Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 12 of 235
Found at i:3219324 original size:15 final size:15
Alignment explanation
Indices: 3219306--3219335 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3219296 ATAATTTTTA
3219306 TAAATATTATTTAAT
1 TAAATATTATTTAAT
3219321 TAAATATTATTTAAT
1 TAAATATTATTTAAT
3219336 CCCGCTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAAATATTATTTAAT
Found at i:3219480 original size:9 final size:9
Alignment explanation
Indices: 3219440--3219629 Score: 107
Period size: 9 Copynumber: 20.6 Consensus size: 9
3219430 TATTTGATAT
*
3219440 CATAATTTA
1 CATAACTTA
*
3219449 TATAACTTA
1 CATAACTTA
* *
3219458 CAAAACGTA
1 CATAACTTA
3219467 CATAACTTA
1 CATAACTTA
*
3219476 TATAACTTA
1 CATAACTTA
* *
3219485 GATAA-ATA
1 CATAACTTA
*
3219493 TATAACTTA
1 CATAACTTA
3219502 CATAACTTA
1 CATAACTTA
3219511 CATAATACTTA
1 CAT-A-ACTTA
* *
3219522 AATATATTTTATA
1 CATA-A--CT-TA
*
3219535 TCATAATTTA
1 -CATAACTTA
3219545 CATAACTTA
1 CATAACTTA
3219554 CATAACTTA
1 CATAACTTA
*
3219563 TATAACTTA
1 CATAACTTA
* *
3219572 GATAA-ATA
1 CATAACTTA
* *
3219580 TATAATTTA
1 CATAACTTA
*
3219589 CATAA-ATA
1 CATAACTTA
* * *
3219597 TATATCATA
1 CATAACTTA
3219606 TCATAACTTA
1 -CATAACTTA
3219616 CATAACTTA
1 CATAACTTA
3219625 CATAA
1 CATAA
3219630 TACTTAAATA
Statistics
Matches: 142, Mismatches: 29, Indels: 20
0.74 0.15 0.10
Matches are distributed among these distances:
8 17 0.12
9 97 0.68
10 12 0.08
11 9 0.06
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:3219496 original size:17 final size:17
Alignment explanation
Indices: 3219474--3219629 Score: 93
Period size: 17 Copynumber: 8.9 Consensus size: 17
3219464 GTACATAACT
*
3219474 TATATAACTTAGATAAA
1 TATATAACTTACATAAA
*
3219491 TATATAACTTACATAACT
1 TATATAACTTACATAA-A
* *
3219509 TACATAA--TACTTAAA
1 TATATAACTTACATAAA
** *
3219524 TATAT-TTTATATCATAATT
1 TATATAACT-TA-CATAA-A
* *
3219543 TACATAACTTACATAACT
1 TATATAACTTACATAA-A
*
3219561 TATATAACTTAGATAAA
1 TATATAACTTACATAAA
*
3219578 TATATAATTTACATAAA
1 TATATAACTTACATAAA
* * *
3219595 TATATATCATATCATAACT
1 TATATAACTTA-CATAA-A
*
3219614 TACATAACTTACATAA
1 TATATAACTTACATAA
3219630 TACTTAAATA
Statistics
Matches: 105, Mismatches: 25, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
15 4 0.04
16 6 0.06
17 40 0.38
18 40 0.38
19 14 0.13
20 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.39
Consensus pattern (17 bp):
TATATAACTTACATAAA
Found at i:3219611 original size:96 final size:96
Alignment explanation
Indices: 3219413--3219620 Score: 231
Period size: 96 Copynumber: 2.1 Consensus size: 96
3219403 ATAAAAAACT
* *
3219413 TACATAATACATAAATATATTTGATATCATAATTTATATAACTTACAAAACGTACATAACTTATA
1 TACATAATACATAAATATATTTGATATCATAATTTACATAACTTACAAAACGTACATAACTTAGA
* * * *
3219478 TAACTTAGATAAATATATAACTTACATAACT
66 TAACATAGATAAATACATAACATACATAACA
* * * * *
3219509 TACATAATACTTAAATATATTTTATATCATAATTTACATAACTTACATAACTTATATAACTTAGA
1 TACATAATACATAAATATATTTGATATCATAATTTACATAACTTACAAAACGTACATAACTTAGA
* * * *
3219574 TAA-ATATATAATTTACATAA-ATATATATCA
66 TAACATAGATAA-ATACATAACATACATAACA
3219604 TATCATAACTTACATAA
1 TA-CATAA--TACATAA
3219621 CTTACATAAT
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
95 14 0.15
96 72 0.78
98 6 0.07
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (96 bp):
TACATAATACATAAATATATTTGATATCATAATTTACATAACTTACAAAACGTACATAACTTAGA
TAACATAGATAAATACATAACATACATAACA
Found at i:3225689 original size:43 final size:43
Alignment explanation
Indices: 3225658--3225789 Score: 210
Period size: 43 Copynumber: 3.0 Consensus size: 43
3225648 GCGTTTGTAA
3225658 AAAAAGCGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
1 AAAAA-CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
**
3225702 CTAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
* * *
3225745 ACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGTGTTTTTCCC
1 AAAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
3225788 AA
1 AA
3225790 TATACGCCAC
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
43 78 0.96
44 3 0.04
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
Found at i:3231544 original size:19 final size:20
Alignment explanation
Indices: 3231517--3231555 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
3231507 GTTTTAGTCA
3231517 AATTGAAAAC-TTTAAAAAT
1 AATTGAAAACATTTAAAAAT
* *
3231536 AATTTAAAACATTTAGAAAT
1 AATTGAAAACATTTAAAAAT
3231556 TGATATGGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
AATTGAAAACATTTAAAAAT
Found at i:3233632 original size:30 final size:30
Alignment explanation
Indices: 3233596--3233808 Score: 345
Period size: 30 Copynumber: 7.1 Consensus size: 30
3233586 TTTGCTACCT
3233596 CCAACTCCACTAGCCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCA
** *
3233626 TTAACTCCACTAACCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCA
3233656 CCAACTCCACTAGCCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCA
3233686 CCAACTCCACTAGCCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCA
** *
3233716 TTAACTCCACTAACCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCA
*
3233746 CCAACTCCACTAGCCACACTTGCTCCACTA
1 CCAACTCCACTAGCCACACTTGCTCCACCA
* *
3233776 CCTACTCCATTAGCCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCA
3233806 CCA
1 CCA
3233809 CTTGTACCTA
Statistics
Matches: 166, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 166 1.00
ACGTcount: A:0.27, C:0.47, G:0.06, T:0.20
Consensus pattern (30 bp):
CCAACTCCACTAGCCACACTTGCTCCACCA
Found at i:3233683 original size:18 final size:18
Alignment explanation
Indices: 3233660--3233713 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
3233650 CCACCACCAA
3233660 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
3233678 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
3233690 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
3233708 CTCCAC
1 CTCCAC
3233714 CATTAACTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 1 0.04
16 1 0.04
17 3 0.11
18 13 0.46
ACGTcount: A:0.24, C:0.50, G:0.07, T:0.19
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:3233703 original size:90 final size:90
Alignment explanation
Indices: 3233596--3233805 Score: 393
Period size: 90 Copynumber: 2.3 Consensus size: 90
3233586 TTTGCTACCT
3233596 CCAACTCCACTAGCCACACTTGCTCCACCATTAACTCCACTAACCACACTTGCTCCACCACCAAC
1 CCAACTCCACTAGCCACACTTGCTCCACCATTAACTCCACTAACCACACTTGCTCCACCACCAAC
3233661 TCCACTAGCCACACTTGCTCCACCA
66 TCCACTAGCCACACTTGCTCCACCA
3233686 CCAACTCCACTAGCCACACTTGCTCCACCATTAACTCCACTAACCACACTTGCTCCACCACCAAC
1 CCAACTCCACTAGCCACACTTGCTCCACCATTAACTCCACTAACCACACTTGCTCCACCACCAAC
*
3233751 TCCACTAGCCACACTTGCTCCACTA
66 TCCACTAGCCACACTTGCTCCACCA
* *
3233776 CCTACTCCATTAGCCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCA
3233806 CCACTTGTAC
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
90 117 1.00
ACGTcount: A:0.27, C:0.47, G:0.06, T:0.20
Consensus pattern (90 bp):
CCAACTCCACTAGCCACACTTGCTCCACCATTAACTCCACTAACCACACTTGCTCCACCACCAAC
TCCACTAGCCACACTTGCTCCACCA
Found at i:3233743 original size:18 final size:18
Alignment explanation
Indices: 3233720--3233775 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
3233710 CCACCATTAA
3233720 CTCCACTAACCACACTTG
1 CTCCACTAACCACACTTG
*
3233738 CTCCAC-CACCA-A----
1 CTCCACTAACCACACTTG
*
3233750 CTCCACTAGCCACACTTG
1 CTCCACTAACCACACTTG
3233768 CTCCACTA
1 CTCCACTA
3233776 CCTACTCCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 12
0.66 0.07 0.27
Matches are distributed among these distances:
12 6 0.21
13 3 0.10
14 1 0.03
16 1 0.03
17 4 0.14
18 14 0.48
ACGTcount: A:0.27, C:0.48, G:0.05, T:0.20
Consensus pattern (18 bp):
CTCCACTAACCACACTTG
Found at i:3240190 original size:39 final size:39
Alignment explanation
Indices: 3240106--3240262 Score: 174
Period size: 39 Copynumber: 4.0 Consensus size: 39
3240096 CAAATCCAAT
* *
3240106 CACCACCAC-AAAGCATGCGGGACTTTAAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGAC-TT-AGCCCGGATATAA
*
3240146 TACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGAC-TTAGCCCGGATATAA
* * * *
3240185 CACCAGCACGAATGCCTTCGGGGCTTAACCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAA
* * * *
3240224 CACCAGCACGAATGCCTTCAGGACTTAGCCCGGGTATAA
1 CACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAA
3240263 TTCTCCATTA
Statistics
Matches: 104, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 70 0.67
40 34 0.33
ACGTcount: A:0.31, C:0.30, G:0.22, T:0.17
Consensus pattern (39 bp):
CACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAA
Found at i:3249901 original size:13 final size:13
Alignment explanation
Indices: 3249857--3249901 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
3249847 CGCCGAGGTA
3249857 TTTTTAATTTCTG
1 TTTTTAATTTCTG
3249870 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
3249884 CTTTTAATTTCTG
1 TTTTTAATTTCTG
3249897 TTTTT
1 TTTTT
3249902 CAAAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:3250040 original size:99 final size:99
Alignment explanation
Indices: 3249795--3250370 Score: 967
Period size: 99 Copynumber: 5.8 Consensus size: 99
3249785 TTTCAATTTA
* * * * *
3249795 TGCTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGCTGAGCCTCGGGGCACGCCGAGGTATTT
1 TGCTTTTC--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTT
* * ** *
3249860 TTAATTTCTGTTTTTCAATTTCTG-CTTTTAATTTC
64 TCAATTTCTGTTTTTCAATTTTTGCCTTACAAATTC
*
3249895 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTT
1 TGCTTTTC--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTT
3249960 TCAATTTCTGTTTTTCAATTTTTGCCTTACAAATTC
64 TCAATTTCTGTTTTTCAATTTTTGCCTTACAAATTC
3249996 TGCTTTTCAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTTTC
1 TGCTTTTCAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTTTC
3250061 AATTTCTGTTTTTCAATTTTTGCCTTACAAATTC
66 AATTTCTGTTTTTCAATTTTTGCCTTACAAATTC
3250095 TGCTTTTCAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTTTC
1 TGCTTTTCAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTTTC
3250160 AATTTCTGTTTTTCAATTTTTGCCTTACAAATTC
66 AATTTCTGTTTTTCAATTTTTGCCTTACAAATTC
3250194 TGCTTTTCAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTTTC
1 TGCTTTTCAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTTTC
3250259 AATTTCTGTTTTTCAATTTTTGCCTTACAAATTC
66 AATTTCTGTTTTTCAATTTTTGCCTTACAAATTC
* * *
3250293 TGCTTTTCAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACTCTGAGGTATTTTC
1 TGCTTTTCAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTTTC
3250358 AATTT-TCGTTTTT
66 AATTTCT-GTTTTT
3250371 TTAATTTATG
Statistics
Matches: 459, Mismatches: 15, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
98 1 0.00
99 362 0.79
100 81 0.18
101 15 0.03
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.39
Consensus pattern (99 bp):
TGCTTTTCAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTTTC
AATTTCTGTTTTTCAATTTTTGCCTTACAAATTC
Found at i:3250731 original size:74 final size:74
Alignment explanation
Indices: 3250368--3250967 Score: 774
Period size: 74 Copynumber: 8.2 Consensus size: 74
3250358 AATTTTCGTT
* * * * * *
3250368 TTTTTAATTTATGT-TTCTAAAAAAATCAATTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTCTT-TAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
*
3250432 CGCTGAGGTA
65 CGTTGAGGTA
* * ** * * *
3250442 ATTTCAATTT-T-TATTTGTCAAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTCTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
3250505 CGTTGAGGTA
65 CGTTGAGGTA
* * * *
3250515 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTCTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
*
3250580 CGCTGAGGTA
65 CGTTGAGGTA
* * *
3250590 ATTTCAATTTTTGT-TTGT-CAAAAATCAACTCATATTGCGAGAGGTGA---G--CCTCAAGACA
1 TTTTCAATTTCTGTCTT-TAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
3250648 CGTTGAGGTA
65 CGTTGAGGTA
* *
3250658 TTTTCAATTTCTGTCTTTAAAAAAATCAGCTCATATTGCGGGAGGTGAGTTGAACCTCAAGACAC
1 TTTTCAATTTCTGTCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAC
3250723 GTTGAGGTA
66 GTTGAGGTA
* *
3250732 TTTTCAATTTCTGTCTTTAAAAAAATCAGCTCATATTGCGGGAGGTGAGTTGAACCTCAAGACAC
1 TTTTCAATTTCTGTCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAC
3250797 GTTGAGGTA
66 GTTGAGGTA
* *
3250806 TTTTCAATTTCTGTCTTTAAAAAAATCAGCTCATATTGCGGGAGGTGAGTTGAACCTCAAGACAC
1 TTTTCAATTTCTGTCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAC
3250871 GTTGAGGTA
66 GTTGAGGTA
*
3250880 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--
1 TTTTCAATTTCTGTCTTT--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
* *
3250943 ACGCTGAGGTG
64 ACGTTGAGGTA
*
3250954 TTTTCCATTTCTGT
1 TTTTCAATTTCTGT
3250968 TCTTCAATTT
Statistics
Matches: 477, Mismatches: 35, Indels: 28
0.88 0.06 0.05
Matches are distributed among these distances:
68 31 0.06
69 28 0.06
70 1 0.00
72 3 0.01
73 87 0.18
74 219 0.46
75 66 0.14
76 42 0.09
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (74 bp):
TTTTCAATTTCTGTCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAC
GTTGAGGTA
Found at i:3251080 original size:15 final size:14
Alignment explanation
Indices: 3251044--3251076 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
3251034 ACGCGAGGTA
3251044 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
3251058 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
3251072 TTTTC
1 TTTTC
3251077 CAAAAAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.15, G:0.06, T:0.61
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:3251082 original size:90 final size:90
Alignment explanation
Indices: 3250943--3251430 Score: 378
Period size: 89 Copynumber: 5.3 Consensus size: 90
3250933 GAACCTCAAG
* * * * *
3250943 ACGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGC
1 ACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGC
*
3251008 GAGTGGTGAGTTGAGCCTTGACTCAC
66 GAGAGGTGAGTTGAGCCTTGA-TCAC
* * *
3251034 ACGC-GAGGTATTTTCAAATTCTGTTTTTCAAATTCTGTTTTTCCAAAAAATCAACTCATATTGC
1 ACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGC
* * **
3251098 GAGAGGTGAGTTCAGCC-TCAGGAC
66 GAGAGGTGAGTTGAGCCTTGATCAC
* * * * *
3251122 ACGCTGAGATATTTTCAATTTCTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTTATATTGC
1 ACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGC
*
3251187 GAGAGGTGAGTTGAGCCTCAGATCAC
66 GAGAGGTGAGTTGAGCCT-TGATCAC
* * * * * * * * **
3251213 ATGCCGAGGTATTTTCAATTGATTTTTATTTTTATTTTTTTTCAATTTATGCTTTGCAAAAATCA
1 ACGCTGAGGTATTTTCAATT--TCTGT-TTTTCAATTTCTGT---TTT-T-C---AAAAAAATCA
* * *
3251278 ACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCAC
55 ACTCATATTGCGAGAGGTGAGTTGAGCCT-TGATCAC
** * * ** *
3251315 ATACCGAGATATTTTCAAAATCTGTTTTACAAATTT-TG-TTTT---AAAAATCAACTCATATTG
1 ACGCTGAGGTATTTTCAATTTCTGTTTTTC-AATTTCTGTTTTTCAAAAAAATCAACTCATATTG
* *
3251375 CGAGAAGTGAGTTGAGCCTTGGCTCAC
65 CGAGAGGTGAGTTGAGCCTT-GATCAC
** * *
3251402 GTGCTGAGCTATTTCCAATTTCTGTTTTT
1 ACGCTGAGGTATTTTCAATTTCTGTTTTT
3251431 AATGTTTAGT
Statistics
Matches: 318, Mismatches: 63, Indels: 36
0.76 0.15 0.09
Matches are distributed among these distances:
87 61 0.19
88 6 0.02
89 70 0.22
90 67 0.21
91 24 0.08
93 4 0.01
94 11 0.03
95 3 0.01
97 2 0.01
98 1 0.00
99 5 0.02
100 7 0.02
102 57 0.18
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.39
Consensus pattern (90 bp):
ACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGC
GAGAGGTGAGTTGAGCCTTGATCAC
Found at i:3251176 original size:89 final size:88
Alignment explanation
Indices: 3250880--3251232 Score: 415
Period size: 89 Copynumber: 3.9 Consensus size: 88
3250870 CGTTGAGGTA
* * *
3250880 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA-AGA
1 TTTTCAATTTCTGTCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACA
* *
3250944 CGCTGAGGTGTTTTCCATTTCTGT
65 CGCTGAGGTATTTTCAATTTCTGT
* * * * **
3250968 TCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAGA
*
3251033 CACGC-GAGGTATTTTCAAATTCTGT
63 CACGCTGAGGTATTTTCAATTTCTGT
* * * *
3251058 TTTTCAAATTCTGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACA
* *
3251123 CGCTGAGATATTTTCAATTTCTTT
65 CGCTGAGGTATTTTCAATTTCTGT
* *
3251147 TTTTCAATTTATGT-TTGTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGATC
1 TTTTCAATTTCTGTCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-C
*
3251211 ACATGCCGAGGTATTTTCAATT
64 AC--GCTGAGGTATTTTCAATT
3251233 GATTTTTATT
Statistics
Matches: 227, Mismatches: 28, Indels: 17
0.83 0.10 0.06
Matches are distributed among these distances:
87 37 0.16
88 28 0.12
89 73 0.32
90 68 0.30
91 21 0.09
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (88 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACAC
GCTGAGGTATTTTCAATTTCTGT
Found at i:3251198 original size:179 final size:179
Alignment explanation
Indices: 3250880--3251230 Score: 476
Period size: 179 Copynumber: 2.0 Consensus size: 179
3250870 CGTTGAGGTA
* * * *
3250880 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 TTTTCAAATTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAACAC
* * * * *
3250945 GCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGA
66 GCTGAGATATTTTCAATTTCTGTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCGA
* *
3251010 GTGGTGAGTTGAGCCT-TGACTCACACG-CGAGGTATTTTCAAATTCTGT
131 GAGGTGAGTTGAGCCTCAGA-TCACACGCCGAGGTATTTTCAAATTCTGT
* * *
3251058 TTTTCAAATTCTGTTTTTC-CAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGAC
1 TTTTCAAATTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCA--AC
* * *
3251122 ACGCTGAGATATTTTCAATTTCTTTTTTTCAATTTATGT-TTGTCAAAAAAATCAACTTATATTG
64 ACGCTGAGATATTTTCAATTTCTGTTCTTCAATTTATGTGTT-TCAAAAAAATCAACTCATATTG
*
3251186 CGAGAGGTGAGTTGAGCCTCAGATCACATGCCGAGGTATTTTCAA
128 CGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAA
3251231 TTGATTTTTA
Statistics
Matches: 150, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
177 37 0.25
178 19 0.13
179 78 0.52
180 16 0.11
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (179 bp):
TTTTCAAATTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAACAC
GCTGAGATATTTTCAATTTCTGTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCGA
GAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAAATTCTGT
Found at i:3251315 original size:102 final size:103
Alignment explanation
Indices: 3251144--3251332 Score: 292
Period size: 102 Copynumber: 1.8 Consensus size: 103
3251134 TTTCAATTTC
* *
3251144 TTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGA
1 TTTTTTTCAATTTATGTTTGTC-AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGA
* *
3251209 TCACATGCCGAGGTATTTTCAATTGATTTTTATTTTTAT
65 TCACATACCGAGATATTTTCAATTGATTTTTATTTTTAT
* *
3251248 TTTTTTTCAATTTATGCTTTG-C-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGG
1 TTTTTTTCAATTTATG-TTTGTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGA
3251311 TCACATACCGAGATATTTTCAA
65 TCACATACCGAGATATTTTCAA
3251333 AATCTGTTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
102 57 0.73
104 17 0.22
105 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (103 bp):
TTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGAT
CACATACCGAGATATTTTCAATTGATTTTTATTTTTAT
Found at i:3251426 original size:87 final size:87
Alignment explanation
Indices: 3251270--3251497 Score: 237
Period size: 87 Copynumber: 2.6 Consensus size: 87
3251260 TATGCTTTGC
* * * *
3251270 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGATATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGATATTTCCAAAA
3251335 TCTGTTTTACAAAT-TTT-GTTTT
66 TCTGTTTT--AAATGTTTAGTTTT
* * * * * **
3251357 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGATATTTCCAAAA
*
3251422 TCTGTTTTTAATGTTTAGTTTT
66 TCTGTTTTAAATGTTTAGTTTT
* * * * * *
3251444 AAAGAGTCAATTCATATTGCGAGAAATGAGTTAAG-CTCAGGATCACATGCCGAG
1 AAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGCTCACATACCGAG
3251498 TAAAGAATAA
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
85 3 0.03
86 3 0.03
87 72 0.62
88 39 0.33
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGATATTTCCAAAA
TCTGTTTTAAATGTTTAGTTTT
Found at i:3252153 original size:30 final size:30
Alignment explanation
Indices: 3252119--3253017 Score: 1512
Period size: 30 Copynumber: 30.0 Consensus size: 30
3252109 TGCTACCTCC
3252119 AACTCCACTAGCCACACTTGCTCCACCACT
1 AACTCCACTAGCCACACTTGCTCCACCACT
* *
3252149 AACTCCACTAACCACACTTGCTCCACCACC
1 AACTCCACTAGCCACACTTGCTCCACCACT
3252179 AACTCCACTAGCCACACTTGCTCCACCACT
1 AACTCCACTAGCCACACTTGCTCCACCACT
* *
3252209 AACTCCACTAACCACACTTGCTCCACCACC
1 AACTCCACTAGCCACACTTGCTCCACCACT
3252239 AACTCCACTAGCCACACTTGCTCCACCACT
1 AACTCCACTAGCCACACTTGCTCCACCACT
* *
3252269 AACTCCACTAACCACACTTGCTCCACCACC
1 AACTCCACTAGCCACACTTGCTCCACCACT
3252299 AACTCCACTAGCCACACTTGCTCCACCACT
1 AACTCCACTAGCCACACTTGCTCCACCACT
* *
3252329 AACTCCACTAACCACACTTGCTCCACCACC
1 AACTCCACTAGCCACACTTGCTCCACCACT
3252359 AACTCCACTAGCCACACTTGCTCCACCACT
1 AACTCCACTAGCCACACTTGCTCCACCACT
* *
3252389 AACTCCACTAACCACACTTGCTCCACCACC
1 AACTCCACTAGCCACACTTGCTCCACCACT
3252419 AACTCCACTAGCCACACTTGCTCCACCACT
1 AACTCCACTAGCCACACTTGCTCCACCACT
* *
3252449 AACTCCACTAACCACACTTGCTCCACCACC
1 AACTCCACTAGCCACACTTGCTCCACCACT
3252479 AACTCCACTAGCCACACTTGCTCCACCACT
1 AACTCCACTAGCCACACTTGCTCCACCACT
* *
3252509 AACTCCACTAACCACACTTGCTCCACCACC
1 AACTCCACTAGCCACACTTGCTCCACCACT
3252539 AACTCCACTAGCCACACTTGCTCCACCACT
1 AACTCCACTAGCCACACTTGCTCCACCACT
* *
3252569 AACTCCACTAACCACACTTGCTCCACCACC
1 AACTCCACTAGCCACACTTGCTCCACCACT
3252599 AACTCCACTAGCCACACTTGCTCCACCACT
1 AACTCCACTAGCCACACTTGCTCCACCACT
* *
3252629 AACTCCACTAACCACACTTGCTCCACCACC
1 AACTCCACTAGCCACACTTGCTCCACCACT
3252659 AACTCCACTAGCCACACTTGCTCCACCACT
1 AACTCCACTAGCCACACTTGCTCCACCACT
* *
3252689 AACTCCACTAACCACACTTGCTCCACCACC
1 AACTCCACTAGCCACACTTGCTCCACCACT
3252719 AACTCCACTAGCCACACTTGCTCCACCACT
1 AACTCCACTAGCCACACTTGCTCCACCACT
* *
3252749 AACTCCACTAACCACACTTGCTCCACCACC
1 AACTCCACTAGCCACACTTGCTCCACCACT
3252779 AACTCCACTAGCCACACTTGCTCCACCACT
1 AACTCCACTAGCCACACTTGCTCCACCACT
* *
3252809 AACTCCACTAACCACACTTGCTCCACCACC
1 AACTCCACTAGCCACACTTGCTCCACCACT
3252839 AACTCCACTAGCCACACTTGCTCCACCACT
1 AACTCCACTAGCCACACTTGCTCCACCACT
* *
3252869 AACTCCACTAACCACACTTGCTCCACCACC
1 AACTCCACTAGCCACACTTGCTCCACCACT
3252899 AACTCCACTAGCCACACTTGCTCCACCACT
1 AACTCCACTAGCCACACTTGCTCCACCACT
* *
3252929 AACTCCACTAACCACACTTGCTCCACCACC
1 AACTCCACTAGCCACACTTGCTCCACCACT
*
3252959 AACTCCACTAGCCACACTTGCTCCACTACCT
1 AACTCCACTAGCCACACTTGCTCCACCA-CT
*
3252990 -ACTCCATTAGCCACACTTGCTCCACCAC
1 AACTCCACTAGCCACACTTGCTCCACCAC
3253018 CACTTGTACC
Statistics
Matches: 809, Mismatches: 59, Indels: 3
0.93 0.07 0.00
Matches are distributed among these distances:
29 1 0.00
30 807 1.00
31 1 0.00
ACGTcount: A:0.28, C:0.48, G:0.05, T:0.19
Consensus pattern (30 bp):
AACTCCACTAGCCACACTTGCTCCACCACT
Found at i:3252186 original size:60 final size:60
Alignment explanation
Indices: 3252117--3253019 Score: 1763
Period size: 60 Copynumber: 15.1 Consensus size: 60
3252107 TTTGCTACCT
3252117 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
3252177 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
3252237 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
3252297 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
3252357 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
3252417 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
3252477 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
3252537 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
3252597 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
3252657 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
3252717 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
3252777 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
3252837 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
3252897 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
* * *
3252957 CCAACTCCACTAGCCACACTTGCTCCACTACCT-ACTCCATTAGCCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTGCTCCACCA-CTAACTCCACTAACCACACTTGCTCCACCA
3253017 CCA
1 CCA
3253020 CTTGTACCTA
Statistics
Matches: 839, Mismatches: 3, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
60 837 1.00
61 2 0.00
ACGTcount: A:0.28, C:0.48, G:0.05, T:0.18
Consensus pattern (60 bp):
CCAACTCCACTAGCCACACTTGCTCCACCACTAACTCCACTAACCACACTTGCTCCACCA
Found at i:3253547 original size:24 final size:23
Alignment explanation
Indices: 3253499--3253550 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
3253489 TTTTTTTTGT
*
3253499 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
3253522 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
3253546 TATTA
1 TATTA
3253551 GGTATATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:3253592 original size:23 final size:25
Alignment explanation
Indices: 3253499--3253630 Score: 91
Period size: 23 Copynumber: 5.6 Consensus size: 25
3253489 TTTTTTTTGT
* *
3253499 TATTAT-TATATTTC-TTAATATTA
1 TATTATGTATATATCATTAATACTA
* * *
3253522 TATTATATATATATTC-TT-TTAATA
1 TATTATGTATATA-TCATTAATACTA
* * *
3253546 TATTAGGTATAT-TC-TAAATTCTA
1 TATTATGTATATATCATTAATACTA
*
3253569 TATTACGTATATAT-ATT-ATACTA
1 TATTATGTATATATCATTAATACTA
* *
3253592 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATATCATTAATACTA
*
3253617 TATTATTTATATAT
1 TATTATGTATATAT
3253631 TTTTTTTCTA
Statistics
Matches: 85, Mismatches: 17, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
22 3 0.04
23 37 0.44
24 23 0.27
25 22 0.26
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (25 bp):
TATTATGTATATATCATTAATACTA
Found at i:3253604 original size:25 final size:25
Alignment explanation
Indices: 3253566--3253708 Score: 80
Period size: 25 Copynumber: 5.7 Consensus size: 25
3253556 ATTCTAAATT
*
3253566 CTATATTACGTATATATA-TT-ATA
1 CTATATTATGTATATATATTTAATA
* *
3253589 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTAATA
* * *
3253614 CTATATTATTTATATATTTTTTTTCTACATG
1 CTATATTATGTATATA----TATT-TA-ATA
* *
3253645 TTATCTTATGTATATAT-TTTAAT-
1 CTATATTATGTATATATATTTAATA
* * * *
3253668 -TATATTATGTATGTATTTTTTACA
1 CTATATTATGTATATATATTTAATA
*
3253692 CTATATTATGTACATAT
1 CTATATTATGTATATAT
3253709 TTTTTTATAT
Statistics
Matches: 93, Mismatches: 16, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
22 14 0.15
23 19 0.20
24 4 0.04
25 33 0.35
26 2 0.02
27 1 0.01
29 3 0.03
30 2 0.02
31 15 0.16
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (25 bp):
CTATATTATGTATATATATTTAATA
Found at i:3253664 original size:27 final size:28
Alignment explanation
Indices: 3253593--3253700 Score: 86
Period size: 27 Copynumber: 4.0 Consensus size: 28
3253583 ATTATACTAT
3253593 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* * ** *
3253622 TTTATATAT-TTTTTTTCTAC-ATGTTA
1 TTTATGTATATATTTTAATACTATATTA
3253648 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
* *
3253675 TGTATGTAT-T-TTTT-ACACTATATTA
1 TTTATGTATATATTTTAATACTATATTA
3253700 T
1 T
3253701 GTACATATTT
Statistics
Matches: 62, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
23 1 0.02
24 4 0.06
25 9 0.15
26 13 0.21
27 19 0.31
28 8 0.13
29 8 0.13
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:3253722 original size:27 final size:25
Alignment explanation
Indices: 3253656--3253727 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
3253646 TATCTTATGT
* *
3253656 ATATATTTTAAT-TATATTATGTAT
1 ATATTTTTTAATCTATATTATGTAC
*
3253680 GTATTTTTTACA-CTATATTATGTAC
1 ATATTTTTTA-ATCTATATTATGTAC
*
3253705 ATATTTTTTTATATCTATTTTAT
1 ATA-TTTTTTA-ATCTATATTAT
3253728 ACATATGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 8 0.21
25 14 0.37
26 8 0.21
27 8 0.21
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
ATATTTTTTAATCTATATTATGTAC
Found at i:3253750 original size:78 final size:77
Alignment explanation
Indices: 3253578--3253750 Score: 188
Period size: 78 Copynumber: 2.2 Consensus size: 77
3253568 ATATTACGTA
* * * * *
3253578 TATATATTATACTATTTTATGTATATATCTTTAATACTATATTATTTATATATTTTTTTTCTACA
1 TATATATTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTTTTTTATACA
*
3253643 TGTTATCTTATG
66 TGTTATCATATG
* * * * *
3253655 TATATATTTTAATTATATTATGTATGTATTTTTTACACTATATTATGTACATA-TTTTTTTATAT
1 TATATATTAT-ACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTTTTTTATA-
*
3253719 CTATTTTATACATATG
64 C-ATGTTAT-CATATG
3253735 TATATATTATA-TATAT
1 TATATATTATACTATAT
3253751 CTTAACATTA
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
77 18 0.23
78 40 0.51
79 7 0.09
80 14 0.18
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (77 bp):
TATATATTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTTTTTTATACA
TGTTATCATATG
Found at i:3253802 original size:25 final size:24
Alignment explanation
Indices: 3253774--3253829 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
3253764 GTTATATTTT
*
3253774 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
3253799 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
3253822 CACTATTA
1 CACTATTA
3253830 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:3254727 original size:22 final size:22
Alignment explanation
Indices: 3254680--3254730 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
3254670 AATGGAACTA
* *
3254680 CTATTTTCTTGTTGTTTTAATG
1 CTATTTTCTTATTGTTTTAATC
**
3254702 CTATTTTCTTATTGTTTTCTTC
1 CTATTTTCTTATTGTTTTAATC
3254724 CTATTTT
1 CTATTTT
3254731 GTTACCATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.12, C:0.14, G:0.08, T:0.67
Consensus pattern (22 bp):
CTATTTTCTTATTGTTTTAATC
Found at i:3255215 original size:15 final size:15
Alignment explanation
Indices: 3255192--3255225 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3255182 TATTATTTTT
3255192 AATTCAAATAAAATA
1 AATTCAAATAAAATA
* *
3255207 AATTTAAATATAATA
1 AATTCAAATAAAATA
3255222 AATT
1 AATT
3255226 ATTTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (15 bp):
AATTCAAATAAAATA
Found at i:3255917 original size:10 final size:10
Alignment explanation
Indices: 3255902--3255935 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
3255892 CGGAAGAACT
*
3255902 CAAAGATGAA
1 CAAAGATGGA
3255912 CAAAGATGGA
1 CAAAGATGGA
3255922 CAAAGATGGA
1 CAAAGATGGA
3255932 CAAA
1 CAAA
3255936 CTTTGAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.56, C:0.12, G:0.24, T:0.09
Consensus pattern (10 bp):
CAAAGATGGA
Found at i:3256389 original size:18 final size:17
Alignment explanation
Indices: 3256357--3256408 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
3256347 GATGATTCAC
*
3256357 TTTAAATATTTTAAAAT
1 TTTAAATAATTTAAAAT
3256374 TTTAAATCAATTTAAAAT
1 TTTAAAT-AATTTAAAAT
*
3256392 TTCAACAATAATTTAAA
1 TT-TA-AATAATTTAAA
3256409 GATAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 7 0.23
18 11 0.37
19 9 0.30
20 3 0.10
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTAAATAATTTAAAAT
Found at i:3257482 original size:18 final size:16
Alignment explanation
Indices: 3257450--3257485 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
3257440 ATGGGATGAG
3257450 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
3257466 AATAAATTTAATTAATTA
1 AATAAATTT--TTAATTA
3257484 AA
1 AA
3257486 AATTTTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
18 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:3267706 original size:20 final size:20
Alignment explanation
Indices: 3267681--3267720 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3267671 CATGACGGAA
3267681 GCAGC-AACAGAAACAGAAAC
1 GCAGCAAACAGAAACA-AAAC
*
3267701 GCAGCAAACAGTAACAAAAC
1 GCAGCAAACAGAAACAAAAC
3267721 AACAATAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.55, C:0.25, G:0.17, T:0.03
Consensus pattern (20 bp):
GCAGCAAACAGAAACAAAAC
Found at i:3271479 original size:20 final size:20
Alignment explanation
Indices: 3271454--3271495 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
3271444 ATCAACCAGA
3271454 CTATGACAGAGTTAGCCATG
1 CTATGACAGAGTTAGCCATG
3271474 CTATGACAGAGTTAGCCATG
1 CTATGACAGAGTTAGCCATG
3271494 CT
1 CT
3271496 CTTACCGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (20 bp):
CTATGACAGAGTTAGCCATG
Found at i:3271619 original size:13 final size:13
Alignment explanation
Indices: 3271601--3271625 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3271591 GGTATTTGTA
3271601 TGAATGAAATTAT
1 TGAATGAAATTAT
3271614 TGAATGAAATTA
1 TGAATGAAATTA
3271626 GCATAATTGA
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:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
TGAATGAAATTAT
Found at i:3273384 original size:26 final size:26
Alignment explanation
Indices: 3273351--3273458 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
3273341 TGATACAAAT
*
3273351 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
3273377 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
3273403 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
3273429 TGATAAT-GATATAGGTAAATGTTCCA
1 TGATAATGGAT-TAGGTAAATGTTCCA
3273455 TGAT
1 TGAT
3273459 GGGAATTTCA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
25 2 0.03
26 72 0.97
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.34
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:3273413 original size:52 final size:52
Alignment explanation
Indices: 3273351--3273458 Score: 182
Period size: 52 Copynumber: 2.1 Consensus size: 52
3273341 TGATACAAAT
3273351 TGATAATGGGTTAGGTAAATGTTCCATGACAATGGAT-TAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGACAAT-GATATAGGTAAATATTCCA
* *
3273403 TGATAATGGGTTAGGTAAATGTTCCATGATAATGATATAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGACAATGATATAGGTAAATATTCCA
3273455 TGAT
1 TGAT
3273459 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
51 3 0.06
52 50 0.94
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.34
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGACAATGATATAGGTAAATATTCCA
Found at i:3276612 original size:12 final size:12
Alignment explanation
Indices: 3276595--3276619 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3276585 ACTCGGGGAA
3276595 GAGGCCGTGGTC
1 GAGGCCGTGGTC
3276607 GAGGCCGTGGTC
1 GAGGCCGTGGTC
3276619 G
1 G
3276620 TGGTCGAGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.52, T:0.16
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:3281569 original size:25 final size:26
Alignment explanation
Indices: 3281511--3281617 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
3281501 TGATACAAAT
3281511 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * * *
3281537 TAACAATGGATTAGGTAAA-ATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
3281562 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
3281588 TGATAATGGTTTAGGTAAATGTTGCA
1 TGATAATGGGTTAGGTAAATGTTCCA
3281614 TGAT
1 TGAT
3281618 GGGAATTTCA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
25 21 0.30
26 49 0.70
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:3285677 original size:17 final size:19
Alignment explanation
Indices: 3285655--3285692 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3285645 TTAATAACCT
*
3285655 AAATTAA-AAT-ACTTTAA
1 AAATTAAGAATCAATTTAA
3285672 AAATTAAGAATCAATTTAA
1 AAATTAAGAATCAATTTAA
3285691 AA
1 AA
3285693 TCAAAGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 8 0.44
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATTAAGAATCAATTTAA
Found at i:3295952 original size:24 final size:24
Alignment explanation
Indices: 3295906--3295953 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
3295896 GACTCGACTC
**
3295906 TTGTTCAAACACTTGCTTGAACAA
1 TTGTTCAAACACTTGCTCAAACAA
*
3295930 TTGTTTAAACACTTGCTCAAACAA
1 TTGTTCAAACACTTGCTCAAACAA
3295954 GACCTTTTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.33
Consensus pattern (24 bp):
TTGTTCAAACACTTGCTCAAACAA
Found at i:3297195 original size:42 final size:43
Alignment explanation
Indices: 3297093--3297202 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 43
3297083 AAAAAAGCCA
*
3297093 TAAAAGATCATGACTTTTAGCGGCGTTTATGGGGGAGGCACCGC
1 TAAAAG-TCATGACTTTTAGCGGCGTTTATGGGGGAAGCACCGC
* * * *
3297137 TAAAAGTCAT-AGCTTTTAGCTGCGTTTGT-GGTGAAGCGCCGC
1 TAAAAGTCATGA-CTTTTAGCGGCGTTTATGGGGGAAGCACCGC
*
3297179 TACAAGTCATGACTTTTAGCGGCG
1 TAAAAGTCATGACTTTTAGCGGCG
3297203 CTTTTGTTAC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
42 31 0.54
43 20 0.35
44 6 0.11
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
TAAAAGTCATGACTTTTAGCGGCGTTTATGGGGGAAGCACCGC
Found at i:3298051 original size:13 final size:14
Alignment explanation
Indices: 3298025--3298053 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3298015 ACTAACGACG
3298025 AATTAAACCATTAT
1 AATTAAACCATTAT
3298039 AATTAAA-CATTAT
1 AATTAAACCATTAT
3298052 AA
1 AA
3298054 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:3301981 original size:14 final size:14
Alignment explanation
Indices: 3301961--3301994 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3301951 AAATTATACT
3301961 CTAAACTTGAAACC
1 CTAAACTTGAAACC
* *
3301975 TTAAACTTGAGACC
1 CTAAACTTGAAACC
3301989 CTAAAC
1 CTAAAC
3301995 CCAAAACCAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (14 bp):
CTAAACTTGAAACC
Found at i:3302075 original size:14 final size:14
Alignment explanation
Indices: 3302040--3302105 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
3302030 CCCCAAAACC
*
3302040 AACCATAAATCCTA
1 AACCATAAAGCCTA
*
3302054 GACCATAAAGCCTA
1 AACCATAAAGCCTA
*
3302068 AACTATAAA-CTCTAAA
1 AACCATAAAGC-CT--A
* *
3302084 AACCATTAACCCTA
1 AACCATAAAGCCTA
3302098 AACCATAA
1 AACCATAA
3302106 TCCTAGACAT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
13 1 0.02
14 29 0.71
16 10 0.24
17 1 0.02
ACGTcount: A:0.50, C:0.27, G:0.03, T:0.20
Consensus pattern (14 bp):
AACCATAAAGCCTA
Found at i:3320047 original size:84 final size:84
Alignment explanation
Indices: 3319887--3320048 Score: 184
Period size: 84 Copynumber: 1.9 Consensus size: 84
3319877 CATACCAATG
* * ** *
3319887 CCATATCCCAGATATGGTCTTACATGGGATCTCATATCGATACCAATAGCCCAACTATGGTATTA
1 CCATATCCCAGACATGGTCCTACATGAAATCTCATAACGATACCAATAGCCCAACTATGGTATTA
**
3319952 CACGATTCTCATATTGATT
66 CACGAAACTCATATTGATT
* ** * *
3319971 CCATGTCCCAGACATGGTCCTACATGAAATCTCATAACGATGTC-ATATCCCAGA-TATGGTCTT
1 CCATATCCCAGACATGGTCCTACATGAAATCTCATAACGATACCAATAGCCCA-ACTATGGTATT
3320034 ACACGTAAACTCATA
65 ACACG-AAACTCATA
3320049 ACCCTAAGGT
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
83 20 0.31
84 44 0.69
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (84 bp):
CCATATCCCAGACATGGTCCTACATGAAATCTCATAACGATACCAATAGCCCAACTATGGTATTA
CACGAAACTCATATTGATT
Found at i:3321509 original size:29 final size:29
Alignment explanation
Indices: 3321477--3321950 Score: 301
Period size: 29 Copynumber: 16.3 Consensus size: 29
3321467 GGGATAGCTT
* *
3321477 CGACTATCGATTATGAAAAGGGATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
*
3321506 CGACCATCAACTATGAAAAGGGATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
* * ** **
3321535 CAACCATCGAATATGAAAAAGGGACAGTTT
1 CGACCATCGACTATG-AAAAGGGATGGTGA
* * * * * * *
3321565 TGGCTATTGATTATGAAAAGGGATAGCT-T
1 CGACCATCGACTATGAAAAGGGAT-GGTGA
* * *
3321594 CGGCTATCGATTATGAAAAGGGATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
* *
3321623 CGACCATCAACTATGAAAAGGTATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
* * * *
3321652 CGACCGTCGAATATGAAAAGGGATAGCTTA
1 CGACCATCGACTATGAAAAGGGAT-GGTGA
* * * * *
3321682 AG-CTATCAATTATGAAAAGGGATGGTAA
1 CGACCATCGACTATGAAAAGGGATGGTGA
** * * *
3321710 CGACTTTCAACTGTGAAAAGGGATGGTAA
1 CGACCATCGACTATGAAAAGGGATGGTGA
** * *
3321739 CGACTTTCAACTACGAAAAGGGATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
* * * *
3321768 CGACCATTGAATATGAAAAGGGATAGCT-T
1 CGACCATCGACTATGAAAAGGGAT-GGTGA
* * * * * * *
3321797 TGGCTATCGATTATGAAAGGGGATAGTGG
1 CGACCATCGACTATGAAAAGGGATGGTGA
* * *
3321826 CGACCATCAACTATGAACAGGGATGGTAA
1 CGACCATCGACTATGAAAAGGGATGGTGA
* * *
3321855 CGACCATCGAATATGAAAAGGGATAG-CA
1 CGACCATCGACTATGAAAAGGGATGGTGA
* * * *
3321883 TCGGCTATCAATTATG-AAAGTGGATGGTGA
1 -CGACCATCGACTATGAAAAG-GGATGGTGA
* *
3321913 CGACCATCAACAATGAAAAGGGATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
3321942 CGACCATCG
1 CGACCATCG
3321951 TGATTCCACT
Statistics
Matches: 343, Mismatches: 91, Indels: 22
0.75 0.20 0.05
Matches are distributed among these distances:
28 12 0.03
29 300 0.87
30 31 0.09
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.22
Consensus pattern (29 bp):
CGACCATCGACTATGAAAAGGGATGGTGA
Found at i:3321544 original size:58 final size:58
Alignment explanation
Indices: 3321452--3321950 Score: 343
Period size: 58 Copynumber: 8.6 Consensus size: 58
3321442 TAACGACAAT
* * * * *
3321452 CATCAACTATGGAAAGGGATAGCT-TCGACTATCGATTATGAAAAGGGATGGTGACGAC
1 CATCAACTATGAAAAGGGAT-GGTGACGACCATCGAATATGAAAAGGGATGGTGACGAC
* ** *** *
3321510 CATCAACTATGAAAAGGGATGGTGACAACCATCGAATATGAAAAAGGGACAGTTTTGGC
1 CATCAACTATGAAAAGGGATGGTGACGACCATCGAATATG-AAAAGGGATGGTGACGAC
* ** * * * * * *
3321569 TATTGATTATGAAAAGGGATAGCT-TCGGCTATCGATTATGAAAAGGGATGGTGACGAC
1 CATCAACTATGAAAAGGGAT-GGTGACGACCATCGAATATGAAAAGGGATGGTGACGAC
* * * * *
3321627 CATCAACTATGAAAAGGTATGGTGACGACCGTCGAATATGAAAAGGGATAGCTTAAG-C
1 CATCAACTATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGAT-GGTGACGAC
* * * ** * *
3321685 TATCAATTATGAAAAGGGATGGTAACGACTTTC-AACTGTGAAAAGGGATGGTAACGAC
1 CATCAACTATGAAAAGGGATGGTGACGACCATCGAA-TATGAAAAGGGATGGTGACGAC
** * * * ** *
3321743 TTTCAACTACGAAAAGGGATGGTGACGACCATTGAATATGAAAAGGGATAGCT-TTGGC
1 CATCAACTATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGAT-GGTGACGAC
* * * * * * * *
3321801 TATCGATTATGAAAGGGGATAGTGGCGACCATC-AACTATGAACAGGGATGGTAACGAC
1 CATCAACTATGAAAAGGGATGGTGACGACCATCGAA-TATGAAAAGGGATGGTGACGAC
* * * *
3321859 CATCGAA-TATGAAAAGGGATAG-CATCGGCTATC-AATTATG-AAAGTGGATGGTGACGAC
1 CATC-AACTATGAAAAGGGATGGTGA-CGACCATCGAA-TATGAAAAG-GGATGGTGACGAC
*
3321917 CATCAACAATGAAAAGGGATGGTGACGACCATCG
1 CATCAACTATGAAAAGGGATGGTGACGACCATCG
3321951 TGATTCCACT
Statistics
Matches: 332, Mismatches: 92, Indels: 33
0.73 0.20 0.07
Matches are distributed among these distances:
57 19 0.06
58 262 0.79
59 49 0.15
60 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.22
Consensus pattern (58 bp):
CATCAACTATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTGACGAC
Found at i:3321757 original size:116 final size:115
Alignment explanation
Indices: 3321459--3321878 Score: 491
Period size: 116 Copynumber: 3.6 Consensus size: 115
3321449 AATCATCAAC
* * * * * *
3321459 TATGGAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAA
1 TATGAAAAGGGAT-GGTACGACTATCAACTATGAAAAGGGATGGTAACGACCATCAACTATGAAA
* * * *
3321524 AGGGATGGTGACAACCATCGAATATGAAAAAGGGACAGTTTTGGCTATTGAT
65 AGGGATGGTGACGACCATCGAATATG-AAAAGGGATAGCTTTGGCTATCGAT
* * * * * *
3321576 TATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAA
1 TATGAAAAGGGAT-GGTACGACTATCAACTATGAAAAGGGATGGTAACGACCATCAACTATGAAA
* * ** *
3321641 AGGTATGGTGACGACCGTCGAATATGAAAAGGGATAGCTTAAGCTATCAAT
65 AGGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTTTGGCTATCGAT
* * ** *
3321692 TATGAAAAGGGATGGTAACGACTTTCAACTGTGAAAAGGGATGGTAACGACTTTCAACTACGAAA
1 TATGAAAAGGGATGGT-ACGACTATCAACTATGAAAAGGGATGGTAACGACCATCAACTATGAAA
*
3321757 AGGGATGGTGACGACCATTGAATATGAAAAGGGATAGCTTTGGCTATCGAT
65 AGGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTTTGGCTATCGAT
* * * * *
3321808 TATGAAAGGGGATAGTGGCGACCATCAACTATGAACAGGGATGGTAACGACCATCGAA-TATGAA
1 TATGAAAAGGGATGGT-ACGACTATCAACTATGAAAAGGGATGGTAACGACCATC-AACTATGAA
3321872 AAGGGAT
64 AAGGGAT
3321879 AGCATCGGCT
Statistics
Matches: 262, Mismatches: 39, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
115 2 0.01
116 172 0.66
117 88 0.34
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (115 bp):
TATGAAAAGGGATGGTACGACTATCAACTATGAAAAGGGATGGTAACGACCATCAACTATGAAAA
GGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTTTGGCTATCGAT
Found at i:3325404 original size:18 final size:16
Alignment explanation
Indices: 3325381--3325424 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
3325371 TGTCATTATT
*
3325381 CTTATTTTTTTCTCGTTG
1 CTTATTTTTTTCT--TTA
*
3325399 CTTATTTATTTCTTTA
1 CTTATTTTTTTCTTTA
3325415 CTTATTTTTT
1 CTTATTTTTT
3325425 ATACCTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 11 0.48
18 12 0.52
ACGTcount: A:0.11, C:0.14, G:0.05, T:0.70
Consensus pattern (16 bp):
CTTATTTTTTTCTTTA
Found at i:3325511 original size:21 final size:21
Alignment explanation
Indices: 3325485--3325670 Score: 68
Period size: 21 Copynumber: 8.7 Consensus size: 21
3325475 TTTTAATCAT
3325485 TTATTATTACTATTACTTTTA
1 TTATTATTACTATTACTTTTA
* * *
3325506 TTATTATTACTGTTTCTATTA
1 TTATTATTACTATTACTTTTA
* *
3325527 TTGTT-TTTCTATTACTATTTA
1 TTATTATTACTATTACT-TTTA
*
3325548 TGTTATTGTTGGCACTATT-C-TTTA
1 --TTATTATT---ACTATTACTTTTA
*
3325572 TT-TTATTATTATTA--TTTA
1 TTATTATTACTATTACTTTTA
*
3325590 TTATT-TTA-TCATTCCTTTCTA
1 TTATTATTACT-ATTACTTT-TA
* * * *
3325611 TTATTGTTATTATTAGTATACTA
1 TTATTATTACTATTACT-T-TTA
*
3325634 TTATTATT-CTTATTAATGTATTA
1 TTATTATTAC-TATTACT-T-TTA
3325657 TTATTATTA-TATTA
1 TTATTATTACTATTA
3325671 TTACTATTGC
Statistics
Matches: 125, Mismatches: 21, Indels: 37
0.68 0.11 0.20
Matches are distributed among these distances:
17 1 0.01
18 17 0.14
19 2 0.02
20 10 0.08
21 36 0.29
22 14 0.11
23 33 0.26
24 6 0.05
26 1 0.01
27 5 0.04
ACGTcount: A:0.25, C:0.08, G:0.05, T:0.62
Consensus pattern (21 bp):
TTATTATTACTATTACTTTTA
Found at i:3325582 original size:3 final size:3
Alignment explanation
Indices: 3325569--3325678 Score: 77
Period size: 3 Copynumber: 36.7 Consensus size: 3
3325559 GCACTATTCT
* *
3325569 TTA TT- TTA TTA TTA TTA TTTA TTA TT- TTA TCA TTCC TT- TCTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A TTA T-TA TTA
* * * *
3325614 TTG TTA TTA TTA GTA -TA CTA TTA TTA TTC TTA TTAA TGTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA TTA
*
3325660 TTA TTA -TA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA TTA TT
3325679 GCTATCATCA
Statistics
Matches: 86, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
2 9 0.10
3 66 0.77
4 10 0.12
5 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:3325640 original size:20 final size:20
Alignment explanation
Indices: 3325612--3325665 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
3325602 TCCTTTCTAT
*
3325612 TATTGTTATTATTAGT-ATAC
1 TATTATTATTATTAGTAAT-C
* * *
3325632 TATTATTATTCTTATTAATG
1 TATTATTATTATTAGTAATC
3325652 TATTATTATTATTA
1 TATTATTATTATTA
3325666 TATTATTACT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (20 bp):
TATTATTATTATTAGTAATC
Found at i:3325666 original size:20 final size:22
Alignment explanation
Indices: 3325608--3325666 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
3325598 TCATTCCTTT
*
3325608 CTATTATTGTTATTATTAGTATA
1 CTATTATTATTATTATTAG-ATA
*
3325631 CTATTATTATTCTTATTA-AT-
1 CTATTATTATTATTATTAGATA
*
3325651 GTATTATTATTATTAT
1 CTATTATTATTATTAT
3325667 ATTATTACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 14 0.44
21 2 0.06
23 16 0.50
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (22 bp):
CTATTATTATTATTATTAGATA
Found at i:3325765 original size:3 final size:3
Alignment explanation
Indices: 3325757--3325807 Score: 70
Period size: 3 Copynumber: 17.0 Consensus size: 3
3325747 ATTTATTTAC
3325757 ATT ATT ATT -TCT ATT ACTT -TT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT AT-T ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3325802 ATT ATT
1 ATT ATT
3325808 CTCTTAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 3 0.07
3 38 0.86
4 3 0.07
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:3331724 original size:24 final size:24
Alignment explanation
Indices: 3331692--3331739 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
3331682 TAAAATAAAA
3331692 TTCTAAAACTTTGAAGTGGCGAAG
1 TTCTAAAACTTTGAAGTGGCGAAG
3331716 TTCTAAAACTTTGAAGTGGCGAAG
1 TTCTAAAACTTTGAAGTGGCGAAG
3331740 CTAAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (24 bp):
TTCTAAAACTTTGAAGTGGCGAAG
Found at i:3338056 original size:31 final size:31
Alignment explanation
Indices: 3338019--3338083 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
3338009 TATAAAATTA
3338019 TCACTGAACTATTCAAAAGTTTTCATTTAAG
1 TCACTGAACTATTCAAAAGTTTTCATTTAAG
* *** *
3338050 TCACTGATCTATTTGGAAGTTTTTATTTAAG
1 TCACTGAACTATTCAAAAGTTTTCATTTAAG
3338081 TCA
1 TCA
3338084 TTATACGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (31 bp):
TCACTGAACTATTCAAAAGTTTTCATTTAAG
Found at i:3340627 original size:31 final size:32
Alignment explanation
Indices: 3340555--3340634 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 32
3340545 TTAAAAATAA
*
3340555 AAAATAAAAACTTTCGAATAATTCGATGACTT
1 AAAATAAAAACTTTCAAATAATTCGATGACTT
* *
3340587 -ATATAAAAACTTTCAAATAATTCGGTGA-TT
1 AAAATAAAAACTTTCAAATAATTCGATGACTT
*
3340617 AAAATGAAAACTTTCAAA
1 AAAATAAAAACTTTCAAA
3340635 AAGTCCAGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.05
31 40 0.95
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (32 bp):
AAAATAAAAACTTTCAAATAATTCGATGACTT
Found at i:3341125 original size:4 final size:4
Alignment explanation
Indices: 3341116--3341149 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
3341106 CATTCTACCA
*
3341116 TATG TATG TATG TATG TA-G TATG TATG TCTG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
3341150 AGCTCACCTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:3341139 original size:15 final size:15
Alignment explanation
Indices: 3341119--3341148 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3341109 TCTACCATAT
3341119 GTATGTATGTATGTA
1 GTATGTATGTATGTA
*
3341134 GTATGTATGTCTGTA
1 GTATGTATGTATGTA
3341149 TAGCTCACCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (15 bp):
GTATGTATGTATGTA
Found at i:3347140 original size:188 final size:188
Alignment explanation
Indices: 3346860--3347731 Score: 1627
Period size: 188 Copynumber: 4.6 Consensus size: 188
3346850 TGAGAAGTAA
** * *
3346860 AACACTGATTTCTCATCTCTTTTTTGCTTTGTTCTTGGTTGTGGCTGCTTTTTGAAGGTATTTTC
1 AACACTGATTTCTCCCCTCTTTTTTGCTTTGTTCTTAGTTGT---AGC----TG-AGGTATTTTC
3346925 ATTAATTTCTTGTTATCTCTAGTTCTGGCTTCTTCTACTCTTCTTTGTCACAGTTGTTATTATTA
58 ATTAATTTCTTGTTATCTCTAGTTCTGGCTTCTTCTACTCTTCTTTGTCACAGTTGTTATTATTA
3346990 TTACTATTATTTTGGGGAACAAAACAGCCATTTTCTTTTGCTTTGTTCTTGGTTTAGCAATGTTT
123 TTACTATTATTTTGGGGAACAAAACAGCCATTTTCTTTTGCTTTGTTCTTGGTTTAGCAATGTTT
3347055 T
188 T
3347056 AACACTGATTTCTCCCCTCTTTTTTGCTTTGTTCTTAGTTGTAGCTGAGGTATTTTCATTAATTT
1 AACACTGATTTCTCCCCTCTTTTTTGCTTTGTTCTTAGTTGTAGCTGAGGTATTTTCATTAATTT
3347121 CTTGTTATCTCTAGTTCTGGCTTCTTCTACTCTTCTTTGTCACAGTTGTTATTATTATTACTATT
66 CTTGTTATCTCTAGTTCTGGCTTCTTCTACTCTTCTTTGTCACAGTTGTTATTATTATTACTATT
3347186 ATTTTGGGGAACAAAACAGCCATTTTCTTTTGCTTTGTTCTTGGTTTAGCAATGTTTT
131 ATTTTGGGGAACAAAACAGCCATTTTCTTTTGCTTTGTTCTTGGTTTAGCAATGTTTT
3347244 AACACTGATTTCTCCCCTCTTTTTTGCTTTGTTCTTAGTTGTAGCTGAGGTATTTTCATTAATTT
1 AACACTGATTTCTCCCCTCTTTTTTGCTTTGTTCTTAGTTGTAGCTGAGGTATTTTCATTAATTT
3347309 CTTGTTATCTCTAGTTCTGGCTTCTTCTACTCTTCTTTGTCACAGTTGTTATTATTATTACTATT
66 CTTGTTATCTCTAGTTCTGGCTTCTTCTACTCTTCTTTGTCACAGTTGTTATTATTATTACTATT
3347374 ATTTTGGGGAACAAAACAGCCATTTTCTTTTGCTTTGTTCTTGGTTTAGCAATGTTTT
131 ATTTTGGGGAACAAAACAGCCATTTTCTTTTGCTTTGTTCTTGGTTTAGCAATGTTTT
3347432 AACACTGATTTCTCCCCTCTTTTTTGCTTTGTTCTTAGTTGTAGCTGAGGTATTTTCATTAATTT
1 AACACTGATTTCTCCCCTCTTTTTTGCTTTGTTCTTAGTTGTAGCTGAGGTATTTTCATTAATTT
3347497 CTTGTTATCTCTAGTTCTGGCTTCTTCTACTCTTCTTTGTCACAGTTGTTATTATTATTACTATT
66 CTTGTTATCTCTAGTTCTGGCTTCTTCTACTCTTCTTTGTCACAGTTGTTATTATTATTACTATT
3347562 ATTTTGGGGAACAAAACAGCCATTTTCTTTTGCTTTGTTCTTGGTTTAGCAATGTTTT
131 ATTTTGGGGAACAAAACAGCCATTTTCTTTTGCTTTGTTCTTGGTTTAGCAATGTTTT
3347620 AACACTGATTTCTCCCCTCTTTTTTGCTTTGTTCTTAGTTGTAGCTGAGGTATTTTCATTAATTT
1 AACACTGATTTCTCCCCTCTTTTTTGCTTTGTTCTTAGTTGTAGCTGAGGTATTTTCATTAATTT
*
3347685 CTTGTTATCTCTAGTTCTGGCTTCTTCTACTCTTCTTTGTCAAAGTT
66 CTTGTTATCTCTAGTTCTGGCTTCTTCTACTCTTCTTTGTCACAGTT
3347732 TTTAGTCCTT
Statistics
Matches: 671, Mismatches: 5, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
188 628 0.94
189 2 0.00
193 2 0.00
196 39 0.06
ACGTcount: A:0.17, C:0.18, G:0.14, T:0.51
Consensus pattern (188 bp):
AACACTGATTTCTCCCCTCTTTTTTGCTTTGTTCTTAGTTGTAGCTGAGGTATTTTCATTAATTT
CTTGTTATCTCTAGTTCTGGCTTCTTCTACTCTTCTTTGTCACAGTTGTTATTATTATTACTATT
ATTTTGGGGAACAAAACAGCCATTTTCTTTTGCTTTGTTCTTGGTTTAGCAATGTTTT
Found at i:3347960 original size:20 final size:20
Alignment explanation
Indices: 3347923--3347959 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
3347913 TAGTTGAATT
*
3347923 TGGATAATTGAAAGAAAATA
1 TGGATAATTGAAAAAAAATA
3347943 TGGA-AATTGAAAAAAAA
1 TGGATAATTGAAAAAAAA
3347960 AGAGACTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (20 bp):
TGGATAATTGAAAAAAAATA
Found at i:3359731 original size:175 final size:175
Alignment explanation
Indices: 3359524--3360081 Score: 879
Period size: 175 Copynumber: 3.2 Consensus size: 175
3359514 ATAAACACGT
* *
3359524 GAAAGCCAAATCTGCTATGTCTTCGGTTTGCTCCTTGTGAACACAAAGATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAAGATGCCAAATCATCTTGG
*
3359589 ATCTGCTTCAGTAAAATCATCTGAAGATTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
66 ATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
*
3359654 ATTCCAGATCTGTTATCTTGGATCTGCTTTTGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTTGTGTGAGAACATCC
* * * *
3359699 GAAAGTCAAATCTGTTATGTCTTTGATTTGCTCCTTGTGAACATAAGGATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAAGATGCCAAATCATCTTGG
* * *
3359764 ATCTGTTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCTGTCAAAATGGAG
66 ATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
* * * *
3359829 ATGCCAGATCTGTTATCTTGGATCTACTTTGGTGTAAGGAA-ATCT
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTTGTGTGA-GAACATCC
* * *
3359874 GAAAATCAAATCGGCTATGTCTTCGATTTGCTCCTTGTGAACACAATGATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAAGATGCCAAATCATCTTGG
*
3359939 ATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGATATGTATCTGCTCTCCG-CTGAAATGGA
66 ATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTC-GAAATGGA
*
3360003 GATGCCAGATCTGTTATCTTGGATCTGC-TTTGATGTGAGAACATTC
130 GATGCCAGATCTGTTATCTTGGATCTGCTTTTG-TGTGAGAACATCC
*
3360049 GAAAGTCAGATCTGCTATGTCTTCGATTTGCTC
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTC
3360082 TCCGTCAAAA
Statistics
Matches: 346, Mismatches: 33, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
174 7 0.02
175 336 0.97
176 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (175 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAAGATGCCAAATCATCTTGG
ATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
ATGCCAGATCTGTTATCTTGGATCTGCTTTTGTGTGAGAACATCC
Found at i:3360032 original size:86 final size:85
Alignment explanation
Indices: 3359582--3360032 Score: 291
Period size: 87 Copynumber: 5.2 Consensus size: 85
3359572 ATGCCAAATC
*
3359582 ATCTTGGATCTGCTTCAGTAAAATCATCTGAAGATTAGATCTGCTATGTATCTGCTCTCCGTCGA
1 ATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGT-GA
*
3359647 AATGGAGATTCCAGATCTGTT
65 AATGGAGATGCCAGATCTGTT
** * * * * * * * * *
3359668 ATCTTGGATCTGCTTTTGTGTGAGAA-CATCCGAAAGTCAAATCTGTTATGTCTTTGATTTGCTC
1 ATCTTGGATCTGC--TTCAGT-AAAATCATCTGAAGGTTAGATCTGCTATGTATCTG--CT-CTC
* *
3359732 CTTGTGAACAT-AAGGATGCCAAATC----
60 C--GTGAA-ATGGA-GATGCCAGATCTGTT
* * *
3359757 ATCTTGGATCTGTTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCTGTCAA
1 ATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGT-GA
3359822 AATGGAGATGCCAGATCTGTT
65 AATGGAGATGCCAGATCTGTT
* ** ** * * * *
3359843 ATCTTGGATCTACTTTGGTGTAAGGAA--ATCTGAAAATCAAATCGGCTATGTCTTCGATTTGCT
1 ATCTTGGATCTGC-TT-CAGTAA--AATCATCTGAAGGTTAGATCTGCTATG---T--ATCTGCT
* ** *
3359906 C-CTTGTGAACA-CAATGATGCCAAATC----
57 CTC-CGTGAA-ATGGA-GATGCCAGATCTGTT
*
3359932 ATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGATATGTATCTGCTCTCCGCTGA
1 ATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCG-TGA
3359997 AATGGAGATGCCAGATCTGTT
65 AATGGAGATGCCAGATCTGTT
3360018 ATCTTGGATCTGCTT
1 ATCTTGGATCTGCTT
3360033 TGATGTGAGA
Statistics
Matches: 268, Mismatches: 59, Indels: 76
0.67 0.15 0.19
Matches are distributed among these distances:
82 33 0.12
83 9 0.03
84 4 0.01
85 3 0.01
86 42 0.16
87 50 0.19
88 50 0.19
89 27 0.10
90 3 0.01
91 5 0.02
92 8 0.03
93 34 0.13
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (85 bp):
ATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTGAA
ATGGAGATGCCAGATCTGTT
Found at i:3360521 original size:284 final size:284
Alignment explanation
Indices: 3360000--3360566 Score: 1084
Period size: 284 Copynumber: 2.0 Consensus size: 284
3359990 CCGCTGAAAT
3360000 GGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAGAACATTCGAAAGTCAGATCTGCT
1 GGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAGAACATTCGAAAGTCAGATCTGCT
3360065 ATGTCTTCGATTTGCTCTCCGTCAAAAATAGAGAAGCCAAATCTTGTTATCTTGGATCTGCTTCA
66 ATGTCTTCGATTTGCTCTCCGTCAAAAATAGAGAAGCCAAATCTTGTTATCTTGGATCTGCTTCA
3360130 GTGTAAACACGTGAAGGCCAGATCTACTATGCTTTGGTCTATTACCCTACTGCTTAAGGGTTAAG
131 GTGTAAACACGTGAAGGCCAGATCTACTATGCTTTGGTCTATTACCCTACTGCTTAAGGGTTAAG
*
3360195 GTGCATCGTCTTCGATCTACTCCGCTACTGCTTAGGGATAAGATCTGCAAATTTAACCTGTTATC
196 GTGCATCGTCTTCGATCTACTCCGCTACTGCTTAGGGATAAGATCTGCAAATTTAACCTGTTACC
3360260 CTACTGCTTAGAGGATTAAGGCGG
261 CTACTGCTTAGAGGATTAAGGCGG
3360284 GGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAGAACATTCGAAAGTCAGATCTGCT
1 GGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAGAACATTCGAAAGTCAGATCTGCT
3360349 ATGTCTTCGATTTGCTCTCCGTCAAAAATAGAGAAGCCAAATCTTGTTATCTTGGATCTGCTTCA
66 ATGTCTTCGATTTGCTCTCCGTCAAAAATAGAGAAGCCAAATCTTGTTATCTTGGATCTGCTTCA
3360414 GTGTAAACACGTGAAGGCCAGATCTACTATGCTTTGGTCTATTACCCTACTGCTTAAGGGTTAAG
131 GTGTAAACACGTGAAGGCCAGATCTACTATGCTTTGGTCTATTACCCTACTGCTTAAGGGTTAAG
3360479 GTGCATCGTCTTCGATCTACT-C-CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTA
196 GTGCATCGTCTTCGATCTACTCCGCTACTGCTTA-GG-GATAAGATCTGCAAATTTAACCTGTTA
*
3360542 CCCTACTGCTTAGGGGATTAAGGCG
259 CCCTACTGCTTAGAGGATTAAGGCG
3360567 CTGAATTTTG
Statistics
Matches: 279, Mismatches: 2, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
282 10 0.04
283 3 0.01
284 266 0.95
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (284 bp):
GGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAGAACATTCGAAAGTCAGATCTGCT
ATGTCTTCGATTTGCTCTCCGTCAAAAATAGAGAAGCCAAATCTTGTTATCTTGGATCTGCTTCA
GTGTAAACACGTGAAGGCCAGATCTACTATGCTTTGGTCTATTACCCTACTGCTTAAGGGTTAAG
GTGCATCGTCTTCGATCTACTCCGCTACTGCTTAGGGATAAGATCTGCAAATTTAACCTGTTACC
CTACTGCTTAGAGGATTAAGGCGG
Found at i:3361539 original size:17 final size:15
Alignment explanation
Indices: 3361513--3361552 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
3361503 GGCCTCTCCA
*
3361513 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTTTT
*
3361528 TTTTTCTCTTTTTTT
1 TTTTTCTTTTTTTTT
*
3361543 TTTTACTTTT
1 TTTTTCTTTT
3361553 GAAATAGAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTCTTTTTTTTT
Found at i:3376127 original size:55 final size:55
Alignment explanation
Indices: 3376043--3376152 Score: 193
Period size: 55 Copynumber: 2.0 Consensus size: 55
3376033 TGTGGTCTTA
*
3376043 CAAATGTTACGGATGCACCAAAGCATGAAAGACTGTCCCGTTATTAGCCCTCTCG
1 CAAATGTTACGGATGCACCAAAGCATGAAAGACGGTCCCGTTATTAGCCCTCTCG
* *
3376098 CAAATGTTACGGATGCACCAAAGCTTGAAAGAGGGTCCCGTTATTAGCCCTCTCG
1 CAAATGTTACGGATGCACCAAAGCATGAAAGACGGTCCCGTTATTAGCCCTCTCG
3376153 AGCTTCTCGT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (55 bp):
CAAATGTTACGGATGCACCAAAGCATGAAAGACGGTCCCGTTATTAGCCCTCTCG
Found at i:3376383 original size:25 final size:25
Alignment explanation
Indices: 3376333--3376384 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
3376323 CTCGCTTGAA
*
3376333 CTTCTCGATATATGGCTATTCAGAG
1 CTTCTCGATATATAGCTATTCAGAG
* *
3376358 CTTCTCGAT-TAATAGCTTTTCGGAG
1 CTTCTCGATAT-ATAGCTATTCAGAG
3376383 CT
1 CT
3376385 ACCCATTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (25 bp):
CTTCTCGATATATAGCTATTCAGAG
Found at i:3376459 original size:25 final size:25
Alignment explanation
Indices: 3376429--3376490 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
3376419 GACTCTTATG
3376429 AGCTTCCCGTTATACAGCCCGGATA
1 AGCTTCCCGTTATACAGCCCGGATA
*
3376454 AGCTTCCCGTTATACAGCCTGGATA
1 AGCTTCCCGTTATACAGCCCGGATA
3376479 AGCTTCCCGTTA
1 AGCTTCCCGTTA
3376491 CATGGCTCAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (25 bp):
AGCTTCCCGTTATACAGCCCGGATA
Found at i:3382395 original size:11 final size:11
Alignment explanation
Indices: 3382379--3382406 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
3382369 ATCTGAATCC
3382379 ATCTTGGGATG
1 ATCTTGGGATG
3382390 ATCTTGGGATG
1 ATCTTGGGATG
3382401 ATCTTG
1 ATCTTG
3382407 TGAAACACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.11, G:0.32, T:0.39
Consensus pattern (11 bp):
ATCTTGGGATG
Found at i:3384545 original size:13 final size:13
Alignment explanation
Indices: 3384527--3384553 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3384517 GCTCGGTAGG
3384527 GACACGCCCGTGT
1 GACACGCCCGTGT
3384540 GACACGCCCGTGT
1 GACACGCCCGTGT
3384553 G
1 G
3384554 CGATTACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:3385589 original size:26 final size:25
Alignment explanation
Indices: 3385552--3385610 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 25
3385542 CCCTCTCGAT
3385552 CCATATAACAGGAAACTCACAAAGAG
1 CCAT-TAACAGGAAACTCACAAAGAG
*
3385578 CCATTAATCAGGAAGCTCACAAAGAG
1 CCATTAA-CAGGAAACTCACAAAGAG
3385604 CCTATTA
1 CC-ATTA
3385611 GGAAGCTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 3 0.10
26 23 0.77
27 4 0.13
ACGTcount: A:0.44, C:0.24, G:0.15, T:0.17
Consensus pattern (25 bp):
CCATTAACAGGAAACTCACAAAGAG
Found at i:3385617 original size:23 final size:25
Alignment explanation
Indices: 3385556--3385674 Score: 88
Period size: 25 Copynumber: 4.9 Consensus size: 25
3385546 CTCGATCCAT
*
3385556 ATAA-CAGGAAACTCACAAAGAGCC
1 ATAATCAGGAAGCTCACAAAGAGCC
3385580 ATTAATCAGGAAGCTCACAAAGAGCC
1 A-TAATCAGGAAGCTCACAAAGAGCC
* * * *
3385606 -T-ATTAGGAAGCTTATC-TA-AGCT
1 ATAATCAGGAAGCTCA-CAAAGAGCC
* * *
3385628 ATATAACAGAAAGCTCA-TAAGAGCC
1 ATA-ATCAGGAAGCTCACAAAGAGCC
*
3385653 ATAATCAGGAAGTTCACAAAGA
1 ATAATCAGGAAGCTCACAAAGA
3385675 ACTTTGAGGA
Statistics
Matches: 71, Mismatches: 15, Indels: 17
0.69 0.15 0.17
Matches are distributed among these distances:
22 3 0.04
23 13 0.18
24 14 0.20
25 22 0.31
26 19 0.27
ACGTcount: A:0.45, C:0.19, G:0.18, T:0.18
Consensus pattern (25 bp):
ATAATCAGGAAGCTCACAAAGAGCC
Found at i:3387262 original size:94 final size:94
Alignment explanation
Indices: 3387101--3387289 Score: 369
Period size: 94 Copynumber: 2.0 Consensus size: 94
3387091 ACTATTAGAA
3387101 CTCAACTTTTGCAATTTGTGAAATTTGGTCTTTTATCAAATTAAACATGTAATCGGTAAAATTTC
1 CTCAACTTTTGCAATTTGTGAAATTTGGTCTTTTATCAAATTAAACATGTAATCGGTAAAATTTC
3387166 TTTACAAAATTTTTATATGACATTACTAT
66 TTTACAAAATTTTTATATGACATTACTAT
3387195 CTCAACTTTTGCAATTTGTGAAATTTGGTCTTTTATCAAATTAAACATGTAATCGGTAAAATTTC
1 CTCAACTTTTGCAATTTGTGAAATTTGGTCTTTTATCAAATTAAACATGTAATCGGTAAAATTTC
*
3387260 TTTACAAAATTTTTATATGAGATTACTAT
66 TTTACAAAATTTTTATATGACATTACTAT
3387289 C
1 C
3387290 ATACTATAGA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (94 bp):
CTCAACTTTTGCAATTTGTGAAATTTGGTCTTTTATCAAATTAAACATGTAATCGGTAAAATTTC
TTTACAAAATTTTTATATGACATTACTAT
Found at i:3389768 original size:39 final size:40
Alignment explanation
Indices: 3389723--3389890 Score: 97
Period size: 40 Copynumber: 4.2 Consensus size: 40
3389713 CGGGGTTTAG
* * *
3389723 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
3389762 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * * **
3389802 CCGGATATAGTCGCTAGCACAAATGCCTTC-GAATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
3389842 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
3389883 CCGGATAT
1 CCGGATAT
3389891 CATTCGAGTA
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 17 0.16
40 61 0.57
41 27 0.25
42 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:3389793 original size:40 final size:40
Alignment explanation
Indices: 3389746--3389890 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
3389736 CTCGCACAAG
* * * * *
3389746 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
3389786 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
3389826 GCCTTC-GAATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
3389867 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
3389891 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.02
40 59 0.66
41 27 0.30
42 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:3398196 original size:31 final size:31
Alignment explanation
Indices: 3398158--3398216 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
3398148 ATAATTTATG
3398158 TGTAAGACCACGTCTGGGACGTTGGCATCGT
1 TGTAAGACCACGTCTGGGACGTTGGCATCGT
*
3398189 TGTAAGACCACTTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
3398217 TGTATTTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (31 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGT
Found at i:3398265 original size:42 final size:42
Alignment explanation
Indices: 3398189--3398292 Score: 106
Period size: 42 Copynumber: 2.5 Consensus size: 42
3398179 TTGGCATCGT
** *
3398189 TGTAAGACCACTTCTGGGACGTTGGCATTGTATTTGATTTTG
1 TGTAAGACCACTTCTGGGACAATGGCATCGTATTTGATTTTG
***
3398231 TGTAAGACC-CTGTCT-GGACAATGGCATCGATATTTGATTACA
1 TGTAAGACCACT-TCTGGGACAATGGCATCG-TATTTGATTTTG
3398273 TGTAAGACCACGTT-TGGGAC
1 TGTAAGACCAC-TTCTGGGAC
3398293 GTTGGCATTG
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
41 13 0.25
42 31 0.61
43 6 0.12
44 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (42 bp):
TGTAAGACCACTTCTGGGACAATGGCATCGTATTTGATTTTG
Found at i:3403072 original size:40 final size:40
Alignment explanation
Indices: 3402984--3403060 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
3402974 GATTAAGTTC
*
3402984 GGCACTAAGTGTGCGGTTCGAAATAGCTTCGGCTGCAAAT
1 GGCACTAAGTGTGCGGTTCGAAATAGCTTCGGCTACAAAT
* *
3403024 GGTACTAAGTGTGCGAGTT-GGAATAGCTTCGGCTACA
1 GGCACTAAGTGTGCG-GTTCGAAATAGCTTCGGCTACA
3403061 TGAGGCACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 30 0.91
41 3 0.09
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (40 bp):
GGCACTAAGTGTGCGGTTCGAAATAGCTTCGGCTACAAAT
Found at i:3406739 original size:14 final size:14
Alignment explanation
Indices: 3406716--3406745 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3406706 TTGAAATTAT
3406716 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
3406730 GTTGATTTGGATTG
1 GTTGAATTGGATTG
3406744 GT
1 GT
3406746 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:3407730 original size:71 final size:67
Alignment explanation
Indices: 3407653--3407794 Score: 194
Period size: 67 Copynumber: 2.1 Consensus size: 67
3407643 TCACCAGATA
* * *
3407653 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
3407718 GGCTGC
62 GGCTGC
* * *
3407724 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGTGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
3407789 GC
66 GC
3407791 CAGA
1 CAGA
3407795 ACGCTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
67 40 0.62
71 25 0.38
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:3407772 original size:27 final size:26
Alignment explanation
Indices: 3407724--3407775 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
3407714 GCGAGGCTGC
*
3407724 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
3407750 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
3407776 TTGCAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:3413620 original size:18 final size:17
Alignment explanation
Indices: 3413593--3413626 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3413583 CTTTAATTTG
3413593 ATCATTTTTTTAAAAGT
1 ATCATTTTTTTAAAAGT
3413610 ATCATTTTTTTAAAAGT
1 ATCATTTTTTTAAAAGT
3413627 TCAGTCTTCA
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:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
ATCATTTTTTTAAAAGT
Found at i:3417567 original size:24 final size:24
Alignment explanation
Indices: 3417539--3417601 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
3417529 TTTCTAGAAG
* * *
3417539 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTGATTAGCATAATAT
3417563 ATTTAGCATTGATTAGCATAATAT
1 ATTTAGCATTGATTAGCATAATAT
*
3417587 ATTTGGCATTGATTA
1 ATTTAGCATTGATTA
3417602 CAATTAGGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTGATTAGCATAATAT
Found at i:3422985 original size:21 final size:22
Alignment explanation
Indices: 3422956--3422997 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
3422946 TGTTGAATCT
*
3422956 AATTAATTTTTTTAT-TTAAAA
1 AATTAATTTTTATATATTAAAA
*
3422977 AATTTATTTTTATATATTAAA
1 AATTAATTTTTATATATTAAA
3422998 TCAAATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTAATTTTTATATATTAAAA
Found at i:3425421 original size:19 final size:21
Alignment explanation
Indices: 3425397--3425436 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3425387 ATTATATAAA
3425397 AAATTTA-AAT-AATAAATAT
1 AAATTTATAATAAATAAATAT
*
3425416 AAATTTATATTAAATAAATAT
1 AAATTTATAATAAATAAATAT
3425437 CATTTTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
21 9 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATTTATAATAAATAAATAT
Found at i:3426930 original size:15 final size:15
Alignment explanation
Indices: 3426905--3426938 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
3426895 ATAATAAATT
3426905 AAAGTAAAATGAAAAG
1 AAAGTAAAATG-AAAG
3426921 AAAG-AAAATGAAAG
1 AAAGTAAAATGAAAG
3426935 AAAG
1 AAAG
3426939 GGAGAAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 6 0.33
16 4 0.22
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.09
Consensus pattern (15 bp):
AAAGTAAAATGAAAG
Found at i:3429792 original size:21 final size:20
Alignment explanation
Indices: 3429768--3429818 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 20
3429758 ATTCATAACA
*
3429768 TATTCAATTCTCATCACTTGC
1 TATTCAAATCTCAT-ACTTGC
3429789 TATTTCAAATCTCATACTTGC
1 TA-TTCAAATCTCATACTTGC
*
3429810 TATACAAAT
1 TATTCAAAT
3429819 AGCTTTTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 6 0.22
21 10 0.37
22 11 0.41
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41
Consensus pattern (20 bp):
TATTCAAATCTCATACTTGC
Found at i:3429795 original size:22 final size:21
Alignment explanation
Indices: 3429770--3429812 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
3429760 TCATAACATA
*
3429770 TTCAATTCTCATCACTTGCTAT
1 TTCAAATCTCAT-ACTTGCTAT
3429792 TTCAAATCTCATACTTGCTAT
1 TTCAAATCTCATACTTGCTAT
3429813 ACAAATAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.44
Consensus pattern (21 bp):
TTCAAATCTCATACTTGCTAT
Found at i:3431056 original size:20 final size:20
Alignment explanation
Indices: 3431010--3431057 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
3431000 CTTTTCTTTG
*
3431010 CTTTTTCTTCCTTTCCTTCT
1 CTTTTTCTTCCTATCCTTCT
* *
3431030 ATGTTTCGTT-CTATCCTTCT
1 CTTTTTC-TTCCTATCCTTCT
3431050 CTTTTTCT
1 CTTTTTCT
3431058 ATTTCTTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
19 1 0.05
20 19 0.86
21 2 0.09
ACGTcount: A:0.04, C:0.29, G:0.04, T:0.62
Consensus pattern (20 bp):
CTTTTTCTTCCTATCCTTCT
Found at i:3431092 original size:5 final size:5
Alignment explanation
Indices: 3431084--3431112 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
3431074 ATATTATTAT
3431084 TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
3431113 TATTTACTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:3440209 original size:48 final size:48
Alignment explanation
Indices: 3440153--3440249 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
3440143 TGATATACAT
3440153 ATACATGGTATAGATGTTACATGTACATAGAATTGAAATAATTGTTGA
1 ATACATGGTATAGATGTTACATGTACATAGAATTGAAATAATTGTTGA
* *
3440201 ATACATGGTATAGATGTTACATGTACGTGGAATTGAAATAATTGTTGA
1 ATACATGGTATAGATGTTACATGTACATAGAATTGAAATAATTGTTGA
3440249 A
1 A
3440250 CTCATACATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (48 bp):
ATACATGGTATAGATGTTACATGTACATAGAATTGAAATAATTGTTGA
Found at i:3453657 original size:22 final size:22
Alignment explanation
Indices: 3453632--3453675 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
3453622 AAATGGTTTA
3453632 TATATGAT-ATACATATACATGG
1 TATA-GATGATACATATACATGG
* *
3453654 TATAGATGTTACATGTACATGG
1 TATAGATGATACATATACATGG
3453676 AATCGAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (22 bp):
TATAGATGATACATATACATGG
Found at i:3458720 original size:60 final size:60
Alignment explanation
Indices: 3458627--3458747 Score: 206
Period size: 60 Copynumber: 2.0 Consensus size: 60
3458617 ATAATATTAT
* * *
3458627 GATTTGAATCACACACTTGATTTAAAGGGTGTAGTGCTCTCTTTGACTGAAAAAACTCAA
1 GATTTAAATCACACACTAGATTTAAAGGGTGTAGTGCTCTCTTTGACCGAAAAAACTCAA
*
3458687 GATTTAAATCACACACTAGATTTAAAGGGTGTAGTGCTCTCTTTTACCGAAAAAACTCAA
1 GATTTAAATCACACACTAGATTTAAAGGGTGTAGTGCTCTCTTTGACCGAAAAAACTCAA
3458747 G
1 G
3458748 CGATTTCGAG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (60 bp):
GATTTAAATCACACACTAGATTTAAAGGGTGTAGTGCTCTCTTTGACCGAAAAAACTCAA
Found at i:3459939 original size:19 final size:18
Alignment explanation
Indices: 3459917--3459956 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
3459907 TGAATAAAAC
*
3459917 TTATCTATCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
3459936 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
3459954 TTA
1 TTA
3459957 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:3464554 original size:18 final size:19
Alignment explanation
Indices: 3464508--3464555 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
3464498 TTAGAATATG
* *
3464508 AATAAAACTTATCTACCTA
1 AATAAAATTTATCTACATA
3464527 AATAAAATTTATCTACATA
1 AATAAAATTTATCTACATA
3464546 AAT-AAATTTA
1 AATAAAATTTA
3464556 AAATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (19 bp):
AATAAAATTTATCTACATA
Found at i:3472196 original size:7 final size:7
Alignment explanation
Indices: 3472184--3472209 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3472174 TTGGTGGGTA
3472184 GAAAGAG
1 GAAAGAG
3472191 GAAAGAG
1 GAAAGAG
3472198 GAAAGAG
1 GAAAGAG
3472205 GAAAG
1 GAAAG
3472210 CCTGAAGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (7 bp):
GAAAGAG
Found at i:3479982 original size:32 final size:30
Alignment explanation
Indices: 3479926--3479985 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 30
3479916 TAACATCTAG
3479926 TTAAATAAAACTTTTAAATAATTTAATAAT
1 TTAAATAAAACTTTTAAATAATTTAATAAT
3479956 TTAAATAAAA-TAATTTAAAATAATTTAATA
1 TTAAATAAAACT--TTT-AAATAATTTAATA
3479986 TTTTTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 1 0.04
30 10 0.37
31 3 0.11
32 13 0.48
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (30 bp):
TTAAATAAAACTTTTAAATAATTTAATAAT
Found at i:3481188 original size:326 final size:327
Alignment explanation
Indices: 3480592--3481249 Score: 1273
Period size: 326 Copynumber: 2.0 Consensus size: 327
3480582 GCCGTAATTA
*
3480592 GTTTATCCTTGTTGTATAAATAGTTTGCTTACTGTTCAATAGATACCGGCCATAGTAGCACCCTG
1 GTTTATCCTTGTTGAATAAATAGTTTGCTTACTGTTC-A-AGATACCGGCCATAGTAGCACCCTG
3480657 TTTGGCTGATGAAGAAATTGAGTGAAAACCAAGGAAACTGAATTTTGAGATTGATATATTTGTAC
64 TTTGGCTGATGAAGAAATTGAGTGAAAACCAAGGAAACTGAATTTTGAGATTGATATATTTGTAC
3480722 ACTATTTTCCTGACCTGTACTTTGTTTTAGCTGTTTGAATTTTTATACATAGCAGAGGATACCTT
129 ACTATTTTCCTGACCTGTACTTTGTTTTAGCTGTTTGAATTTTTATACATAGCAGAGGATACCTT
3480787 CAAGTAAATTAGGTTTGACATTTGAGGGATTCTTTTGTTTAATAATAATAATAATAATAATAAAA
194 CAAGTAAATTAGGTTTGACATTTGAGGGATTCTTTTGTTTAATAATAATAATAATAATAATAAAA
3480852 TGAGAAGGAATTCTGGCAGAGTGGTTTACTGTTTTCCTATTATTTTCATTAATGATGATTGTTGG
259 TGAGAAGGAATTCTGGCAGAGTGGTTTACTGTTTTCCTATTATTTTCATTAATGATGATTGTTGG
3480917 GGTT
324 GGTT
3480921 GTTTATCCTTGTTGAATAAATAGTTTGCTTACTGTTC-AGATACCGGCCATAGTAGCACCCTGTT
1 GTTTATCCTTGTTGAATAAATAGTTTGCTTACTGTTCAAGATACCGGCCATAGTAGCACCCTGTT
*
3480985 TGGCTGATGAAGAAATTGAGTGAAAACCAAGGAAACTGACTTTTGAGATTGATATATTTGTACAC
66 TGGCTGATGAAGAAATTGAGTGAAAACCAAGGAAACTGAATTTTGAGATTGATATATTTGTACAC
3481050 TATTTTCCTGACCTGTACTTTGTTTTAGCTGTTTGAATTTTTATACATAGCAGAGGATACCTTCA
131 TATTTTCCTGACCTGTACTTTGTTTTAGCTGTTTGAATTTTTATACATAGCAGAGGATACCTTCA
3481115 AGTAAATTAGGTTTGACATTTGAGGGATTCTTTTGTTTAATAATAATAATAATAATAATAAAATG
196 AGTAAATTAGGTTTGACATTTGAGGGATTCTTTTGTTTAATAATAATAATAATAATAATAAAATG
3481180 AGAAGGAATTCTGGCAGAGTGGTTTACTGTTTTCCTATTATTTTCATTAATGATGATTGTTGGGG
261 AGAAGGAATTCTGGCAGAGTGGTTTACTGTTTTCCTATTATTTTCATTAATGATGATTGTTGGGG
3481245 TT
326 TT
3481247 GTT
1 GTT
3481250 CATTAGTCTA
Statistics
Matches: 327, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
326 291 0.89
329 36 0.11
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (327 bp):
GTTTATCCTTGTTGAATAAATAGTTTGCTTACTGTTCAAGATACCGGCCATAGTAGCACCCTGTT
TGGCTGATGAAGAAATTGAGTGAAAACCAAGGAAACTGAATTTTGAGATTGATATATTTGTACAC
TATTTTCCTGACCTGTACTTTGTTTTAGCTGTTTGAATTTTTATACATAGCAGAGGATACCTTCA
AGTAAATTAGGTTTGACATTTGAGGGATTCTTTTGTTTAATAATAATAATAATAATAATAAAATG
AGAAGGAATTCTGGCAGAGTGGTTTACTGTTTTCCTATTATTTTCATTAATGATGATTGTTGGGG
TT
Found at i:3484559 original size:22 final size:23
Alignment explanation
Indices: 3484519--3484564 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
3484509 TGGTATAAAG
* *
3484519 AAAAACTCGAAATATCAAATTGA
1 AAAAACTCGAAATACCAAACTGA
*
3484542 AAAAACTC-AAGTACCAAACTGA
1 AAAAACTCGAAATACCAAACTGA
3484564 A
1 A
3484565 CATTAAATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.57, C:0.17, G:0.09, T:0.17
Consensus pattern (23 bp):
AAAAACTCGAAATACCAAACTGA
Found at i:3489106 original size:46 final size:46
Alignment explanation
Indices: 3489039--3489139 Score: 193
Period size: 46 Copynumber: 2.2 Consensus size: 46
3489029 GGTTAGCCTG
3489039 TGAGATCGAGAGATAAACTAGATTAACTTGTCTAATTTGGTAAATT
1 TGAGATCGAGAGATAAACTAGATTAACTTGTCTAATTTGGTAAATT
*
3489085 TGAGATCGAGAGATAAACTAGATTAATTTGTCTAATTTGGTAAATT
1 TGAGATCGAGAGATAAACTAGATTAACTTGTCTAATTTGGTAAATT
3489131 TGAGATCGA
1 TGAGATCGA
3489140 AAGGTAAAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.35
Consensus pattern (46 bp):
TGAGATCGAGAGATAAACTAGATTAACTTGTCTAATTTGGTAAATT
Found at i:3493473 original size:13 final size:13
Alignment explanation
Indices: 3493452--3493500 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
3493442 ATTATTCAAC
*
3493452 TAAAAAATTTGAT
1 TAAATAATTTGAT
* *
3493465 TAAATAATTTAAC
1 TAAATAATTTGAT
*
3493478 TAAAGAATTTGAT
1 TAAATAATTTGAT
3493491 TAAATAATTT
1 TAAATAATTT
3493501 TCTTAAACAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (13 bp):
TAAATAATTTGAT
Found at i:3493507 original size:26 final size:26
Alignment explanation
Indices: 3493449--3493500 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
3493439 AGAATTATTC
3493449 AACTAAAAAATTTGATTAAATAATTT
1 AACTAAAAAATTTGATTAAATAATTT
*
3493475 AACTAAAGAATTTGATTAAATAATTT
1 AACTAAAAAATTTGATTAAATAATTT
3493501 TCTTAAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (26 bp):
AACTAAAAAATTTGATTAAATAATTT
Found at i:3493871 original size:31 final size:29
Alignment explanation
Indices: 3493836--3493893 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
3493826 AATAGTATTC
*
3493836 TATTAATTTTATATTAAAGTGATTATCTTAA
1 TATTAAATTTA-ATTAAA-TGATTATCTTAA
* *
3493867 TATTAAATTTAATTTAATGTTTATCTT
1 TATTAAATTTAATTAAATGATTATCTT
3493894 GTAGATAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.55
Consensus pattern (29 bp):
TATTAAATTTAATTAAATGATTATCTTAA
Found at i:3493963 original size:17 final size:18
Alignment explanation
Indices: 3493925--3493972 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
3493915 TTAATAAGAT
3493925 TTAATATTAA-ATT-TAA
1 TTAATATTAATATTATAA
3493941 TCTAATATTAATATTAT-A
1 T-TAATATTAATATTATAA
*
3493959 TTAAT-TTATTATTA
1 TTAATATTAATATTA
3493973 AAGTGATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 9 0.32
17 13 0.46
18 5 0.18
19 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAATATTAATATTATAA
Found at i:3500515 original size:19 final size:19
Alignment explanation
Indices: 3500476--3500519 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
3500466 GAAATTATTA
3500476 AATAAA-ATAAAATATAAT
1 AATAAATATAAAATATAAT
3500494 AATAAATATATAAATA-AAT
1 AATAAATATA-AAATATAAT
3500513 AATAAAT
1 AATAAAT
3500520 TTATTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.25
19 13 0.54
20 5 0.21
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AATAAATATAAAATATAAT
Found at i:3503556 original size:184 final size:184
Alignment explanation
Indices: 3503241--3503623 Score: 588
Period size: 184 Copynumber: 2.1 Consensus size: 184
3503231 ATTTATTTTC
3503241 TAATTTTTAGGATAACATTAATATTTATTTTCTTTCAAAATGTTGTAATCTTTTCCTACATTCAA
1 TAATTTTTAGGATAACATTAATATTTATTTTCTTTCAAAATGTTGTAATCTTTTCCTACATTCAA
* ** *
3503306 AACCAATCAAATAGAAGATCGATCGAAGTGTTTGGATGATATATGAAATTTAAGTTTAAAAACTG
66 AACCAATCAAATAGAAGATCGATCGAAGTATTTGGATGATATATGAAATGCAAGTTCAAAAACTG
* *
3503371 CGATTCCATGTAAACGAATCGAATTCTATTTTTTATTTGATATATAATTAATTT
131 CGATTCCATGAAAACGAATCGAATTCTATTTTTTATTTAATATATAATTAATTT
* * * * * *
3503425 TAATTCTTAGGATAACTGTTAATATTTATTTTCTTTTAAAATGTTTTAATC-TTTCTTACTTTCA
1 TAATTTTTAGGATAAC-ATTAATATTTATTTTCTTTCAAAATGTTGTAATCTTTTCCTACATTCA
** * *
3503489 AATTCAATCAAATCGAAGATCGATCGAAGTATTTGGATGGTATATGAAATGCAAGTTCAAAAACT
65 AAACCAATCAAATAGAAGATCGATCGAAGTATTTGGATGATATATGAAATGCAAGTTCAAAAACT
*
3503554 GCGATTCCATGAAAACGAATTGAATTCTATTTTTTATTTAATATATAATTAATTT
130 GCGATTCCATGAAAACGAATCGAATTCTATTTTTTATTTAATATATAATTAATTT
*
3503609 TAATTTTTACGATAA
1 TAATTTTTAGGATAA
3503624 AAATAAATAT
Statistics
Matches: 179, Mismatches: 19, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
184 148 0.83
185 31 0.17
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (184 bp):
TAATTTTTAGGATAACATTAATATTTATTTTCTTTCAAAATGTTGTAATCTTTTCCTACATTCAA
AACCAATCAAATAGAAGATCGATCGAAGTATTTGGATGATATATGAAATGCAAGTTCAAAAACTG
CGATTCCATGAAAACGAATCGAATTCTATTTTTTATTTAATATATAATTAATTT
Found at i:3512003 original size:21 final size:21
Alignment explanation
Indices: 3511978--3512027 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
3511968 TTTACTTTCC
3511978 GTTTAGCTT-TCATGAGCTTCT
1 GTTTAGCTTAT-ATGAGCTTCT
* *
3511999 GTTTAACTTATATGAGTTTCT
1 GTTTAGCTTATATGAGCTTCT
3512020 GTTTAGCT
1 GTTTAGCT
3512028 ATTTTAAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.18, C:0.14, G:0.18, T:0.50
Consensus pattern (21 bp):
GTTTAGCTTATATGAGCTTCT
Found at i:3512025 original size:42 final size:42
Alignment explanation
Indices: 3511973--3512127 Score: 143
Period size: 42 Copynumber: 3.7 Consensus size: 42
3511963 TCGTCTTTAC
* * *
3511973 TTTCCGTTTAGCTTTCATGAGCTTCTGTTTAA-CTTATATGAG
1 TTTCTGTTTAGCTTTCATGAGCTTCTGTTTAACCCT-TATGGG
* * **
3512015 TTTCTGTTTAGCTATT-TTAAGCTTCAATTTAACCCTTATGGG
1 TTTCTGTTTAGCT-TTCATGAGCTTCTGTTTAACCCTTATGGG
* * * * *
3512057 TTTCTGTTCAGCTTTTACGAGCTTCCGTTCAACCCTTATGGG
1 TTTCTGTTTAGCTTTCATGAGCTTCTGTTTAACCCTTATGGG
* * *
3512099 TTTTTGTTTAGCTCTCAAGAGCTTCTGTT
1 TTTCTGTTTAGCTTTCATGAGCTTCTGTT
3512128 CAGCCTTCGG
Statistics
Matches: 90, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
41 2 0.02
42 84 0.93
43 4 0.04
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.46
Consensus pattern (42 bp):
TTTCTGTTTAGCTTTCATGAGCTTCTGTTTAACCCTTATGGG
Found at i:3514210 original size:40 final size:40
Alignment explanation
Indices: 3514155--3514246 Score: 175
Period size: 40 Copynumber: 2.3 Consensus size: 40
3514145 ATTGCATTTG
*
3514155 GCACTAAGTGTGCGATTCAAAATAGCTTCGGCTATAAATA
1 GCACTAAGTGTGCGATTCAAAATAGCTTCAGCTATAAATA
3514195 GCACTAAGTGTGCGATTCAAAATAGCTTCAGCTATAAATA
1 GCACTAAGTGTGCGATTCAAAATAGCTTCAGCTATAAATA
3514235 GCACTAAGTGTG
1 GCACTAAGTGTG
3514247 TGAAATGGTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (40 bp):
GCACTAAGTGTGCGATTCAAAATAGCTTCAGCTATAAATA
Found at i:3514260 original size:40 final size:40
Alignment explanation
Indices: 3514155--3514289 Score: 159
Period size: 40 Copynumber: 3.4 Consensus size: 40
3514145 ATTGCATTTG
*
3514155 GCACTAAGTGTGCGATTCAAAATAGCTTCGGCTATAAATA
1 GCACTAAGTGTGCGAATCAAAATAGCTTCGGCTATAAATA
* *
3514195 GCACTAAGTGTGCGATTCAAAATAGCTTCAGCTATAAATA
1 GCACTAAGTGTGCGAATCAAAATAGCTTCGGCTATAAATA
* ***
3514235 GCACTAAGTGTGTGAAAT-GGTATAGCTTCGGCTAT--ATGA
1 GCACTAAGTGTGCG-AATCAAAATAGCTTCGGCTATAAAT-A
3514274 GGCACTAAGTGTGCGA
1 -GCACTAAGTGTGCGA
3514290 TACCGAGATA
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.02
39 2 0.02
40 78 0.93
41 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACTAAGTGTGCGAATCAAAATAGCTTCGGCTATAAATA
Found at i:3532868 original size:39 final size:40
Alignment explanation
Indices: 3532773--3533034 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
3532763 TTGAATGATG
*
3532773 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
3532811 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
3532852 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
3532891 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
3532930 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
3532969 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
3533008 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
3533035 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:3535922 original size:21 final size:21
Alignment explanation
Indices: 3535896--3535954 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
3535886 TAAATAACAA
*
3535896 TAAAATAATAAAATATCTTAT
1 TAAAATAATAAAATATCTAAT
**
3535917 TAAAATAAT-ATTTATCTAAT
1 TAAAATAATAAAATATCTAAT
*
3535937 TAATAATTATAAAATATC
1 TAA-AATAATAAAATATC
3535955 ATCAACATCA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 11 0.37
21 14 0.47
22 5 0.17
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAAATAATAAAATATCTAAT
Found at i:3537579 original size:25 final size:25
Alignment explanation
Indices: 3537544--3537592 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
3537534 TGCTAAACGG
* *
3537544 AGAGCATTAATGTGCTAATAATCAA
1 AGAGCACTAATGTACTAATAATCAA
3537569 AGAGCACTAATGTACTAATAATCA
1 AGAGCACTAATGTACTAATAATCA
3537593 GATAGCGCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (25 bp):
AGAGCACTAATGTACTAATAATCAA
Found at i:3538672 original size:23 final size:22
Alignment explanation
Indices: 3538612--3538676 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
3538602 CCTGATCAGT
3538612 ATACGACACATAAGTGCCTGAA
1 ATACGACACATAAGTGCCTGAA
* * *
3538634 A-A-AACACACGAGGTGCCTGAA
1 ATACGACACA-TAAGTGCCTGAA
3538655 ATACGACACATAAAGTGCCTGA
1 ATACGACACAT-AAGTGCCTGA
3538677 TCGACAAAGC
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 5 0.15
21 12 0.36
22 2 0.06
23 14 0.42
ACGTcount: A:0.42, C:0.23, G:0.20, T:0.15
Consensus pattern (22 bp):
ATACGACACATAAGTGCCTGAA
Found at i:3538992 original size:41 final size:38
Alignment explanation
Indices: 3538886--3538995 Score: 96
Period size: 38 Copynumber: 2.8 Consensus size: 38
3538876 TCGGATAGTT
* * *
3538886 CGAAGCAAAGTTGACACCCAATGTCTCATCG-GCCTAGC
1 CGAAGTAAAG-TGACACCCAGTGTCTCATCGAACCTAGC
** ** * *
3538924 CGAAGTAAAGTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAAAGTGACACCCAGTGTCTCATCGAACCTAGC
3538962 CGAAGTAAAATAGTGACACCCAGTGTCTCATCGA
1 CGAAGT--AA-AGTGACACCCAGTGTCTCATCGA
3538996 CTCAAGGTCG
Statistics
Matches: 55, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
37 15 0.27
38 19 0.35
40 2 0.04
41 19 0.35
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (38 bp):
CGAAGTAAAGTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:3541154 original size:41 final size:38
Alignment explanation
Indices: 3541048--3541157 Score: 96
Period size: 38 Copynumber: 2.8 Consensus size: 38
3541038 TCGGATAGTT
* * *
3541048 CGAAGCAAAGTTGACACCCAATGTCTCATCG-GCCTAGC
1 CGAAGTAAAG-TGACACCCAGTGTCTCATCGAACCTAGC
** ** * *
3541086 CGAAGTAAAGTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAAAGTGACACCCAGTGTCTCATCGAACCTAGC
3541124 CGAAGTAAAATAGTGACACCCAGTGTCTCATCGA
1 CGAAGT--AA-AGTGACACCCAGTGTCTCATCGA
3541158 CTCAAGGTCG
Statistics
Matches: 55, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
37 15 0.27
38 19 0.35
40 2 0.04
41 19 0.35
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (38 bp):
CGAAGTAAAGTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:3553648 original size:40 final size:40
Alignment explanation
Indices: 3553581--3553677 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
3553571 TAGCTATTGG
3553581 TGGCACTTAGTGTGCGAATCAACATAGCTTCGACTATATA
1 TGGCACTTAGTGTGCGAATCAACATAGCTTCGACTATATA
* * ** * * * *
3553621 TGGCACTTAGTGTGTGATTTGAGATAGCTTTGGCTATGTA
1 TGGCACTTAGTGTGCGAATCAACATAGCTTCGACTATATA
*
3553661 CGGCACTTAGTGTGCGA
1 TGGCACTTAGTGTGCGA
3553678 GATATCAAGT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGAATCAACATAGCTTCGACTATATA
Done.