10 0.14
19 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.48
Consensus pattern (16 bp):
TATTAAATAAATTTTA
Found at i:2152066 original size:15 final size:16
Alignment explanation
Indices: 2152027--2152079 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
2152017 TAATTTTAGG
*
2152027 TTAAATTTTTTTAAAT
1 TTAAATTATTTTAAAT
2152043 TTAAATTATTTTAAA-
1 TTAAATTATTTTAAAT
* * *
2152058 TTGAATTATATTAAGT
1 TTAAATTATTTTAAAT
2152074 TTAAAT
1 TTAAAT
2152080 CTTTTTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 12 0.39
16 19 0.61
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (16 bp):
TTAAATTATTTTAAAT
Found at i:2152691 original size:32 final size:32
Alignment explanation
Indices: 2152654--2152731 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 32
2152644 TAAATTGACA
* *
2152654 TTAAATTTAAATTATTATAA-TTAAAAATTATT
1 TTAAATTTATATTATT-TAATTTAAAAATTAAT
**
2152686 TTAAATTTATATTATTTAATTTTTAAATTAAT
1 TTAAATTTATATTATTTAATTTAAAAATTAAT
2152718 TTAAATTTATATTA
1 TTAAATTTATATTA
2152732 CATAAATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 3 0.07
32 38 0.93
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
TTAAATTTATATTATTTAATTTAAAAATTAAT
Found at i:2152699 original size:16 final size:15
Alignment explanation
Indices: 2152680--2152731 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
2152670 ATAATTAAAA
2152680 ATTATTTTAAATTTAT
1 ATTA-TTTAAATTTAT
* *
2152696 ATTATTTAATTTTTAA
1 ATTATTTAA-ATTTAT
2152712 ATTAATTTAAATTTAT
1 ATT-ATTTAAATTTAT
2152728 ATTA
1 ATTA
2152732 CATAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
15 6 0.20
16 18 0.60
17 6 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTATTTAAATTTAT
Found at i:2152742 original size:32 final size:32
Alignment explanation
Indices: 2152678--2152744 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
2152668 TTATAATTAA
* ** *
2152678 AAATTATTTTAAATTTATATTATTTAATTTTT
1 AAATTAATTTAAATTTATATTACATAAATTTT
2152710 AAATTAATTTAAATTTATATTACATAAATTTT
1 AAATTAATTTAAATTTATATTACATAAATTTT
2152742 AAA
1 AAA
2152745 CCCAAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (32 bp):
AAATTAATTTAAATTTATATTACATAAATTTT
Found at i:2152986 original size:21 final size:20
Alignment explanation
Indices: 2152962--2153018 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
2152952 AAAAAATTTA
2152962 ATTTATTTAATTTAAATTATT
1 ATTTATTTAATTTAAATTA-T
** **
2152983 ATTTAAATAATAAAAATTAT
1 ATTTATTTAATTTAAATTAT
2153003 ATTTATTTAAATTTAA
1 ATTTATTT-AATTTAA
2153019 TAATAAATAT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTATTTAATTTAAATTAT
Found at i:2153746 original size:26 final size:27
Alignment explanation
Indices: 2153676--2153746 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 27
2153666 TCGAAAATAT
*
2153676 TATTTTATATATATTT-AATAATTAAAA
1 TATTTTA-ATTTATTTAAATAATTAAAA
* ** **
2153703 TATTTTACTTTAAATAAATAATT-TGA
1 TATTTTAATTTATTTAAATAATTAAAA
2153729 TATTTTAATTTATTTAAA
1 TATTTTAATTTATTTAAA
2153747 ATTTATTTTA
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
26 20 0.59
27 14 0.41
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (27 bp):
TATTTTAATTTATTTAAATAATTAAAA
Found at i:2153791 original size:15 final size:14
Alignment explanation
Indices: 2153771--2153834 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 14
2153761 ATTGACATAA
2153771 AAAAATATAAAATAT
1 AAAAATATAAAAT-T
2153786 AAAAAT-T-AAATT
1 AAAAATATAAAATT
2153798 AACTAAATATAAATTATAT
1 AA--AAATATAAA--AT-T
2153817 AAAAATA-AAAATT
1 AAAAATATAAAATT
2153830 AAAAA
1 AAAAA
2153835 ATTACATTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
12 3 0.07
13 10 0.24
14 7 0.17
15 7 0.17
16 5 0.12
17 5 0.12
18 2 0.05
19 3 0.07
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAATATAAAATT
Found at i:2153806 original size:29 final size:31
Alignment explanation
Indices: 2153773--2153831 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
2153763 TGACATAAAA
*
2153773 AAATATAAA-ATATAAAAAT-TAAATTAACT
1 AAATATAAATATATAAAAATAAAAATTAACT
2153802 AAATATAAATTATATAAAAATAAAAATTAA
1 AAATATAAA-TATATAAAAATAAAAATTAA
2153832 AAAATTACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 9 0.35
31 10 0.38
32 7 0.27
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (31 bp):
AAATATAAATATATAAAAATAAAAATTAACT
Found at i:2153835 original size:15 final size:15
Alignment explanation
Indices: 2153768--2153835 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
2153758 AATATTGACA
2153768 TAAAAAAATATAAAA-
1 TAAAAAAATA-AAAAT
* *
2153783 TATAAAAAT-TAAAT
1 TAAAAAAATAAAAAT
** *
2153797 TAACTAAATATAAAT
1 TAAAAAAATAAAAAT
2153812 TATATAAAAATAAAAAT
1 TA-A-AAAAATAAAAAT
2153829 TAAAAAA
1 TAAAAAA
2153836 TTACATTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
13 3 0.07
14 6 0.15
15 19 0.46
16 2 0.05
17 11 0.27
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAAAAATAAAAAT
Found at i:2154218 original size:38 final size:38
Alignment explanation
Indices: 2154174--2154355 Score: 220
Period size: 38 Copynumber: 4.8 Consensus size: 38
2154164 TAATGGTTAA
* *** *
2154174 AGAATTCAATTTAAAATTGATTGGCGGCTAACGATTAG
1 AGAATTCAATTTCAAATTGGCCGGCGGCTGACGATTAG
* ** *
2154212 AGAATTCAATTTGAAATTGGTTGGCGGCTGACGGTTAG
1 AGAATTCAATTTCAAATTGGCCGGCGGCTGACGATTAG
* * *
2154250 AGAATTCAATTTCGAATTGGCCGACGGCTGACGGTTAG
1 AGAATTCAATTTCAAATTGGCCGGCGGCTGACGATTAG
* *
2154288 AGAATTCAATTTCGAATTGGCCGGCGGCTGACGACTAG
1 AGAATTCAATTTCAAATTGGCCGGCGGCTGACGATTAG
* *
2154326 AGAATTCAATTTGAAATTGGCCGGTGGCTG
1 AGAATTCAATTTCAAATTGGCCGGCGGCTG
2154356 GTGGCTAGAG
Statistics
Matches: 129, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 129 1.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (38 bp):
AGAATTCAATTTCAAATTGGCCGGCGGCTGACGATTAG
Found at i:2154364 original size:38 final size:38
Alignment explanation
Indices: 2154174--2154379 Score: 218
Period size: 38 Copynumber: 5.4 Consensus size: 38
2154164 TAATGGTTAA
* *** * **
2154174 AGAATTCAATTTAAAATTGATTGGCGGCTAACGATTAG
1 AGAATTCAATTTGAAATTGGCCGGCGGCTGACGGCTAG
** *
2154212 AGAATTCAATTTGAAATTGGTTGGCGGCTGACGGTTAG
1 AGAATTCAATTTGAAATTGGCCGGCGGCTGACGGCTAG
* *
2154250 AGAATTCAATTTCG-AATTGGCCGACGGCTGACGGTTAG
1 AGAATTCAATTT-GAAATTGGCCGGCGGCTGACGGCTAG
*
2154288 AGAATTCAATTTCG-AATTGGCCGGCGGCTGACGACTAG
1 AGAATTCAATTT-GAAATTGGCCGGCGGCTGACGGCTAG
* **
2154326 AGAATTCAATTTGAAATTGGCCGGTGGCTGGTGGCTAG
1 AGAATTCAATTTGAAATTGGCCGGCGGCTGACGGCTAG
*
2154364 AGAATTCCAAATTGAA
1 AGAATT-CAATTTGAA
2154380 CTCTCTTTGA
Statistics
Matches: 150, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
37 1 0.01
38 140 0.93
39 9 0.06
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (38 bp):
AGAATTCAATTTGAAATTGGCCGGCGGCTGACGGCTAG
Found at i:2160971 original size:20 final size:22
Alignment explanation
Indices: 2160932--2160971 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2160922 TATTTTTATT
*
2160932 TAAATATAATTCTCAAAATATA
1 TAAATATAATTATCAAAATATA
2160954 TAAATATAA-TAT-AAAATA
1 TAAATATAATTATCAAAATA
2160972 ATTTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 2 0.12
22 9 0.53
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAATATAATTATCAAAATATA
Found at i:2165114 original size:24 final size:24
Alignment explanation
Indices: 2165087--2165143 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
2165077 TTAAATGCAT
2165087 TTAAATTTTCATA-AGTTTTTGAT-A
1 TTAAATTTT-ATATAGTTTTT-ATAA
*
2165111 TTAATAATTTATATAGTTTTTATAA
1 TTAA-ATTTTATATAGTTTTTATAA
2165136 TTAAATTT
1 TTAAATTT
2165144 AAAGTGACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (24 bp):
TTAAATTTTATATAGTTTTTATAA
Found at i:2172382 original size:19 final size:19
Alignment explanation
Indices: 2172358--2172394 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2172348 TGTGCCATGG
*
2172358 AACAACGTCTTGCTTCTGC
1 AACAACGTCTTCCTTCTGC
*
2172377 AACAACTTCTTCCTTCTG
1 AACAACGTCTTCCTTCTG
2172395 GATTCCCACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.32, G:0.11, T:0.35
Consensus pattern (19 bp):
AACAACGTCTTCCTTCTGC
Found at i:2177420 original size:26 final size:24
Alignment explanation
Indices: 2177387--2177443 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
2177377 TGACATTAAA
2177387 TTTAAATTATTATAATTAAAAATTAT
1 TTTAAATTATTAT-ATTAAAAATT-T
**
2177413 TTTAAA-T-TTATATTATTAATTT
1 TTTAAATTATTATATTAAAAATTT
2177435 TTTAAATTA
1 TTTAAATTA
2177444 ATTTAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 7 0.26
23 9 0.33
24 4 0.15
25 1 0.04
26 6 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTAAATTATTATATTAAAAATTT
Found at i:2178520 original size:15 final size:14
Alignment explanation
Indices: 2178501--2178559 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 14
2178491 ATATAAAAAT
2178501 ATAAAATTAAATTA
1 ATAAAATTAAATTA
2178515 ACT-AAATATAAATTA
1 A-TAAAAT-TAAATTA
*
2178530 TATAAAAATAAAATTA
1 -AT-AAAATTAAATTA
*
2178546 A-AAAATTACATTA
1 ATAAAATTAAATTA
2178559 A
1 A
2178560 CTTTTATTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
13 11 0.30
14 5 0.14
15 10 0.27
16 7 0.19
17 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAAATTAAATTA
Found at i:2178927 original size:37 final size:37
Alignment explanation
Indices: 2178886--2179047 Score: 118
Period size: 36 Copynumber: 4.4 Consensus size: 37
2178876 TAATGGTTAA
*
2178886 AGAATTCAATTT-AAAATGATTGGCGGCTAACGATTAG
1 AGAATTCAATTTGAAAATG-GTGGCGGCTAACGATTAG
* * *
2178923 AGAA-TCAATTTGAAATTGGTGGCGGCTGACGGTTAG
1 AGAATTCAATTTGAAAATGGTGGCGGCTAACGATTAG
* * * ** *
2178959 AGAATTCAATTTCG-AATTGGCGACGGCTTGCGGTT-G
1 AGAATTCAATTT-GAAAATGGTGGCGGCTAACGATTAG
* * * * *
2178995 AGAATTCAATTTCG-AATTGGCCGGCGGCTGACGACTCG
1 AGAATTCAATTT-GAAAATGG-TGGCGGCTAACGATTAG
2179033 AGAATTCAATTTGAA
1 AGAATTCAATTTGAA
2179048 TGGCCGGTGT
Statistics
Matches: 106, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
36 47 0.44
37 44 0.42
38 15 0.14
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (37 bp):
AGAATTCAATTTGAAAATGGTGGCGGCTAACGATTAG
Found at i:2178946 original size:36 final size:37
Alignment explanation
Indices: 2178907--2179048 Score: 159
Period size: 36 Copynumber: 3.9 Consensus size: 37
2178897 TAAAATGATT
* *
2178907 GGCGGCTAACGATTAGAGAA-TCAATTT-GAAATTGGT
1 GGCGGCTGACGATTAGAGAATTCAATTTCG-AATTGGC
*
2178943 GGCGGCTGACGGTTAGAGAATTCAATTTCGAATTGGC
1 GGCGGCTGACGATTAGAGAATTCAATTTCGAATTGGC
* *
2178980 GACGGCTTG-CGGTT-GAGAATTCAATTTCGAATTGGCC
1 GGCGGC-TGACGATTAGAGAATTCAATTTCGAATTGG-C
* *
2179017 GGCGGCTGACGACTCGAGAATTCAATTT-GAAT
1 GGCGGCTGACGATTAGAGAATTCAATTTCGAAT
2179049 GGCCGGTGTG
Statistics
Matches: 93, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
36 41 0.44
37 36 0.39
38 16 0.17
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (37 bp):
GGCGGCTGACGATTAGAGAATTCAATTTCGAATTGGC
Found at i:2182760 original size:17 final size:17
Alignment explanation
Indices: 2182738--2182771 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2182728 AATGTGTAAA
2182738 TCAAAAAGATAATGCTT
1 TCAAAAAGATAATGCTT
2182755 TCAAAAAGATAATGCTT
1 TCAAAAAGATAATGCTT
2182772 AAGCATTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (17 bp):
TCAAAAAGATAATGCTT
Found at i:2183029 original size:14 final size:14
Alignment explanation
Indices: 2182996--2183028 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
2182986 TCAAATTTAG
2182996 TTTTTTCTTTTTCT
1 TTTTTTCTTTTTCT
2183010 TTTTTTCTTTTT-T
1 TTTTTTCTTTTTCT
2183023 TTTTTT
1 TTTTTT
2183029 TAGAATCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (14 bp):
TTTTTTCTTTTTCT
Found at i:2184134 original size:28 final size:28
Alignment explanation
Indices: 2184102--2184157 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
2184092 GAACTCGGAA
2184102 TAAAGGAGGTATGAAATGGTTACACCCC
1 TAAAGGAGGTATGAAATGGTTACACCCC
2184130 TAAAGGAGGTATGAAATGGTTACACCCC
1 TAAAGGAGGTATGAAATGGTTACACCCC
2184158 AACCGAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (28 bp):
TAAAGGAGGTATGAAATGGTTACACCCC
Found at i:2185211 original size:14 final size:14
Alignment explanation
Indices: 2185179--2185212 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
2185169 CCAAATAATG
2185179 TTATT-TTAAAATA
1 TTATTATTAAAATA
2185192 -TATTATTAAAATA
1 TTATTATTAAAATA
2185205 TTATTATT
1 TTATTATT
2185213 TTTGCCACGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.21
13 8 0.42
14 7 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATTATTAAAATA
Found at i:2188474 original size:23 final size:24
Alignment explanation
Indices: 2188448--2188492 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
2188438 TACGGATAGG
*
2188448 AAAATTTTTTAAT-TTTAAATTAA
1 AAAATTATTTAATATTTAAATTAA
*
2188471 AAAATTATTTAATATTTTAATT
1 AAAATTATTTAATATTTAAATT
2188493 TTTAAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
AAAATTATTTAATATTTAAATTAA
Found at i:2189785 original size:22 final size:22
Alignment explanation
Indices: 2189733--2189804 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 22
2189723 CTCAAAAATT
2189733 TTAT-TTTAT-TA-TTTTA-AA
1 TTATATTTATATATTTTTATAA
2189751 -TATATTTAAATATATTTTTAT-A
1 TTATATTT--ATATATTTTTATAA
2189773 TTAATATTTATATATTTTTATAA
1 TT-ATATTTATATATTTTTATAA
2189796 TTATATTTA
1 TTATATTTA
2189805 AGGTGAAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
17 3 0.07
18 3 0.07
20 2 0.04
21 2 0.04
22 25 0.56
23 4 0.09
24 6 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATATTTATATATTTTTATAA
Found at i:2193033 original size:2 final size:2
Alignment explanation
Indices: 2193026--2193054 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2193016 CTTAGTAATT
2193026 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2193055 TTAGATATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2193477 original size:18 final size:18
Alignment explanation
Indices: 2193430--2193477 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
2193420 AATGCAAATT
*
2193430 TTATTTCAAAAATATTTA
1 TTATTTAAAAAATATTTA
2193448 TTA-TTAACAAAATATTTA
1 TTATTTAA-AAAATATTTA
2193466 TTATTTAAAAAA
1 TTATTTAAAAAA
2193478 ATTAACTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 3 0.11
18 20 0.74
19 4 0.15
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
TTATTTAAAAAATATTTA
Found at i:2193934 original size:21 final size:20
Alignment explanation
Indices: 2193895--2193938 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
2193885 TTTAAATTGA
2193895 TTTTATTTAATATTATTAAAT
1 TTTTATTTAATATTATT-AAT
*
2193916 TTTTATTTATTTATT-TTAAT
1 TTTTATTTA-ATATTATTAAT
2193936 TTT
1 TTT
2193939 AAATATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 11 0.52
22 4 0.19
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTATTTAATATTATTAAT
Found at i:2194302 original size:18 final size:18
Alignment explanation
Indices: 2194228--2194308 Score: 60
Period size: 18 Copynumber: 4.4 Consensus size: 18
2194218 TATTAACTCG
2194228 TTATATATATTTTAATATAT
1 TTAT-TATATTTTAAT-TAT
* * *
2194248 TTATTA-AATTAAATAAT
1 TTATTATATTTTAATTAT
2194265 TTATTAT-TTATT-ATTAAT
1 TTATTATATT-TTAATT-AT
*
2194283 TTTTTATATTTTAATTAT
1 TTATTATATTTTAATTAT
*
2194301 TTTTTATA
1 TTATTATA
2194309 AATATTGTGT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
17 11 0.22
18 27 0.55
19 7 0.14
20 4 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATTATATTTTAATTAT
Found at i:2196253 original size:15 final size:16
Alignment explanation
Indices: 2196216--2196266 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
2196206 ATTTTGGGTA
*
2196216 AAATTTTTTTAAATTT
1 AAATTATTTTAAATTT
2196232 AAATTATTTTAAA-TT
1 AAATTATTTTAAATTT
* * *
2196247 GAATTATATTAAGTTT
1 AAATTATTTTAAATTT
2196263 AAAT
1 AAAT
2196267 CTTTTTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (16 bp):
AAATTATTTTAAATTT
Found at i:2197283 original size:10 final size:10
Alignment explanation
Indices: 2197268--2197298 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2197258 TAATGTGAAC
2197268 ATTTAAATTA
1 ATTTAAATTA
2197278 ATTTAAATTA
1 ATTTAAATTA
*
2197288 ATTTAATTTA
1 ATTTAAATTA
2197298 A
1 A
2197299 ATCCAGTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTTAAATTA
Found at i:2197293 original size:15 final size:15
Alignment explanation
Indices: 2197270--2197300 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2197260 ATGTGAACAT
2197270 TTAAATTAATTTAAA
1 TTAAATTAATTTAAA
*
2197285 TTAATTTAATTTAAA
1 TTAAATTAATTTAAA
2197300 T
1 T
2197301 CCAGTTAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAAATTAATTTAAA
Found at i:2197971 original size:21 final size:19
Alignment explanation
Indices: 2197930--2197974 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2197920 TAAATAAATA
*
2197930 ATTTAATATTTTTTAATTT
1 ATTTAAAATTTTTTAATTT
*
2197949 ATTTAAAATTTATTTTATATT
1 ATTTAAAATTT-TTTAAT-TT
2197970 ATTTA
1 ATTTA
2197975 CATAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.45
20 5 0.23
21 7 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTAAAATTTTTTAATTT
Found at i:2198033 original size:15 final size:16
Alignment explanation
Indices: 2197995--2198040 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
2197985 ATATAAAAAA
2197995 TATATAAAAATTAAAT
1 TATATAAAAATTAAAT
*
2198011 TA-ACTAAATA-TAAAT
1 TATA-TAAAAATTAAAT
2198026 TATATAAAAATTAAA
1 TATATAAAAATTAAA
2198041 AATTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
TATATAAAAATTAAAT
Done.