Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold7
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: 6555642
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 349864 characters in sequence are not A, C, G, or T
File 21 of 37
Found at i:3660875 original size:33 final size:32
Alignment explanation
Indices: 3660833--3660900 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
3660823 CGTTACAAGC
*
3660833 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATTGGG-TGTATCGATA
*
3660866 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGGGTGTATCGATA
3660898 CAA
1 CAA
3660901 ATTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTGGGTGTATCGATA
Found at i:3660979 original size:20 final size:21
Alignment explanation
Indices: 3660932--3660986 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
3660922 GCCAATGACC
**
3660932 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
3660953 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
3660973 TGTATCGATACATT
1 TGTATCGATACATT
3660987 GTATCGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:3670964 original size:20 final size:19
Alignment explanation
Indices: 3670939--3671029 Score: 92
Period size: 20 Copynumber: 4.6 Consensus size: 19
3670929 TGCCAATTTC
*
3670939 ATGTATCGATACAATTGAGT
1 ATGTATCGATACAA-TGAAT
*
3670959 ATGTATCGATACAATGAAC
1 ATGTATCGATACAATGAAT
* *
3670978 ATGTATCGATACAAAGCATT
1 ATGTATCGATACAATG-AAT
* *
3670998 ATGTATCGATACATCTGGAT
1 ATGTATCGATACA-ATGAAT
*
3671018 GTGTATCGATAC
1 ATGTATCGATAC
3671030 TTTCTAAGGT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
19 18 0.31
20 40 0.68
21 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (19 bp):
ATGTATCGATACAATGAAT
Found at i:3677449 original size:22 final size:21
Alignment explanation
Indices: 3677421--3677480 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
3677411 AAAAACCCAG
3677421 AATGTATCGATACAATTTAAGC-
1 AATGTATCGATACAATTT-A-CT
3677443 AATGTATCGATAC-ATTTACT
1 AATGTATCGATACAATTTACT
*
3677463 TATGTATCGATACAATTT
1 AATGTATCGATACAATTT
3677481 TTTCCAGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
19 1 0.03
20 13 0.37
21 8 0.23
22 13 0.37
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACAATTTACT
Found at i:3682301 original size:19 final size:19
Alignment explanation
Indices: 3682274--3682325 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
3682264 CGATACATTA
* * *
3682274 TATCAATACATGTTTATTG
1 TATCGATACATGATAATTG
3682293 TATCGATACATGGATAATTG
1 TATCGATACAT-GATAATTG
3682313 TATCGATACATGA
1 TATCGATACATGA
3682326 AACTGGCAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TATCGATACATGATAATTG
Found at i:3692673 original size:49 final size:49
Alignment explanation
Indices: 3692617--3692751 Score: 216
Period size: 49 Copynumber: 2.8 Consensus size: 49
3692607 GAGAGGAGTG
** ** *
3692617 CCAATGTGCCAATTCAAAACCAGCGACATTGGGCTAAGGGAAAAGTGGA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAATGGA
3692666 CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAATGGA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAATGGA
*
3692715 CCAATGTGCTGATTCAAGGCTAGCGACATTGGGCTAA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAA
3692752 TAAAGGTGCC
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 80 1.00
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (49 bp):
CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAATGGA
Found at i:3693533 original size:28 final size:28
Alignment explanation
Indices: 3692905--3693520 Score: 749
Period size: 28 Copynumber: 21.9 Consensus size: 28
3692895 CACCGGCTTG
*
3692905 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
3692933 TGTAGGCTTTGAAAGGGTATGCAACTGACT
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACT
* *
3692963 TGTAGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
3692991 TGTGGGCTTTGAAAGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
3693019 TGTGGGCTTTGAAAAGG-TGCCACTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* ** *
3693047 TGTGGGCTTTGAAAGGGTGCCACCAACC
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
3693075 TGTGGTCTTTTG-AAGAGATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GATGCCACTGACT
* * *
3693104 TGGGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
3693132 TGTGGGCTTTGAAAGGATACCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
3693160 TGTGGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
3693188 TGTGGTCTTTTG-AAGAGATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GATGCCACTGACT
*
3693217 TG-GAGGCTTTGAAAGGATGCCACTAACT
1 TGTG-GGCTTTGAAAGGATGCCACTGACT
* * *
3693245 TATGGGCTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
3693273 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
3693301 TGTGGACTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
3693329 TGTAGGCTTTGAAAGGATGCCACT-ACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
3693356 TATGGGCTTTTG-AAGACATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GATGCCACTGACT
3693385 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
3693413 TGTGGGCTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
3693441 TATGGGCTTTGAAAGGATGCTACTGACC
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
3693469 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
3693497 TATGAGCTTTGAAAGGATGCCACT
1 TGTGGGCTTTGAAAGGATGCCACT
3693521 AACCAGTGGG
Statistics
Matches: 509, Mismatches: 63, Indels: 32
0.84 0.10 0.05
Matches are distributed among these distances:
27 16 0.03
28 404 0.79
29 65 0.13
30 24 0.05
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:3694785 original size:34 final size:33
Alignment explanation
Indices: 3694720--3694786 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
3694710 GCCAAGGGAA
*
3694720 TGTATCGATACATTTTTCTGTGTATCAATACAT
1 TGTATCGATACATTATTCTGTGTATCAATACAT
* *
3694753 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCAATACAT
3694787 CTAGGAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 13 0.43
34 17 0.57
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCAATACAT
Found at i:3695325 original size:10 final size:10
Alignment explanation
Indices: 3695299--3695327 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
3695289 TCCTTTAGCA
3695299 AAAAAAAC-C
1 AAAAAAACAC
3695308 AAAAAAACAC
1 AAAAAAACAC
3695318 AAAAAAACAC
1 AAAAAAACAC
3695328 TATTCCATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAC
Found at i:3697791 original size:20 final size:20
Alignment explanation
Indices: 3697766--3697804 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
3697756 AAGGGCAGAC
3697766 CCATTGTCTATGAGCACTTA
1 CCATTGTCTATGAGCACTTA
3697786 CCATTGTCTATGAGCACTT
1 CCATTGTCTATGAGCACTT
3697805 TAGGTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (20 bp):
CCATTGTCTATGAGCACTTA
Found at i:3706587 original size:20 final size:20
Alignment explanation
Indices: 3706554--3706608 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
3706544 AAAAAGACAG
3706554 AATGTATC-ACTACATTCATAC
1 AATGTATCGA-TACATT-ATAC
* *
3706575 -ATGTATCGATACATTTTTC
1 AATGTATCGATACATTATAC
3706594 AATGTATCGATACAT
1 AATGTATCGATACAT
3706609 CTAGGTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 2 0.07
20 27 0.90
21 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATTATAC
Found at i:3707179 original size:12 final size:11
Alignment explanation
Indices: 3707162--3707200 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
3707152 ATGTTTAGCT
3707162 GAAAAAAGAGA
1 GAAAAAAGAGA
3707173 GGAAAAAAGAGA
1 -GAAAAAAGAGA
3707185 -AAGAAAAGAGA
1 GAA-AAAAGAGA
3707196 GAAAA
1 GAAAA
3707201 TAGGTAGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.08
11 10 0.40
12 13 0.52
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (11 bp):
GAAAAAAGAGA
Found at i:3707190 original size:13 final size:13
Alignment explanation
Indices: 3707162--3707199 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
3707152 ATGTTTAGCT
*
3707162 GAAAAAAGAG-AG
1 GAAAAAAGAGAAA
3707174 GAAAAAAGAGAAA
1 GAAAAAAGAGAAA
*
3707187 GAAAAGAGAGAAA
1 GAAAAAAGAGAAA
3707200 ATAGGTAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
GAAAAAAGAGAAA
Found at i:3708362 original size:164 final size:161
Alignment explanation
Indices: 3707974--3708409 Score: 477
Period size: 161 Copynumber: 2.7 Consensus size: 161
3707964 TTGATTTTTG
* * * * * * *
3707974 GTAAAATGTTTATTATTTTTTTAATCTTTTATATTTCTTTGGGTATCTGTAGGGGTATAAAAGAT
1 GTAAAATGCTTATCATTTTTTTAATCTTTTACATTCCTATGGGTGTCCGTAGGGGTATAAAAGAT
* * * * * *
3708039 TTCAAAAACTTTTTGTATCTTTTTGGATTTTCCATTAAGGTACGAAACGATTTTTTTTCGAAAAT
66 TTCGAAAACTTTTTGTATCTTTTTGGAGTGTCCATTAAGGTAAGAAACGATTATTTTTCAAAAAT
3708104 AAATAAACAAAATTAAATTAATTCCCCATAA
131 AAATAAACAAAATTAAATTAATTCCCCATAA
* * * *
3708135 GTAAAGTGCTTATTATTTTTTTAATCTTTTATATTTCTATGGGTGTCCGTAGGGGTATAAAAGAT
1 GTAAAATGCTTATCATTTTTTTAATCTTTTACATTCCTATGGGTGTCCGTAGGGGTATAAAAGAT
* * * *
3708200 TTCGAAAACTTTTTGTATTTTTTTGG-GTGTCTATTAGGGTAAGAAATGA-TATTTTTCAAAAAT
66 TTCGAAAACTTTTTGTATCTTTTTGGAGTGTCCATTAAGGTAAGAAACGATTATTTTTCAAAAAT
* **
3708263 AAATAGATTAAATTAAATTAATTCTCCCATAA
131 AAATAAACAAAATTAAATTAATTC-CCCATAA
* * * * *
3708295 TTAAAATAAATG-TTAATCATTTTTTT-TTTTTTTCACATTCCTATGGGTGTTCGTAGGGATATA
1 GT---A-AAATGCTT-ATCATTTTTTTAATCTTTT-ACATTCCTATGGGTGTCCGTAGGGGTATA
* * * *
3708358 AAAGATTTTGAAAACTTTTTGTATCTTTTT-GATTTTCCATTAAGGTACGAAA
60 AAAGATTTCGAAAACTTTTTGTATCTTTTTGGAGTGTCCATTAAGGTAAGAAA
3708410 TAACATTTTT
Statistics
Matches: 233, Mismatches: 34, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
159 33 0.14
160 25 0.11
161 84 0.36
163 9 0.04
164 82 0.35
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (161 bp):
GTAAAATGCTTATCATTTTTTTAATCTTTTACATTCCTATGGGTGTCCGTAGGGGTATAAAAGAT
TTCGAAAACTTTTTGTATCTTTTTGGAGTGTCCATTAAGGTAAGAAACGATTATTTTTCAAAAAT
AAATAAACAAAATTAAATTAATTCCCCATAA
Found at i:3715664 original size:78 final size:78
Alignment explanation
Indices: 3715543--3715924 Score: 380
Period size: 78 Copynumber: 4.9 Consensus size: 78
3715533 ACTCACTTGT
* * * * *
3715543 AGTCATATCCTTCCTTCCTAAATACTAGATGATATTGGCGCATCACATAGCCAAAAAGGGTACTT
1 AGTCATATCCTTCCTTCCCAAATACTAGATGATATTAGTGCATCACATAGCCAAGAGGGGTACTT
*
3715608 ACCACTCACCCTC
66 CCCACTCACCCTC
*
3715621 AGTCATATCCTTCCTTCCCAAATACTAGATGATATTGGTGCATCACAT-GACCAAGAGGGGTACT
1 AGTCATATCCTTCCTTCCCAAATACTAGATGATATTAGTGCATCACATAG-CCAAGAGGGGTACT
* **
3715685 TCCCACACTTTCCT-
65 TCCCACTC-ACCCTC
* *
3715699 AGTCATATCCTTCCTTCCCAAATACTAGATGATATTAGTGCATCACATAGGCAAGAGGGGCACTT
1 AGTCATATCCTTCCTTCCCAAATACTAGATGATATTAGTGCATCACATAGCCAAGAGGGGTACTT
3715764 CCCACAT-ATCCC-C
66 CCCAC-TCA-CCCTC
* * * * * *
3715777 AATCATATCTTTCATTCCCAAATACTAGATGATATTAGTACTTCACATAGCCAAGAGGGGCACTT
1 AGTCATATCCTTCCTTCCCAAATACTAGATGATATTAGTGCATCACATAGCCAAGAGGGGTACTT
* * **
3715842 CTCACACATTCTC
66 CCCACTCACCCTC
* * * * * * * * * *
3715855 ACTCACATCCCTCTTTCCCGAACACTAAATGGTATT-GATGCATCACATGGCCATA-AGGGGCAC
1 AGTCATATCCTTCCTTCCCAAATACTAGATGATATTAG-TGCATCACATAGCCA-AGAGGGGTAC
3715918 TTCCCAC
64 TTCCCAC
3715925 AGGTTTCCTA
Statistics
Matches: 257, Mismatches: 37, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
77 3 0.01
78 249 0.97
79 5 0.02
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.27
Consensus pattern (78 bp):
AGTCATATCCTTCCTTCCCAAATACTAGATGATATTAGTGCATCACATAGCCAAGAGGGGTACTT
CCCACTCACCCTC
Found at i:3715831 original size:156 final size:154
Alignment explanation
Indices: 3715542--3715925 Score: 427
Period size: 156 Copynumber: 2.5 Consensus size: 154
3715532 CACTCACTTG
* * * * *
3715542 TAGTCATATCCTTCCTTCCTAAATACTAGATGATATTGGCGCATCACATAGCCAAAAAGGGTACT
1 TAGTCATATCCTTCCTTCCCAAATACTAGATGATATT-GTGCATCACATAGGC-AAAGGGGCACT
* * * * *
3715607 TACCAC-TCACCCTCAGTCATATCCTTCCTTCCCAAATACTAGATGATATTGGTGCATCACATGA
64 TCCCACATCACCCTCAATCATATCCTTCATTCCCAAATACTAGATGATATTAGTACATCACATGA
* *
3715671 CCAAGAGGGGTACTTCCCACACTTTCC
129 CCAAGAGGGGCACTTCCCACACATT-C
3715698 TAGTCATATCCTTCCTTCCCAAATACTAGATGATATTAGTGCATCACATAGGCAAGAGGGGCACT
1 TAGTCATATCCTTCCTTCCCAAATACTAGATGATATT-GTGCATCACATAGGCAA-AGGGGCACT
* *
3715763 TCCCACAT-ATCCC-CAATCATATCTTTCATTCCCAAATACTAGATGATATTAGTACTTCACAT-
64 TCCCACATCA-CCCTCAATCATATCCTTCATTCCCAAATACTAGATGATATTAGTACATCACATG
*
3715825 AGCCAAGAGGGGCACTTCTCACACATTC
128 A-CCAAGAGGGGCACTTCCCACACATTC
* * * * * * * *
3715853 TCACTCACATCCCTCTTTCCCGAACACTAAATGGTATTGATGCATCACAT-GGCCATAAGGGGCA
1 T-AGTCATATCCTTCCTTCCCAAATACTAGATGATATTG-TGCATCACATAGG-CA-AAGGGGCA
3715917 CTTCCCACA
62 CTTCCCACA
3715926 GGTTTCCTAT
Statistics
Matches: 196, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
155 8 0.04
156 183 0.93
157 5 0.03
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (154 bp):
TAGTCATATCCTTCCTTCCCAAATACTAGATGATATTGTGCATCACATAGGCAAAGGGGCACTTC
CCACATCACCCTCAATCATATCCTTCATTCCCAAATACTAGATGATATTAGTACATCACATGACC
AAGAGGGGCACTTCCCACACATTC
Found at i:3716399 original size:19 final size:19
Alignment explanation
Indices: 3716375--3716442 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
3716365 AATTCAACAA
3716375 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
3716394 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
3716409 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
3716426 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
3716443 TAAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:3716414 original size:13 final size:13
Alignment explanation
Indices: 3716396--3716420 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3716386 ACATAAGTTT
3716396 TGTATCGATACAA
1 TGTATCGATACAA
3716409 TGTATCGATACA
1 TGTATCGATACA
3716421 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3716418 original size:32 final size:32
Alignment explanation
Indices: 3716377--3716439 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3716367 TTCAACAATT
*
3716377 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
3716409 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
3716440 TAATAAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:3716526 original size:33 final size:33
Alignment explanation
Indices: 3716462--3716528 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
3716452 GCCAAGGAAA
*** *
3716462 TGTATCGATACATTTTTCTGTGTATCAATACAT
1 TGTATCGATACATGGATCTGTGAATCAATACAT
* *
3716495 TGTATCGATACATGGATCTTTGAATCGATACAT
1 TGTATCGATACATGGATCTGTGAATCAATACAT
3716528 T
1 T
3716529 TGGAAATTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGAATCAATACAT
Found at i:3718965 original size:51 final size:51
Alignment explanation
Indices: 3718905--3719124 Score: 208
Period size: 52 Copynumber: 4.3 Consensus size: 51
3718895 TTGTTTCTGA
* * * *
3718905 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATC
* * * *
3718956 GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTT-CATAATC
* * * * *
3719008 GGGGATACTCCAACCTC-AGTTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGA-TTTTATTTCCAAAACACTAATTTTTC-ATAATC
** * * * * *
3719060 GGGGATACTCCAACTTCGATTTTATTTCCAAAAATACCAAATTTTCACAATT
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAACACTAATTTTTCATAATC
*
3719112 GAGGATACTCCAA
1 GGGGATACTCCAA
3719125 TCTCGTTATT
Statistics
Matches: 138, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
51 38 0.28
52 86 0.62
53 14 0.10
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATC
Found at i:3719159 original size:28 final size:28
Alignment explanation
Indices: 3719114--3719185 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
3719104 TCACAATTGA
* * * **
3719114 GGATACTCCAATCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
3719142 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
3719170 GGACACTCCAACCCCG
1 GGATACTCCAACCCCG
3719186 ATTTTATTCT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:3719318 original size:78 final size:79
Alignment explanation
Indices: 3719139--3719360 Score: 272
Period size: 78 Copynumber: 2.8 Consensus size: 79
3719129 GTTATTTCAT
* *
3719139 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGACACTCCAACCCCGATTTTATTCTCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCGATTTTATTCTCAAAATAT
* * *
3719204 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * *
3719218 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTT-TTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCGATTTTATTCTCAAAAT-A
3719281 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * *
3719296 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG-TTATTA-TCTCCAAAAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCGATT-TTATTCT-CAAAAT
3719359 AT
64 AT
3719361 TAAATTTCTC
Statistics
Matches: 120, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
77 5 0.04
78 62 0.52
79 50 0.42
80 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCGATTTTATTCTCAAAATAT
CGATTTCTCACAAC
Found at i:3732468 original size:55 final size:55
Alignment explanation
Indices: 3732147--3733623 Score: 1909
Period size: 55 Copynumber: 26.3 Consensus size: 55
3732137 TCCGCTTTTT
* * * *
3732147 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCATACAAGATGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
3732202 AGTCCTCAAAGAGCAGGATGCCTTCCCCTTTTAAAGCCCACACAAGATGGTGGCA-CTTCC
1 AGTCCTCAAAGAGCAGGA------CACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
3732262 TAGTCCTCAAAGAGCAGGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 -AGTCCTCAAAGAGCAGGA------CACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * **
3732324 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
1 AGTCCTCAAAGAGCAGGAC-AC----CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
3732383 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* **
3732438 AGTCCTCAAAAAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
3732492 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
3732547 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* **
3732602 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
3732657 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
3732712 AGTCCTCAAAGAGCAGGACACCTATTAAGGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
*
3732767 AGTCCCCAAAGAGCAGGACA-CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
3732822 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGATGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
3732877 AGTCCTCAAAGAGCAGGATGCCTTCCCCTTTTAAAGCCCACACAAGATGGTGGCA-CTTCC
1 AGTCCTCAAAGAGCAGGA------CACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
3732937 TAGTCCTCAAAGAGCAGGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCT
1 -AGTCCTCAAAGAGCAGGA------CACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * **
3732998 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
1 AGTCCTCAAAGAGCAGGAC-AC----CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
3733057 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGTATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
**
3733112 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
3733166 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
3733221 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* **
3733276 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
3733331 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
3733386 AATCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
*
3733441 AGTCCCCAAAGAGCAGGACA-CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
3733496 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGCTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * * *
3733551 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-T
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* *
3733606 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
3733624 TACACTTTAT
Statistics
Matches: 1283, Mismatches: 100, Indels: 78
0.88 0.07 0.05
Matches are distributed among these distances:
54 173 0.13
55 781 0.61
56 20 0.02
58 2 0.00
59 63 0.05
60 55 0.04
61 185 0.14
62 4 0.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:3733436 original size:674 final size:675
Alignment explanation
Indices: 3732147--3733574 Score: 2725
Period size: 674 Copynumber: 2.1 Consensus size: 675
3732137 TCCGCTTTTT
*
3732147 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCATACAAGATGGTGGCACTTCCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGATGGTGGCACTTCCCAGTCCTCAAA
3732212 GAGCAGGATGCCTTCCCCTTTTAAAGCCCACACAAGATGGTGGCACTTCCTAGTCCTCAAAGAGC
66 GAGCAGGATGCCTTCCCCTTTTAAAGCCCACACAAGATGGTGGCACTTCCTAGTCCTCAAAGAGC
3732277 AGGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGA
131 AGGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGA
3732342 CGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCCCAAAGAGCAGGACACCTT
196 CGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCCCAAAGAGCAGGACACCTT
3732407 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGACACCTTTTAAAGCCCA
261 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGACACCTTTTAAAGCCCA
3732472 CACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGT
326 CACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGT
3732537 GGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
391 GGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
3732602 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
456 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
*
3732667 GAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
521 GAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACA
*
3732732 CCTATTAAGGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACTTTTCAAAG
586 CCTATTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACTTTTCAAAG
3732797 CCCACACAAGTTGGTGGCATTTTCC
651 CCCACACAAGTTGGTGGCATTTTCC
3732822 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGATGGTGGCACTTCCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGATGGTGGCACTTCCCAGTCCTCAAA
3732887 GAGCAGGATGCCTTCCCCTTTTAAAGCCCACACAAGATGGTGGCACTTCCTAGTCCTCAAAGAGC
66 GAGCAGGATGCCTTCCCCTTTTAAAGCCCACACAAGATGGTGGCACTTCCTAGTCCTCAAAGAGC
*
3732952 AGGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCTAGTCCTCAAAGAGCGGGA
131 AGGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGA
3733016 CGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCCCAAAGAGCAGGACACCTT
196 CGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCCCAAAGAGCAGGACACCTT
* *
3733081 TCAAAGCCCACACAAGTTGGTGGTATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCA
261 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGACACCTTTTAAAGCCCA
3733146 CACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGT
326 CACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGT
*
3733211 GGCATTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
391 GGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
3733276 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
456 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
3733341 GAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACA
521 GAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACA
*
3733406 CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACTTTTCAAAG
586 CCTATTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACTTTTCAAAG
3733471 CCCACACAAGTTGGTGGCATTTTCC
651 CCCACACAAGTTGGTGGCATTTTCC
* * *
3733496 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGCTGGTGGCACCTT-TCAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGATGGTGGCA-CTTCCCAGTCCTCAA
*
3733560 AGAGCAGGACGCCTT
65 AGAGCAGGATGCCTT
3733575 TCAAAGCCCA
Statistics
Matches: 740, Mismatches: 12, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
674 567 0.77
675 173 0.23
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (675 bp):
AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGATGGTGGCACTTCCCAGTCCTCAAA
GAGCAGGATGCCTTCCCCTTTTAAAGCCCACACAAGATGGTGGCACTTCCTAGTCCTCAAAGAGC
AGGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGA
CGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCCCAAAGAGCAGGACACCTT
TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGACACCTTTTAAAGCCCA
CACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGT
GGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
GAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACA
CCTATTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACTTTTCAAAG
CCCACACAAGTTGGTGGCATTTTCC
Found at i:3734300 original size:19 final size:19
Alignment explanation
Indices: 3734276--3734343 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
3734266 AATTCAACAA
3734276 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
3734295 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
3734310 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
3734327 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
3734344 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:3734315 original size:13 final size:13
Alignment explanation
Indices: 3734297--3734321 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3734287 ACATAAGTTT
3734297 TGTATCGATACAA
1 TGTATCGATACAA
3734310 TGTATCGATACA
1 TGTATCGATACA
3734322 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3734319 original size:32 final size:32
Alignment explanation
Indices: 3734278--3734340 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3734268 TTCAACAATT
*
3734278 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
3734310 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
3734341 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:3734401 original size:13 final size:13
Alignment explanation
Indices: 3734383--3734408 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3734373 CATTTTTCTG
3734383 TGTATCGATACAT
1 TGTATCGATACAT
3734396 TGTATCGATACAT
1 TGTATCGATACAT
3734409 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3734405 original size:33 final size:33
Alignment explanation
Indices: 3734363--3734429 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3734353 GCCAAGGAAA
***
3734363 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
3734396 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
3734429 T
1 T
3734430 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:3736991 original size:52 final size:51
Alignment explanation
Indices: 3736810--3736997 Score: 223
Period size: 52 Copynumber: 3.6 Consensus size: 51
3736800 TTGTTTCCGA
* * * * *
3736810 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTCCATAATC
* * * *
3736861 GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAA-TTTTCCATAATC
* * * * *
3736913 GGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTCC-ATAATC
*
3736965 GGGGATACTCCAACTCCGATTTTATTTCCAAAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAA
3736998 ATACCAAATT
Statistics
Matches: 115, Mismatches: 20, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
51 38 0.33
52 77 0.67
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTCCATAATC
Found at i:3737077 original size:28 final size:27
Alignment explanation
Indices: 3737021--3737089 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
3737011 ACAATTAAGA
*
3737021 ATACTCCAACCTCGTTAATTCATCGGGG
1 ATACTCCAACCCCGTTAATT-ATCGGGG
*
3737049 ATACTCCAACCCCGTTACTT-TCGAAGGG
1 ATACTCCAACCCCGTTAATTATCG--GGG
*
3737077 ACACTCCAACCCC
1 ATACTCCAACCCC
3737090 AATTTTATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 3 0.08
28 33 0.92
ACGTcount: A:0.26, C:0.36, G:0.14, T:0.23
Consensus pattern (27 bp):
ATACTCCAACCCCGTTAATTATCGGGG
Found at i:3737224 original size:78 final size:80
Alignment explanation
Indices: 3737044--3737254 Score: 243
Period size: 78 Copynumber: 2.7 Consensus size: 80
3737034 GTTAATTCAT
* * *
3737044 CGGGGATACTCCAACCCCGTTACTTTCGAAGGGACACTCCAACCCCAATT-TTATTCCCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCGATTATTATTCCCAAAATA
* * *
3737108 TTGATTTCTCATAAT
66 TCGATTTCTCACAAC
* * * * *
3737123 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTATT-TT-TC-TAATC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCGATTATTATTCCCAAAAT-
3737185 ATCGATTTCTCACAAC
65 ATCGATTTCTCACAAC
* * * *
3737201 CGGGGATACTCCAGCCCCATTATTTTCAAGGGAACACTCCAACCCCG-TTATTAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCGATTATTAT
3737255 CTGCAAAATA
Statistics
Matches: 111, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
77 8 0.07
78 55 0.50
79 46 0.41
80 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.30
Consensus pattern (80 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCGATTATTATTCCCAAAATA
TCGATTTCTCACAAC
Found at i:3738629 original size:43 final size:43
Alignment explanation
Indices: 3738581--3739356 Score: 367
Period size: 43 Copynumber: 18.2 Consensus size: 43
3738571 CTGCCCGTTA
3738581 GCTTAGACCCAAGAGACTTCTTTTATCTTTCATCAGCCCATCG
1 GCTTAGACCCAAGAGACTTCTTTTATCTTTCATCAGCCCATCG
* * * * * *
3738624 GCTTAGACCCGAGAGACCTCTTTTATCTTTCATTTA-CTCGTCA
1 GCTTAGACCCAAGAGACTTCTTTTATCTTTCA-TCAGCCCATCG
** * * * * *
3738667 GCTTAGACCCGGGAGACCTCTTTTATCTTTCGTCTGCTCACTTG
1 GCTTAGACCCAAGAGACTTCTTTTATCTTTCATCAGCCCA-TCG
* * * * * * * *
3738711 GTTTCGACTCGAGAGACCTCATTTATTTTTCCA-CAGCCCATTG
1 GCTTAGACCCAAGAGACTTCTTTTATCTTT-CATCAGCCCATCG
* ** * *
3738754 GCTTAG-----GGAGACCCCTTTTATTTTTCATCGGCCCATC-
1 GCTTAGACCCAAGAGACTTCTTTTATCTTTCATCAGCCCATCG
* * * * * *
3738791 ACTT-GACCCGAGAGACCTCTTTTATCTTTCATCAGCTCGTTG
1 GCTTAGACCCAAGAGACTTCTTTTATCTTTCATCAGCCCATCG
* * * * *
3738833 GCTTAGACCCACGAGACCTCATTTATCTTTCATCGGCCAATCG
1 GCTTAGACCCAAGAGACTTCTTTTATCTTTCATCAGCCCATCG
* * * *
3738876 GCTTAGACCTAGGAAACCTTC-TTTATCTTTCATCTA-CCAATCG
1 GCTTAGACCCAAGAGA-CTTCTTTTATCTTTCATC-AGCCCATCG
* * *
3738919 GCTTAGACCCAAGAAACCTCCTTTATCTTTCATC-GACCCATCG
1 GCTTAGACCCAAGAGACTTCTTTTATCTTTCATCAG-CCCATCG
* * * *
3738962 AG-TTAGACCC-AGAAGACCTCCTTTACCTTTCGTCTA-CCCATCG
1 -GCTTAGACCCAAG-AGACTTCTTTTATCTTTCATC-AGCCCATCG
* * * * * **
3739005 ACTTAGACCTAGGAAACTTCTTTTATCTTTCGTTTGCCCATCG
1 GCTTAGACCCAAGAGACTTCTTTTATCTTTCATCAGCCCATCG
* *** * ** *
3739048 GCTTGGACCTGGGAAACTT-TCTTTATCTTTCATCTA-CCTGTCA
1 GCTTAGACCCAAGAGACTTCT-TTTATCTTTCATC-AGCCCATCG
* * ** * ***
3739091 ACTTAGACTCGGGAGACTTTTTTTATCTTTCATCTA-CTTGTCG
1 GCTTAGACCCAAGAGACTTCTTTTATCTTTCATC-AGCCCATCG
* * * * * * * * * *
3739134 ACTTAGACCAAAAAGGCTTCCTTTATCTTTCGTCTGCTCGTCA
1 GCTTAGACCCAAGAGACTTCTTTTATCTTTCATCAGCCCATCG
* * * **
3739177 GCTTAGACCTAAAAGACTTCCTTTATCTTTCATCAGCCTGTCG
1 GCTTAGACCCAAGAGACTTCTTTTATCTTTCATCAGCCCATCG
* * *
3739220 GTTTAGACTCGAA-AGACTTAC--TTATCTTTCATCAGCCCATTG
1 GCTTAGAC-CCAAGAGACTT-CTTTTATCTTTCATCAGCCCATCG
*** *
3739262 GCTTAGACCTGGGAGACTTCCTTTATCTTTCATCTA-CCCATCG
1 GCTTAGACCCAAGAGACTTCTTTTATCTTTCATC-AGCCCATCG
* * *
3739305 ACTTAGA-CCAGGGAGACTTCTTTTATCTTTCATCTA-CCCTTCG
1 GCTTAGACCCA-AGAGACTTCTTTTATCTTTCATC-AGCCCATCG
3739348 GCTTAGACC
1 GCTTAGACC
3739357 TGGTAAATTC
Statistics
Matches: 578, Mismatches: 119, Indels: 71
0.75 0.15 0.09
Matches are distributed among these distances:
36 1 0.00
37 5 0.01
38 23 0.04
41 26 0.04
42 42 0.07
43 436 0.75
44 44 0.08
45 1 0.00
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (43 bp):
GCTTAGACCCAAGAGACTTCTTTTATCTTTCATCAGCCCATCG
Found at i:3739097 original size:129 final size:130
Alignment explanation
Indices: 3738811--3739356 Score: 407
Period size: 129 Copynumber: 4.2 Consensus size: 130
3738801 AGAGACCTCT
* * * * ** *
3738811 TTTATCTTTCATC-AGCTCGTTGGCTTAGACCCACG-AGACCTCATTTATCTTTCATCGGCCAAT
1 TTTATCTTTCATCTACCT-GTCGACTTAGACCCA-GAAGACCTCCTTTATCTTTCATCTACCCAT
* * * ** *
3738874 CGGCTTAGACCTAGGAAACCTT-CTTTATCTTTCATCTACCAATCGGCTTAGACCCAAGAAACCT
64 CGACTTAGACCTAGGAAAGCTTCCTTTATCTTTCATCTACCCATCGGCTTAGACCTGAGAAACTT
3738938 CC
129 CC
* ** * * *
3738940 TTTATCTTTCATCGACCCATCGAGTTAGACCCAGAAGACCTCCTTTACCTTTCGTCTACCCATCG
1 TTTATCTTTCATCTACCTGTCGACTTAGACCCAGAAGACCTCCTTTATCTTTCATCTACCCATCG
* * * * * * *
3739005 ACTTAGACCTAGGAAA-CTTCTTTTATCTTTCGTTTGCCCATCGGCTTGGACCTGGGAAACTTTC
66 ACTTAGACCTAGGAAAGCTTCCTTTATCTTTCATCTACCCATCGGCTTAGACCTGAGAAACTTCC
* * * * * ** ***
3739069 TTTATCTTTCATCTACCTGTCAACTTAGACTCGGGAGACTTTTTTTATCTTTCATCTACTTGTCG
1 TTTATCTTTCATCTACCTGTCGACTTAGACCCAGAAGACCTCCTTTATCTTTCATCTACCCATCG
* * * * * * *
3739134 ACTTAGACC-A-AAAAGGCTTCCTTTATCTTTCGTCTGCTCGTCAGCTTAGACCT-AAAAGACTT
66 ACTTAGACCTAGGAAA-GCTTCCTTTATCTTTCATCTACCCATCGGCTTAGACCTGAGAA-ACTT
3739196 CC
129 CC
** * * *
3739198 TTTATCTTTCATC-AGCCTGTCGGTTTAGACTC-GAAAGACTTAC-TTATCTTTCATC-AGCCCA
1 TTTATCTTTCATCTA-CCTGTCGACTTAGACCCAG-AAGACCTCCTTTATCTTTCATCTA-CCCA
* * * * * * * *
3739259 TTGGCTTAGACCTGGGAGA-CTTCCTTTATCTTTCATCTACCCATCGACTTAGACCAGGGAGACT
63 TCGACTTAGACCTAGGAAAGCTTCCTTTATCTTTCATCTACCCATCGGCTTAGACCTGAGAAACT
*
3739323 TCT
128 TCC
*
3739326 TTTATCTTTCATCTACCCT-TCGGCTTAGACC
1 TTTATCTTTCATCTA-CCTGTCGACTTAGACC
3739357 TGGTAAATTC
Statistics
Matches: 326, Mismatches: 78, Indels: 27
0.76 0.18 0.06
Matches are distributed among these distances:
127 4 0.01
128 90 0.28
129 228 0.70
130 4 0.01
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.35
Consensus pattern (130 bp):
TTTATCTTTCATCTACCTGTCGACTTAGACCCAGAAGACCTCCTTTATCTTTCATCTACCCATCG
ACTTAGACCTAGGAAAGCTTCCTTTATCTTTCATCTACCCATCGGCTTAGACCTGAGAAACTTCC
Found at i:3739398 original size:42 final size:41
Alignment explanation
Indices: 3739327--3739480 Score: 150
Period size: 42 Copynumber: 3.7 Consensus size: 41
3739317 GAGACTTCTT
* * * *
3739327 TTATCTTTCATCTACCCT-TCGGCTTAGACCTGGTAAATTCCC
1 TTATCTTTCGTCTA-CCTGTCAGCTCAGACCTGG-AAACTCCC
* * *
3739369 TTATCTTTTGTCTACTTGTCAGCTCAGACCCAGGAAACT-CC
1 TTATCTTTCGTCTACCTGTCAGCTCAGA-CCTGGAAACTCCC
* * * *
3739410 TTATCTTACATCTACCTGTCAGCTCACACCTGGGAAACTCTC
1 TTATCTTTCGTCTACCTGTCAGCTCAGACCT-GGAAACTCCC
*
3739452 TTATCTTTCGTCTACCTGTCAGCTTAGAC
1 TTATCTTTCGTCTACCTGTCAGCTCAGAC
3739481 TTAAGAGACT
Statistics
Matches: 90, Mismatches: 18, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
40 2 0.02
41 34 0.38
42 50 0.56
43 4 0.04
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.36
Consensus pattern (41 bp):
TTATCTTTCGTCTACCTGTCAGCTCAGACCTGGAAACTCCC
Found at i:3739424 original size:41 final size:42
Alignment explanation
Indices: 3739379--3739480 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 42
3739369 TTATCTTTTG
*
3739379 TCTACTTGTCAGCTCAGACCCAGGAAACTC-CTTATCTTACA
1 TCTACCTGTCAGCTCAGACCCAGGAAACTCTCTTATCTTACA
* ** * *
3739420 TCTACCTGTCAGCTCACACCTGGGAAACTCTCTTATCTTTCG
1 TCTACCTGTCAGCTCAGACCCAGGAAACTCTCTTATCTTACA
*
3739462 TCTACCTGTCAGCTTAGAC
1 TCTACCTGTCAGCTCAGAC
3739481 TTAAGAGACT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 26 0.50
42 26 0.50
ACGTcount: A:0.23, C:0.32, G:0.14, T:0.31
Consensus pattern (42 bp):
TCTACCTGTCAGCTCAGACCCAGGAAACTCTCTTATCTTACA
Found at i:3739441 original size:83 final size:83
Alignment explanation
Indices: 3739327--3739480 Score: 202
Period size: 83 Copynumber: 1.9 Consensus size: 83
3739317 GAGACTTCTT
* * * * * * * *
3739327 TTATCTTTCATCTACCCTTCGGCTTAGACCTGGTAAATTCCCTTATCTTTTGTCTACTTGTCAGC
1 TTATCTTACATCTACCCTTCAGCTCACACCTGGGAAACTCCCTTATCTTTCGTCTACCTGTCAGC
3739392 TCAGACCCAGGAAACTCC
66 TCAGACCCAGGAAACTCC
*
3739410 TTATCTTACATCTA-CCTGTCAGCTCACACCTGGGAAACTCTCTTATCTTTCGTCTACCTGTCAG
1 TTATCTTACATCTACCCT-TCAGCTCACACCTGGGAAACTCCCTTATCTTTCGTCTACCTGTCAG
*
3739474 CTTAGAC
65 CTCAGAC
3739481 TTAAGAGACT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
82 3 0.05
83 57 0.95
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.36
Consensus pattern (83 bp):
TTATCTTACATCTACCCTTCAGCTCACACCTGGGAAACTCCCTTATCTTTCGTCTACCTGTCAGC
TCAGACCCAGGAAACTCC
Found at i:3740652 original size:21 final size:21
Alignment explanation
Indices: 3740628--3740681 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
3740618 TTTCAAAAAG
*
3740628 TGTTTTTAAGTTATGAA-CAAA
1 TGTTTTTAAGTT-TAAATCAAA
*
3740649 TGTTTTTGAGCTTTAAATCAAA
1 TGTTTTTAAG-TTTAAATCAAA
*
3740671 TATTTTTAAGT
1 TGTTTTTAAGT
3740682 AAAAATACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (21 bp):
TGTTTTTAAGTTTAAATCAAA
Found at i:3742100 original size:21 final size:21
Alignment explanation
Indices: 3742074--3742151 Score: 104
Period size: 21 Copynumber: 3.7 Consensus size: 21
3742064 AAAATTATCC
3742074 AAATGTATCGATACATTTGTA
1 AAATGTATCGATACATTTGTA
*
3742095 AAATGTATCGATACATTTGTG
1 AAATGTATCGATACATTTGTA
* * *
3742116 GAATGTATCGATACA-ATCTA
1 AAATGTATCGATACATTTGTA
3742136 CAAATGTATCGATACA
1 -AAATGTATCGATACA
3742152 GGGTTCCAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
20 2 0.04
21 48 0.96
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (21 bp):
AAATGTATCGATACATTTGTA
Found at i:3742280 original size:13 final size:13
Alignment explanation
Indices: 3742262--3742287 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3742252 CATTTTTCTG
3742262 TGTATCGATACAT
1 TGTATCGATACAT
3742275 TGTATCGATACAT
1 TGTATCGATACAT
3742288 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3742305 original size:34 final size:33
Alignment explanation
Indices: 3742242--3742308 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
3742232 GCCAAGGGAA
*
3742242 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
3742275 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
3742309 CTAGGAAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:3745309 original size:52 final size:52
Alignment explanation
Indices: 3745196--3745316 Score: 181
Period size: 52 Copynumber: 2.3 Consensus size: 52
3745186 TGCATGTATC
* **
3745196 GATAGTGTATCGATACATCTGGGCAAATTTGCTTGCATGTATCGATACATTT
1 GATAGTGTATCGATACATCTAGGCAAATTTGCTTGCATGTATCGATACATAA
* *
3745248 TATAATGTATCGATACATCTAGGCAAATTTGCTTGCATGTATCGATACA-AA
1 GATAGTGTATCGATACATCTAGGCAAATTTGCTTGCATGTATCGATACATAA
3745299 GATCAGTGTATCGATACA
1 GAT-AGTGTATCGATACA
3745317 ATGTATCGAT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 2 0.03
52 59 0.97
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (52 bp):
GATAGTGTATCGATACATCTAGGCAAATTTGCTTGCATGTATCGATACATAA
Found at i:3745323 original size:13 final size:13
Alignment explanation
Indices: 3745305--3745329 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3745295 CAAAGATCAG
3745305 TGTATCGATACAA
1 TGTATCGATACAA
3745318 TGTATCGATACA
1 TGTATCGATACA
3745330 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3745418 original size:33 final size:33
Alignment explanation
Indices: 3745376--3745438 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
3745366 GCTTAAATTG
3745376 TATCGATACAAAAAAATATGTATCGATACATTA
1 TATCGATACAAAAAAATATGTATCGATACATTA
* ***
3745409 TATCGATACAACATTTTATGTATCGATACA
1 TATCGATACAAAAAAATATGTATCGATACA
3745439 AATCGTTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (33 bp):
TATCGATACAAAAAAATATGTATCGATACATTA
Found at i:3746365 original size:55 final size:52
Alignment explanation
Indices: 3746305--3746418 Score: 138
Period size: 52 Copynumber: 2.1 Consensus size: 52
3746295 CGATATTGGG
* * *
3746305 CTTAAAGATGAGAAAAAGGATGTCAAGGTGCTGATTCAAGGCCAGCTACATTGAA
1 CTTAAAGATG-G-AAAAGG-TGGCAAGATACTGATTCAAGGCCAGCTACATTGAA
* * *
3746360 CTTAAAGATGGAAAAGGTGGCAATATACTGATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGGAAAAGGTGGCAAGATACTGATTCAAGGCCAGCTACATTGAA
*
3746412 CATAAAG
1 CTTAAAG
3746419 GTGCCAATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
52 35 0.67
53 6 0.12
54 1 0.02
55 10 0.19
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (52 bp):
CTTAAAGATGGAAAAGGTGGCAAGATACTGATTCAAGGCCAGCTACATTGAA
Found at i:3746420 original size:43 final size:43
Alignment explanation
Indices: 3746372--3746865 Score: 482
Period size: 43 Copynumber: 11.0 Consensus size: 43
3746362 TAAAGATGGA
* * *
3746372 AAAGGTGGCAATATACTGATTCAAGGCCAGCTATATTGGACAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
3746415 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
3746458 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTT
1 -AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCT-ATATTGGACTT
* *
3746507 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
3746550 AAAGATGAAGATGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
3746599 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
3746642 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
3746691 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
3746734 AAAGGTGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T
1 AAA---G--G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
3746782 -AAGGCCATGTGCAATATG--GA-TC-A-GCTAGCGATATTGGACTT
1 AAAGG---TG-CCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
3746823 AAAGGTGCCAATGTGCTGATTCCAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
3746866 TGTCGTAACG
Statistics
Matches: 382, Mismatches: 33, Indels: 72
0.78 0.07 0.15
Matches are distributed among these distances:
38 6 0.02
39 2 0.01
40 17 0.04
41 4 0.01
42 8 0.02
43 161 0.42
44 14 0.04
45 10 0.03
46 7 0.02
47 5 0.01
48 12 0.03
49 136 0.36
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:3746512 original size:92 final size:92
Alignment explanation
Indices: 3746332--3746781 Score: 792
Period size: 92 Copynumber: 4.9 Consensus size: 92
3746322 GGATGTCAAG
* * * *
3746332 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGGCAATATACTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAG
* *
3746397 GCCAGCTATATTGGACATAAAGGTGCCAAT
63 GCCAGCGATATTGGACTTAAAGGTGCCAAT
3746427 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
*
3746492 AGTGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
*
3746519 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCTAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
3746584 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
3746611 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
3746676 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
*
3746703 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
3746768 AGCGATATTGGACT
66 AGCGATATTGGACT
3746782 AAGGCCATGT
Statistics
Matches: 344, Mismatches: 11, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
92 307 0.89
94 1 0.00
95 36 0.10
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTTAAAGGTGCCAAT
Found at i:3750005 original size:52 final size:51
Alignment explanation
Indices: 3749927--3750075 Score: 235
Period size: 52 Copynumber: 2.9 Consensus size: 51
3749917 CAAAATATGA
3749927 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
3749979 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
**
3750031 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
3750076 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.96
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:3750082 original size:13 final size:13
Alignment explanation
Indices: 3750064--3750088 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3750054 CAAAGATCAG
3750064 TGTATCGATACAA
1 TGTATCGATACAA
3750077 TGTATCGATACA
1 TGTATCGATACA
3750089 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3750166 original size:33 final size:33
Alignment explanation
Indices: 3750129--3750195 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3750119 AGTAGCTTGA
3750129 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3750162 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3750195 A
1 A
3750196 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:3750169 original size:13 final size:13
Alignment explanation
Indices: 3750151--3750175 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3750141 CAAAAAAATA
3750151 TGTATCGATACAT
1 TGTATCGATACAT
3750164 TGTATCGATACA
1 TGTATCGATACA
3750176 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3750977 original size:52 final size:50
Alignment explanation
Indices: 3750911--3751094 Score: 211
Period size: 52 Copynumber: 3.7 Consensus size: 50
3750901 GATGAAGATG
* *
3750911 CCAATGTGCTGATTCAAGGCCAGCGATATAGGACTTAAGGATAACAAAGGCA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGG-T-ACAAAGGCA
* **
3750963 CCAATATGATGATTCAAGGCCAGCGATATTGGACTT--GG-----AGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGGTACAAAGGCA
* * *
3751006 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTACCAAAGGCA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGGTA-CAAAGGCA
3751058 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
3751095 GAAGAAGACG
Statistics
Matches: 109, Mismatches: 14, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
43 35 0.32
46 2 0.02
50 2 0.02
51 1 0.01
52 69 0.63
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (50 bp):
CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGGTACAAAGGCA
Found at i:3751072 original size:95 final size:95
Alignment explanation
Indices: 3750909--3751093 Score: 309
Period size: 95 Copynumber: 1.9 Consensus size: 95
3750899 AAGATGAAGA
*
3750909 TGCCAATGTGCTGATTCAAGGCCAGCGATATAGGACTTAAGGATAACAAAGGCACCAATATGATG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATAGGACTTAAGGATAACAAAGGCACCAATATGATG
3750974 ATTCAAGGCCAGCGATATTGGACTTGGAGG
66 ATTCAAGGCCAGCGATATTGGACTTGGAGG
* * * *
3751004 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGG-TACCAAAGGCACCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATAGGACTT-AAGGATAACAAAGGCACCAATATGAT
3751068 GATTCAAGGCCAGCGATATTGGACTT
65 GATTCAAGGCCAGCGATATTGGACTT
3751094 AGAAGAAGAC
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
95 80 0.95
96 4 0.05
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.23
Consensus pattern (95 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATAGGACTTAAGGATAACAAAGGCACCAATATGATG
ATTCAAGGCCAGCGATATTGGACTTGGAGG
Found at i:3751217 original size:56 final size:58
Alignment explanation
Indices: 3751116--3751387 Score: 315
Period size: 56 Copynumber: 4.7 Consensus size: 58
3751106 CACCAACTTG
* *
3751116 TGTGGGCTTTTAAAAGGATTG-CA-TCAACTTGTGTGCTTTT-GAAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAA-GATTGCCACT-AACTTGTGGGCTTTTAAAAGGTTGCCACTGACT
*
3751173 TGTGGGCTTTT-AAAGATTGCCACTGACTTGTGGGCTTTT-AAAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAAGATTGCCACTAACTTGTGGGCTTTTAAAAGGTTGCCACTGACT
* *
3751229 TGTGGGCTTTTGAAAAGAGATGCCACTAACTTGTGGGATTTTGAAAAGGTTGCCACTGACT
1 TGTGGGCTTTT-AAAAGA-TTGCCACTAACTTGTGGGCTTTT-AAAAGGTTGCCACTGACT
* * *
3751290 TGTGGGC--TTAAAAGATTGCCACTGACTTGTGGGCTTTTTGAAAAGAGATGCCACTAACT
1 TGTGGGCTTTTAAAAGATTGCCACTAACTTGTGGGC-TTTT-AAAAG-GTTGCCACTGACT
* **
3751349 TGTGGGATTTTGAAAAGGGTGCCACTAACTTGTGGGCTT
1 TGTGGGCTTTT-AAAAGATTGCCACTAACTTGTGGGCTT
3751388 AAAAGGAAAA
Statistics
Matches: 188, Mismatches: 15, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
55 5 0.03
56 45 0.24
57 28 0.15
58 21 0.11
59 39 0.21
61 28 0.15
62 22 0.12
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (58 bp):
TGTGGGCTTTTAAAAGATTGCCACTAACTTGTGGGCTTTTAAAAGGTTGCCACTGACT
Found at i:3751298 original size:89 final size:89
Alignment explanation
Indices: 3751116--3751668 Score: 415
Period size: 89 Copynumber: 6.2 Consensus size: 89
3751106 CACCAACTTG
* * *
3751116 TGTGGGCTTTTAAAAGGATTG-CA-TCAACTTGTGTGCTTTTG--AAG-GTTGCCACTGACTTGT
1 TGTGGGCTTTT-AAAGG-TTGCCACT-GACTTGTGGGCTTTTGAAAAGAGATGCCACTGACTTGT
*
3751176 GGGCTTTT--AAA-GATTGCCACTGACT
63 GGGATTTTGAAAAGGA-TGCCACTGACT
*
3751201 TGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGAGATGCCACTAACTTGTGGG
1 TGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGAGATGCCACTGACTTGTGGG
*
3751266 ATTTTGAAAAGGTTGCCACTGACT
66 ATTTTGAAAAGGATGCCACTGACT
* * *
3751290 TGTGGGC-TTAAAAGATTGCCACTGACTTGTGGGCTTTTTGAAAAGAGATGCCACTAACTTGTGG
1 TGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGC-TTTTGAAAAGAGATGCCACTGACTTGTGG
* *
3751354 GATTTTGAAAAGGGTGCCACTAACT
65 GATTTTGAAAAGGATGCCACTGACT
* * * * * **
3751379 TGTGGGC-TTAAAAGGAAAAAGAGTGCTA-TAGAGTTGTGAGC-TTACAAAAGAAAAAGAGTGCC
1 TGTGGGCTTTTAAA-G-----G-TTGCCACT-GACTTGTGGGCTTTTGAAAAG----AGA-TGCC
* * * *
3751441 ACGGAGTTGT-GGACTTTGGAAAA-GATGCCTACCGACT
53 ACTGACTTGTGGGA-TTTTGAAAAGGATGCC-ACTGACT
** * * *
3751478 TGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGC-TTTGAAAA-AGATGCCACCGACTTGTG
1 TGTGGGCTT--TTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGAGATGCCACTGACTTGTG
* ** * *
3751541 GGCTTCGGAAAAGGGTGCCACTGATT
64 GGATTTTGAAAAGGATGCCACTGACT
* * * * *
3751567 TATGGGC-TTTGAAGGTTGCCACCGATTTGTGGGCTTTTGAAAAG-GGTGCCACTGACTTGTGGG
1 TGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGAGATGCCACTGACTTGTGGG
* *
3751630 -CTTTGAAAAAGATGCCACTGACT
66 ATTTTGAAAAGGATGCCACTGACT
*
3751653 TGTGGGCTTTTGAAGG
1 TGTGGGCTTTTAAAGG
3751669 GTGAGGAATG
Statistics
Matches: 383, Mismatches: 52, Indels: 64
0.77 0.10 0.13
Matches are distributed among these distances:
83 3 0.01
84 21 0.05
85 12 0.03
86 47 0.12
87 54 0.14
88 26 0.07
89 117 0.31
90 12 0.03
94 7 0.02
95 21 0.05
96 15 0.04
98 11 0.03
99 31 0.08
100 1 0.00
101 1 0.00
102 4 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (89 bp):
TGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGAGATGCCACTGACTTGTGGG
ATTTTGAAAAGGATGCCACTGACT
Found at i:3751448 original size:35 final size:34
Alignment explanation
Indices: 3751361--3751451 Score: 94
Period size: 35 Copynumber: 2.6 Consensus size: 34
3751351 TGGGATTTTG
* * * *
3751361 AAAAGGGTGCCACTA-ACTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCAC-AGAGTTGTGAGCTTAAAAAGA
* *
3751395 AAAAGAGTGCTATAGAGTTGTGAGCTTACAAAAGA
1 AAAAGAGTGCCACAGAGTTGTGAGCTTA-AAAAGA
*
3751430 AAAAGAGTGCCACGGAGTTGTG
1 AAAAGAGTGCCACAGAGTTGTG
3751452 GACTTTGGAA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
33 1 0.02
34 21 0.46
35 24 0.52
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.21
Consensus pattern (34 bp):
AAAAGAGTGCCACAGAGTTGTGAGCTTAAAAAGA
Found at i:3751551 original size:59 final size:59
Alignment explanation
Indices: 3751162--3751661 Score: 406
Period size: 59 Copynumber: 8.3 Consensus size: 59
3751152 TTTTGAAGGT
** ** * * *
3751162 TGCCACTGACTTGTGGGCTT--TTAAAGATTGCCACTGACTTGTGGGCTTT-TAAAGGT
1 TGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAGA
** * * * * *
3751218 TGCCACTGACTTGTGGGCTTTTGAAAAGAGATGCCACTAACTTGTGGGATTTTGAAAAGGT
1 TGCCACTGACTTGTGGGCTTCGGAAAAG-GGTGCCACTGACTTGTGGG-CTTTGAAAAAGA
**
3751279 TGCCACTGACTTGTGGGCTT---AAAAGATTGCCACTGACTTGTGGGCTTTTTGAAAAGAGA
1 TGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCACTGACTTGTGGGC--TTTGAAAA-AGA
* * ** * *
3751338 TGCCACTAACTTGTGGGATTTTGAAAAGGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAGA
1 TGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCACTGACTTGTGGGCTT----TGAAAAAGA
* * * * * * * * *
3751401 GTGCTA-TAGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTGGAAAAG
1 -TGCCACT-GACTTGTGGGCTT-C----GGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAG
3751465 A
59 A
* *
3751466 TGCCTACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAAGA
1 TGCC-ACTGACTTGTGGGCTTCGGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAGA
* * * * *
3751526 TGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTATGGGCTTTG--AAGGT
1 TGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAGA
* * **
3751583 TGCCACCGATTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAGA
1 TGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAGA
3751642 TGCCACTGACTTGTGGGCTT
1 TGCCACTGACTTGTGGGCTT
3751662 TTGAAGGGTG
Statistics
Matches: 362, Mismatches: 56, Indels: 49
0.78 0.12 0.10
Matches are distributed among these distances:
56 20 0.06
57 66 0.18
58 17 0.05
59 103 0.28
60 41 0.11
61 26 0.07
62 22 0.06
63 4 0.01
64 22 0.06
65 19 0.05
69 22 0.06
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (59 bp):
TGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAGA
Found at i:3751665 original size:30 final size:30
Alignment explanation
Indices: 3751162--3751666 Score: 385
Period size: 30 Copynumber: 16.8 Consensus size: 30
3751152 TTTTGAAGGT
3751162 TGCCACTGACTTGTGGGCTTTT---AAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAAAGA
* *
3751189 TTGCCACTGACTTGTGGGCTTTT--AAAGGT
1 -TGCCACTGACTTGTGGGCTTTTGAAAAAGA
3751218 TGCCACTGACTTGTGGGCTTTTGAAAAGAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAA-AGA
* * * *
3751249 TGCCACTAACTTGTGGGATTTTGAAAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAAAAGA
3751279 TGCCACTGACTTGTGGGC--TT--AAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAAAGA
3751305 TTGCCACTGACTTGTGGGCTTTTTGAAAAGAGA
1 -TGCCACTGACTTGTGGGC-TTTTGAAAA-AGA
* * * *
3751338 TGCCACTAACTTGTGGGATTTTGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAAGA
* **
3751368 TGCCACTAACTTGTGGGCTTAAAAGGAAAAAGA
1 TGCCACTGACTTGTGGGCTT---TTGAAAAAGA
* * * **
3751401 GTGCTA-TAGAGTTGTGAGCTTACAAAAGAAAAAGA
1 -TGCCACT-GACTTGTGGGCTT----TTGAAAAAGA
* * * *
3751436 GTGCCACGGAGTTGTGGAC-TTTGGAAAAGA
1 -TGCCACTGACTTGTGGGCTTTTGAAAAAGA
* ** * *
3751466 TGCCTACCGACTTGTGGGCTTCGGAAAAGGG
1 TGCC-ACTGACTTGTGGGCTTTTGAAAAAGA
*
3751497 TGCCACTGATTTGTGGGC-TTTGAAAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAAAGA
* ** * *
3751526 TGCCACCGACTTGTGGGCTTCGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAAGA
* * * *
3751556 TGCCACTGATTTATGGGC-TTTG--AAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAAAAGA
* * * *
3751583 TGCCACCGATTTGTGGGCTTTTGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAAGA
3751613 TGCCACTGACTTGTGGGC-TTTGAAAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAAAGA
3751642 TGCCACTGACTTGTGGGCTTTTGAA
1 TGCCACTGACTTGTGGGCTTTTGAA
3751667 GGGTGAGGAA
Statistics
Matches: 385, Mismatches: 67, Indels: 48
0.77 0.13 0.10
Matches are distributed among these distances:
26 4 0.01
27 38 0.10
28 50 0.13
29 59 0.15
30 120 0.31
31 45 0.12
32 19 0.05
33 10 0.03
34 15 0.04
35 25 0.06
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (30 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAAGA
Found at i:3753129 original size:19 final size:19
Alignment explanation
Indices: 3753107--3753170 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
3753097 CCGGACCCCC
*
3753107 TTTTTTTGTT-TTTGTTTG
1 TTTTTTTTTTGTTTGTTTG
*
3753125 TTTTTTTTTTGTTTTTTTG
1 TTTTTTTTTTGTTTGTTTG
*
3753144 TTTTTTTTTTGGTTT-TTCG
1 TTTTTTTTTT-GTTTGTTTG
3753163 TTTTTTTT
1 TTTTTTTT
3753171 GGAGGACGCC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
18 9 0.22
19 28 0.68
20 4 0.10
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (19 bp):
TTTTTTTTTTGTTTGTTTG
Found at i:3753159 original size:11 final size:10
Alignment explanation
Indices: 3753107--3753170 Score: 69
Period size: 10 Copynumber: 6.6 Consensus size: 10
3753097 CCGGACCCCC
3753107 TTTTTTTGTT
1 TTTTTTTGTT
*
3753117 TTTGTTTGTT
1 TTTTTTTGTT
*
3753127 TTTTTTT-TG
1 TTTTTTTGTT
3753136 TTTTTTTGTT
1 TTTTTTTGTT
*
3753146 TTTTTTT-TG
1 TTTTTTTGTT
* *
3753155 GTTTTTCGTT
1 TTTTTTTGTT
3753165 TTTTTT
1 TTTTTT
3753171 GGAGGACGCC
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
9 14 0.33
10 29 0.67
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:3767032 original size:13 final size:13
Alignment explanation
Indices: 3767014--3767039 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3767004 ATTTGCCTGC
3767014 ATGTATCGATACA
1 ATGTATCGATACA
3767027 ATGTATCGATACA
1 ATGTATCGATACA
3767040 TTTAAGTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3767117 original size:33 final size:33
Alignment explanation
Indices: 3767080--3767146 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3767070 AGTAGCTTGA
3767080 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3767113 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3767146 A
1 A
3767147 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:3767120 original size:13 final size:13
Alignment explanation
Indices: 3767102--3767126 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3767092 CAAAAAAATA
3767102 TGTATCGATACAT
1 TGTATCGATACAT
3767115 TGTATCGATACA
1 TGTATCGATACA
3767127 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3767497 original size:51 final size:51
Alignment explanation
Indices: 3767438--3767542 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
3767428 AAGATGAAGA
*
3767438 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATG
1 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATG
3767489 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATG
1 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATG
3767540 TGC
1 TGC
3767543 TGATTCAAGG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (51 bp):
TGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATG
Found at i:3767549 original size:43 final size:44
Alignment explanation
Indices: 3767488--3767575 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 44
3767478 AGGTGCCAAT
*
3767488 GTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTA-AAG
1 GTGCCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAGAAG
* * * *
3767531 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTAGAAG
1 GTGCCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAGAAG
3767575 G
1 G
3767576 GTTGCCACCG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 35 0.90
44 4 0.10
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (44 bp):
GTGCCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAGAAG
Found at i:3767614 original size:33 final size:32
Alignment explanation
Indices: 3767570--3767691 Score: 190
Period size: 33 Copynumber: 3.7 Consensus size: 32
3767560 CATTGGGCTT
*
3767570 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAA
3767603 AGAATGGTTGCCACCGACTTGTGTGGGCTTTGAA
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTT-AA
*
3767637 AGAAGGTTGCCACCGACTTGTGTGGGCATTGAA
1 AGAAGGTTGCCACCGACTTGTGTGGGC-TTTAA
3767670 AGAAGGTTGCCACCGACTTGTG
1 AGAAGGTTGCCACCGACTTGTG
3767692 GACTTAAAGA
Statistics
Matches: 84, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
33 77 0.92
34 7 0.08
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.26
Consensus pattern (32 bp):
AGAAGGTTGCCACCGACTTGTGTGGGCTTTAA
Found at i:3767714 original size:66 final size:61
Alignment explanation
Indices: 3767633--3767866 Score: 215
Period size: 63 Copynumber: 3.7 Consensus size: 61
3767623 GTGTGGGCTT
* *
3767633 TGAAAGAAGGTTGCCACCGACTTGTGTGGGCATTGAAAGAAGGTTGCCACCGACTTGTGGACTTA
1 TGAAA-AAGG-TGCCACCGA-GT-TGTGGGC-TTG-AA-AAGGGTGCCACCGACTTGTGGACTTA
3767698 AAGA
59 AA-A
* * * *
3767702 TGAAAAA-GTGCCACGGAGTTGTGGGCTT-AAAAGGGTGCCACAGAGTTGTGGGCTTTGAAAA
1 TGAAAAAGGTGCCACCGAGTTGTGGGCTTGAAAAGGGTGCCACCGACTTGTGGAC-TT-AAAA
* * *
3767763 -GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGTGCCACGGAGTTGTGGACTTAAAGA
1 TGAAAAAGGTGCCACCGAGTTGTGGGC-TTGAAAAGGGTGCCACCGACTTGTGGACTTAAA-A
* * * *
3767825 TGAAAAAAGTGCAACGGAGTTGTGGGCTT-AAAAAGGTGCCAC
1 TGAAAAAGGTGCCACCGAGTTGTGGGCTTGAAAAGGGTGCCAC
3767867 GGAGTTATGG
Statistics
Matches: 147, Mismatches: 11, Indels: 22
0.82 0.06 0.12
Matches are distributed among these distances:
60 25 0.17
61 39 0.27
62 10 0.07
63 49 0.33
64 7 0.05
65 1 0.01
66 8 0.05
67 1 0.01
68 2 0.01
69 5 0.03
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (61 bp):
TGAAAAAGGTGCCACCGAGTTGTGGGCTTGAAAAGGGTGCCACCGACTTGTGGACTTAAAA
Found at i:3767774 original size:34 final size:34
Alignment explanation
Indices: 3767730--3768157 Score: 304
Period size: 34 Copynumber: 13.5 Consensus size: 34
3767720 TTGTGGGCTT
* *
3767730 AAAAGGGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
3767764 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
*
3767798 -----GGTGCCACGGAGTTGTGGAC-TT-AAAGATG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA-A-G
* *
3767827 AAAAAAGTGCAACGGAGTTGTGGGC-TT------
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
*
3767854 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
*
3767888 -----GGTGCCACGGAGTTGTGGAC-TT-AAAGATG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA-A-G
*
3767917 AAAAAAGTGCCACGGAGTTGTGGGC-TT-AAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
3767949 -----GGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
*
3767978 AAAAAGGTGCCACGGAGTTGTGGCCTTTGAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA--G
3768014 AAAAAGAGTGCCACGGAGTTGTGGGCTTTG-AAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAG
* * * **
3768048 --GAAGGTGCCACGGAGTCGTGGACTTTGAGCAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
* * * * *
3768080 --AGA-TTGCCACTGAGTCGTGGACTTTG--AAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
* * * *
3768109 AAAAAGATGCCACTGAGTCGTGGACTTTG---AG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
*
3768140 AAGAAGGTGCCACGGAGT
1 AAAAAGGTGCCACGGAGT
3768158 CATGGACTTT
Statistics
Matches: 328, Mismatches: 31, Indels: 73
0.76 0.07 0.17
Matches are distributed among these distances:
27 47 0.14
28 10 0.03
29 46 0.14
31 61 0.19
32 29 0.09
33 1 0.00
34 102 0.31
36 10 0.03
37 22 0.07
ACGTcount: A:0.30, C:0.14, G:0.35, T:0.21
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
Found at i:3767811 original size:90 final size:91
Alignment explanation
Indices: 3767709--3768075 Score: 314
Period size: 90 Copynumber: 3.9 Consensus size: 91
3767699 AGATGAAAAA
* * *
3767709 GTGCCACGGAGTTGTGGGCTTAAA-A-G-GGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAGATGAAGTGCCACGGAGTTGTGGGC-TT-AAAAGAAAAAGG
3767771 TGCCACGGAGTTGTGGGCTTTGAAAAGG
64 TGCCACGGAGTTGTGGGCTTTGAAAAGG
*
3767799 GTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCAACGGAGTTGTGGGCTT-----AAAAA
1 GTGCCACGGAGTTGTGGACTTAAAGATG----AAGTGCCACGGAGTTGTGGGCTTAAAAGAAAAA
*
3767859 GGTGCCACGGAGTTATGGGCTTTGAAAAGG
62 GGTGCCACGGAGTTGTGGGCTTTGAAAAGG
3767889 GTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAG-----
1 GTGCCACGGAGTTGTGGACTTAAAGATG----AAGTGCCACGGAGTTGTGGGCTTAAAAGAAAAA
3767949 GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAG
62 GGTGCCACGGAGTTGTGGGCTTTGAAAAG-----G
* ** *
3767984 GTGCCACGGAGTTGTGGCCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAG-
1 GTGCCACGGAGTTGTGGAC-TT--AAA--G-ATGA-AGTGCCACGGAGTTGTGGGC-TTAAAAGA
* * *
3768048 -GAAGGTGCCACGGAGTCGTGGACTTTGA
58 AAAAGGTGCCACGGAGTTGTGGGCTTTGA
3768076 GCAGAGATTG
Statistics
Matches: 236, Mismatches: 13, Indels: 44
0.81 0.04 0.15
Matches are distributed among these distances:
90 139 0.59
91 1 0.00
92 1 0.00
95 19 0.08
96 4 0.02
97 18 0.08
98 23 0.10
99 6 0.03
100 1 0.00
101 1 0.00
102 23 0.10
ACGTcount: A:0.29, C:0.13, G:0.36, T:0.22
Consensus pattern (91 bp):
GTGCCACGGAGTTGTGGACTTAAAGATGAAGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAGGTG
CCACGGAGTTGTGGGCTTTGAAAAGG
Found at i:3767842 original size:124 final size:123
Alignment explanation
Indices: 3767657--3768072 Score: 449
Period size: 124 Copynumber: 3.3 Consensus size: 123
3767647 CACCGACTTG
* * *
3767657 TGTGGGCATTGAAAGAAGGTTGCCACCGACTTGTGGACTTAAAGATGAAAAAGTGCCACGGAGTT
1 TGTGGGCTTTGAAA-AAGG-TGCCACGGAGTTGTGGACTTAAAGATGAAAAAGTGCCACGGAGTT
*
3767722 GTGGGCTTAAAAGGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
64 GTGGGCTTAAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* *
3767782 TGTGGGCTTTGAAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCAACGGAGTTG
1 TGTGGGCTTTGAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATG-AAAAAGTGCCACGGAGTTG
* *
3767847 TGGGCTTAAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAG-----GGTGCCACGGAGT
65 TGGGCTTAAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* * * *
3767901 TGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAAA-A-G----GGTGCCACGGA
1 TGTGGGCTT-----TGAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAGTGCCACGGA
*
3767960 GTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGCCTTTGAAAAGGGAAAAAGAGTGC
61 GTTGTGGGC-TT-AAAAG-----GGTGCCACGGAGTTGTGGGCTTTGAAAA--GAAAAAG-GTGC
3768025 CACGGAGT
116 CACGGAGT
*
3768033 TGTGGGCTTTGAAAGGAAGGTGCCACGGAGTCGTGGACTT
1 TGTGGGCTTTGAAA--AAGGTGCCACGGAGTTGTGGACTT
3768073 TGAGCAGAGA
Statistics
Matches: 247, Mismatches: 21, Indels: 42
0.80 0.07 0.14
Matches are distributed among these distances:
117 18 0.07
118 2 0.01
119 25 0.10
122 1 0.00
123 26 0.11
124 114 0.46
125 13 0.05
126 1 0.00
127 5 0.02
129 21 0.09
131 1 0.00
132 20 0.08
ACGTcount: A:0.29, C:0.13, G:0.35, T:0.22
Consensus pattern (123 bp):
TGTGGGCTTTGAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAGTGCCACGGAGTTGT
GGGCTTAAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
Found at i:3768027 original size:37 final size:34
Alignment explanation
Indices: 3767944--3768157 Score: 171
Period size: 31 Copynumber: 6.5 Consensus size: 34
3767934 TTGTGGGCTT
*
3767944 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
*
3767978 AAAAAGGTGCCACGGAGTTGTGGCCTTTGAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA--G
3768014 AAAAAGAGTGCCACGGAGTTGTGGGCTTTG-AAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAG
* * * **
3768048 --GAAGGTGCCACGGAGTCGTGGACTTTGAGCAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
* * * * *
3768080 --AGA-TTGCCACTGAGTCGTGGACTTTG--AAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
* * * *
3768109 AAAAAGATGCCACTGAGTCGTGGACTTTG---AG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
*
3768140 AAGAAGGTGCCACGGAGT
1 AAAAAGGTGCCACGGAGT
3768158 CATGGACTTT
Statistics
Matches: 155, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
29 2 0.01
31 61 0.39
32 28 0.18
34 32 0.21
36 10 0.06
37 22 0.14
ACGTcount: A:0.29, C:0.15, G:0.36, T:0.21
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
Found at i:3768131 original size:63 final size:63
Alignment explanation
Indices: 3767854--3768172 Score: 217
Period size: 63 Copynumber: 5.0 Consensus size: 63
3767844 TTGTGGGCTT
* ** * * * *
3767854 AAAAAGGTGCCACGGAGTTATGGGCTTTGA-AA-AGGGTGCCACGGAGTTGTGGAC-TTAAAG
1 AAAAAGATGCCACGGAGTCGTGGACTTTGAGAAGAAGGTGCCACGGAGTCGTGGACTTTGAAG
* * * * * *
3767914 ATGAAAAAAGTGCCACGGAGTTGTGGGC-TT-A-AA-AGGGTGCCACGGAGTTGTGGGCTTTGAA
1 A--AAAAGA-TGCCACGGAGTCGTGGACTTTGAGAAGAAGGTGCCACGGAGTCGTGGACTTTG--
3767975 AAG
61 AAG
* * * * * *
3767978 AAAAAGGTGCCACGGAGTTGTGGCCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGATGCCACGGAGTCGTGGACTTTG---A--GAAGAAG-GTGCCACGGAGTCGTGGACTTT
3768043 GAA-
60 GAAG
** * * * *
3768046 AGGAAGGTGCCACGGAGTCGTGGACTTTGAGCAG-AGATTGCCACTGAGTCGTGGACTTTGAAG
1 AAAAAGATGCCACGGAGTCGTGGACTTTGAGAAGAAG-GTGCCACGGAGTCGTGGACTTTGAAG
* *
3768109 AAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAAGGTGCCACGGAGTCATGGACTTT-AAG
1 AAAAAGATGCCACGGAGTCGTGGACTTTGAGAAGAAGGTGCCACGGAGTCGTGGACTTTGAAG
3768171 AA
1 AA
3768173 GGTATTTGAA
Statistics
Matches: 214, Mismatches: 27, Indels: 34
0.78 0.10 0.12
Matches are distributed among these distances:
60 1 0.00
61 41 0.19
62 43 0.20
63 67 0.31
64 6 0.03
65 1 0.00
66 1 0.00
68 25 0.12
69 4 0.02
70 2 0.01
71 23 0.11
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.21
Consensus pattern (63 bp):
AAAAAGATGCCACGGAGTCGTGGACTTTGAGAAGAAGGTGCCACGGAGTCGTGGACTTTGAAG
Found at i:3776419 original size:52 final size:52
Alignment explanation
Indices: 3776349--3776469 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 52
3776339 GAAAATTTAT
* *
3776349 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTTGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
3776401 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
3776453 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
3776470 AAGATCAGTG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:3776482 original size:52 final size:51
Alignment explanation
Indices: 3776349--3776489 Score: 194
Period size: 52 Copynumber: 2.7 Consensus size: 51
3776339 GAAAATTTAT
*
3776349 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTTGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* * *
3776401 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
3776453 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
3776490 ATGTATCGAT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.03
52 77 0.97
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:3776496 original size:13 final size:13
Alignment explanation
Indices: 3776478--3776502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3776468 CAAAGATCAG
3776478 TGTATCGATACAA
1 TGTATCGATACAA
3776491 TGTATCGATACA
1 TGTATCGATACA
3776503 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3776585 original size:13 final size:13
Alignment explanation
Indices: 3776567--3776591 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3776557 CAAAAAAATA
3776567 TGTATCGATACAT
1 TGTATCGATACAT
3776580 TGTATCGATACA
1 TGTATCGATACA
3776592 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3776591 original size:33 final size:33
Alignment explanation
Indices: 3776549--3776611 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
3776539 GCTTAAATTA
3776549 TATCGATACAAAAAAATATGTATCGATACATTG
1 TATCGATACAAAAAAATATGTATCGATACATTG
* ***
3776582 TATCGATACAACATTTTATGTATCGATACA
1 TATCGATACAAAAAAATATGTATCGATACA
3776612 AATCATTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.33
Consensus pattern (33 bp):
TATCGATACAAAAAAATATGTATCGATACATTG
Found at i:3779219 original size:52 final size:50
Alignment explanation
Indices: 3779050--3779222 Score: 178
Period size: 51 Copynumber: 3.4 Consensus size: 50
3779040 TATTCTCCGC
*
3779050 AATCGGGGATA-TCCCAACTCCGA-TTTCATTT-TCAAAACA-CTAATTTTCTAT
1 AATCGGGGATACT-CCAACCCCGACTTT-ATTTCT-AAAACATC-AA-TTTCTAT
* *
3779101 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATCAATTT-T-T
1 AATCGGGGATACTCCAACCCCGACTTTATTTCTAAAACATCAATTTCTAT
* * * *
3779149 CATCGGGGATACTCCAACCCCTGGCTTTATTTCTAAAATATTAATTTCTCAT
1 AATCGGGGATACTCCAACCCC-GACTTTATTTCTAAAACATCAATTTCT-AT
3779201 AATCGGGGATACTCCAACCCCG
1 AATCGGGGATACTCCAACCCCG
3779223 TTATCTTCGA
Statistics
Matches: 107, Mismatches: 7, Indels: 16
0.82 0.05 0.12
Matches are distributed among these distances:
48 20 0.19
49 22 0.21
50 4 0.04
51 34 0.32
52 27 0.25
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (50 bp):
AATCGGGGATACTCCAACCCCGACTTTATTTCTAAAACATCAATTTCTAT
Found at i:3779385 original size:187 final size:187
Alignment explanation
Indices: 3779155--3779519 Score: 511
Period size: 187 Copynumber: 2.0 Consensus size: 187
3779145 TTTTCATCGG
* *
3779155 GGATACTCCAACCCCTGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAACC
1 GGATACTCCAACCCCTGGCTTTATTCCCAAAATATTAATTTCTCATAATCGGGGATACTCCAACC
* *
3779220 CCGTTATCT-TCGAGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAATTTTCACAAT
66 CCGTTACCTCT-GAGGGGATACTCCAACTCCGATTTTATTTCC-AAAACACCAAATTTTCACAAC
* * *
3779284 TGAGGATACTCCAACCTCGTTA-TTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGC
129 CGAGGATACTCCAACCTCGTTATTTTCA-AGGGAATACTCCAACCCCGTTACCTCCGAGC
* *
3779343 GGATACTCCAACCCC-GGCTTTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACC
1 GGATACTCCAACCCCTGGCTTTATTCCCAAAATATTAATTTCTCATAATCGGGGATACTCCAACC
* * * * * * * *
3779407 CCGTTACCTCTGAGGGGATACTTCAATTTCGATTTTATTTCCTAATCATCGATTTTTCACAACCG
66 CCGTTACCTCTGAGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAAATTTTCACAACCG
* *
3779472 GGGATACTCCAACCTCGTTATTTTCAAGGGAATACTCCAACCTCGTTA
131 AGGATACTCCAACCTCGTTATTTTCAAGGGAATACTCCAACCCCGTTA
3779520 TTATCTCCAA
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
186 54 0.35
187 86 0.55
188 16 0.10
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (187 bp):
GGATACTCCAACCCCTGGCTTTATTCCCAAAATATTAATTTCTCATAATCGGGGATACTCCAACC
CCGTTACCTCTGAGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAAATTTTCACAACCG
AGGATACTCCAACCTCGTTATTTTCAAGGGAATACTCCAACCCCGTTACCTCCGAGC
Found at i:3779444 original size:79 final size:79
Alignment explanation
Indices: 3779312--3779491 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 79
3779302 GTTATTTCAT
*
3779312 CGGGGATACTCCAACCCCGTTACCTCCGAGCGGATACTCCAACCCCGGCTTTATTCCCAAAAT-A
1 CGGGGATACTCCAACCCCGTTACCTCCGAGCGGATACTCCAACCCCGACTTTATTCCC-AAATCA
* * *
3779376 TTGATTTCTCATAAT
65 TCGATTTCTCACAAC
* * * * *** * * *
3779391 TGGGGATACTCCAACCCCGTTACCTCTGAGGGGATACTTCAATTTCGATTTTATTTCCTAATCAT
1 CGGGGATACTCCAACCCCGTTACCTCCGAGCGGATACTCCAACCCCGACTTTATTCCCAAATCAT
*
3779456 CGATTTTTCACAAC
66 CGATTTCTCACAAC
*
3779470 CGGGGATACTCCAACCTCGTTA
1 CGGGGATACTCCAACCCCGTTA
3779492 TTTTCAAGGG
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 3 0.04
79 80 0.96
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTACCTCCGAGCGGATACTCCAACCCCGACTTTATTCCCAAATCAT
CGATTTCTCACAAC
Found at i:3780990 original size:3 final size:3
Alignment explanation
Indices: 3780975--3781008 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
3780965 AACCATCAAA
* *
3780975 GAT GAT GAA GAT GAT GGT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
3781009 TTGACTCAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:3785276 original size:51 final size:47
Alignment explanation
Indices: 3785200--3785331 Score: 140
Period size: 51 Copynumber: 2.7 Consensus size: 47
3785190 ATTTAACTAG
*
3785200 ATGTATCA-ATACATTGTAAAATGTATCGATACATCTGGGAAAAAAGACATA
1 ATGTAT-AGATACATTGAAAAATGTATCGATACATCTGGG-AAAAA-A-A-A
* * * *
3785251 ATGTATAGATACGTTGAAAAATGTATCAATATATCTGGGTAAAAAAA
1 ATGTATAGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAAA
* * *
3785298 ATGTATTGATATATTGAAGAATGTATCGATACAT
1 ATGTATAGATACATTGAAAAATGTATCGATACAT
3785332 TCATACATGT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
47 29 0.42
48 1 0.01
49 1 0.01
50 5 0.07
51 33 0.48
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (47 bp):
ATGTATAGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAAA
Found at i:3785322 original size:20 final size:20
Alignment explanation
Indices: 3785297--3785371 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
3785287 GGGTAAAAAA
* *
3785297 AATGTATTGATATATTGAAG
1 AATGTATCGATACATTGAAG
*
3785317 AATGTATCGATACATTCATA-
1 AATGTATCGATACATTGA-AG
* *
3785337 CATGTATCGTTACATTGAAG
1 AATGTATCGATACATTGAAG
3785357 AATGTATCGATACAT
1 AATGTATCGATACAT
3785372 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.96
21 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTGAAG
Found at i:3786197 original size:48 final size:48
Alignment explanation
Indices: 3786142--3786391 Score: 278
Period size: 48 Copynumber: 5.3 Consensus size: 48
3786132 TAATATGCCA
* *
3786142 ATTCAAGGCCAATGACATCGAGCTAAGGGAAAAGTGAACAATGTGCTG
1 ATTCAAGGCCAACGACATTGAGCTAAGGGAAAAGTGAACAATGTGCTG
* * * *
3786190 ATTCAAGGCTAGCGACATTGAGCTAAGGGAAAAGTGGACAATGTACTG
1 ATTCAAGGCCAACGACATTGAGCTAAGGGAAAAGTGAACAATGTGCTG
* *
3786238 ATTCAAGGCCAGA-GACATTGAGCTAAAGGAAAAGTGAACAACGTGCTG
1 ATTCAAGGCCA-ACGACATTGAGCTAAGGGAAAAGTGAACAATGTGCTG
* * * * *
3786286 ATTCAAGGCCAGCAACATTGAGCTAA--TAAAGGTGGACAATGTGCTG
1 ATTCAAGGCCAACGACATTGAGCTAAGGGAAAAGTGAACAATGTGCTG
* * * * *
3786332 ATTCAAAGCCAACGACATTGAGCTAA--TAAAGGTG-CCAATATGCTG
1 ATTCAAGGCCAACGACATTGAGCTAAGGGAAAAGTGAACAATGTGCTG
*
3786377 ATTCAATGCCAACGA
1 ATTCAAGGCCAACGA
3786392 TATCGGACTT
Statistics
Matches: 176, Mismatches: 24, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
45 23 0.13
46 47 0.27
48 106 0.60
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (48 bp):
ATTCAAGGCCAACGACATTGAGCTAAGGGAAAAGTGAACAATGTGCTG
Found at i:3786306 original size:96 final size:94
Alignment explanation
Indices: 3786142--3786357 Score: 308
Period size: 96 Copynumber: 2.3 Consensus size: 94
3786132 TAATATGCCA
* * * * * *
3786142 ATTCAAGGCCAATGACATCGAGCTAAGGGAAAAGTGAACAATGTGCTGATTCAAGGCTAGCGACA
1 ATTCAAGGCCAACGACATTGAGCTAAAGGAAAAGTGAACAACGTGCTGATTCAAGGCCAGCAACA
3786207 TTGAGCTAAGGGAAAAGTGGACAATGTACTG
66 TTGAGCTAA--GAAAAGTGGACAATGTACTG
3786238 ATTCAAGGCCAGA-GACATTGAGCTAAAGGAAAAGTGAACAACGTGCTGATTCAAGGCCAGCAAC
1 ATTCAAGGCCA-ACGACATTGAGCTAAAGGAAAAGTGAACAACGTGCTGATTCAAGGCCAGCAAC
* * *
3786302 ATTGAGCTAATAAAGGTGGACAATGTGCTG
65 ATTGAGCTAAGAAAAGTGGACAATGTACTG
*
3786332 ATTCAAAGCCAACGACATTGAGCTAA
1 ATTCAAGGCCAACGACATTGAGCTAA
3786358 TAAAGGTGCC
Statistics
Matches: 109, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
93 1 0.01
94 40 0.37
96 67 0.61
97 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (94 bp):
ATTCAAGGCCAACGACATTGAGCTAAAGGAAAAGTGAACAACGTGCTGATTCAAGGCCAGCAACA
TTGAGCTAAGAAAAGTGGACAATGTACTG
Found at i:3786923 original size:28 final size:28
Alignment explanation
Indices: 3786505--3786917 Score: 499
Period size: 28 Copynumber: 14.5 Consensus size: 28
3786495 CACCGACTTG
* *
3786505 TGTGGGCCTTGAAAGGGGATGCCACTGATT
1 TGTGGGCTTTGAAA--GGATGCCACTGACT
3786535 TGTGGGCTTTGAAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACT
* *
3786565 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
3786593 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
3786621 TGTGGTCTTTTG-AAGAGATGCCACTAACT
1 TGTGGGC-TTTGAAAG-GATGCCACTGACT
*
3786650 TGTGGGCTTTTGAAAGGATGCCACTAACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
*
3786679 TGTGGTCTTTTG-AAGAGATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GATGCCACTGACT
* * *
3786708 TGTGGGCTTTGAAAATAGCTTCCACTGACT
1 TGTGGGCTTTG-AAA-GGATGCCACTGACT
* *
3786738 TGTGGGCTTTGAAAGGGTGCCACTCAC-
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
3786765 TGTGGGCTTTGAAGGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
3786793 TATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
3786821 TGTGGGCTTTAAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
3786849 TGTGGGATTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
3786877 TGTGGGCTTTGAAAGGATGCCATTGACC
1 TGTGGGCTTTGAAAGGATGCCACTGACT
3786905 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
3786918 GAGATGAACG
Statistics
Matches: 341, Mismatches: 33, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
27 24 0.07
28 174 0.51
29 78 0.23
30 65 0.19
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:3788186 original size:8 final size:8
Alignment explanation
Indices: 3788169--3788214 Score: 67
Period size: 8 Copynumber: 5.9 Consensus size: 8
3788159 ATCTAGACCC
3788169 TTTTTTTG
1 TTTTTTTG
*
3788177 TTTGTTTG
1 TTTTTTTG
3788185 TTTTTTTG
1 TTTTTTTG
*
3788193 -TTTTTGG
1 TTTTTTTG
3788200 TTTTTTTG
1 TTTTTTTG
3788208 TTTTTTT
1 TTTTTTT
3788215 TCTTGGTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 6 0.18
8 27 0.82
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (8 bp):
TTTTTTTG
Found at i:3788188 original size:15 final size:15
Alignment explanation
Indices: 3788169--3788212 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
3788159 ATCTAGACCC
*
3788169 TTTTTTTGTTTGTTTG
1 TTTTTTTGTTT-TTGG
3788185 TTTTTTTGTTTTTGG
1 TTTTTTTGTTTTTGG
3788200 TTTTTTTGTTTTT
1 TTTTTTTGTTTTT
3788213 TTTCTTGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 16 0.59
16 11 0.41
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (15 bp):
TTTTTTTGTTTTTGG
Found at i:3788196 original size:23 final size:23
Alignment explanation
Indices: 3788170--3788214 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
3788160 TCTAGACCCT
*
3788170 TTTTTTGTTTGTTTGTTTTTTTG
1 TTTTTGGTTTGTTTGTTTTTTTG
*
3788193 TTTTTGGTTTTTTTGTTTTTTT
1 TTTTTGGTTTGTTTGTTTTTTT
3788215 TCTTGGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (23 bp):
TTTTTGGTTTGTTTGTTTTTTTG
Found at i:3788207 original size:27 final size:28
Alignment explanation
Indices: 3788172--3788240 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 28
3788162 TAGACCCTTT
*
3788172 TTTTGTTTGTTTGTTTTT-TTGTTTTTGG
1 TTTTGTTTGTTT-TTTTTCTTGGTTTTGG
*
3788200 TTTT-TTTGTTTTTTTTCTTGGTTTT-C
1 TTTTGTTTGTTTTTTTTCTTGGTTTTGG
3788226 TTTTAGTTT-TTTTTT
1 TTTT-GTTTGTTTTTT
3788241 GGGTACGAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
26 9 0.25
27 20 0.56
28 7 0.19
ACGTcount: A:0.01, C:0.03, G:0.14, T:0.81
Consensus pattern (28 bp):
TTTTGTTTGTTTTTTTTCTTGGTTTTGG
Found at i:3788229 original size:23 final size:21
Alignment explanation
Indices: 3788176--3788239 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 21
3788166 CCCTTTTTTT
* *
3788176 GTTTGTTTGTTTTTTTGTTTTTG
1 GTTTTTTTG-TTTTTT-TTCTTG
3788199 GTTTTTTTGTTTTTTTTCTTG
1 GTTTTTTTGTTTTTTTTCTTG
3788220 GTTTTCTTTTAGTTTTTTTT
1 G-TTT-TTTT-GTTTTTTTT
3788240 TGGGTACGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 6 0.17
22 9 0.25
23 12 0.33
24 9 0.25
ACGTcount: A:0.02, C:0.03, G:0.16, T:0.80
Consensus pattern (21 bp):
GTTTTTTTGTTTTTTTTCTTG
Found at i:3801223 original size:259 final size:259
Alignment explanation
Indices: 3800739--3801247 Score: 912
Period size: 260 Copynumber: 2.0 Consensus size: 259
3800729 AAGCAGGGGA
* * * *
3800739 AGGTTTCGGTTTCTTAAATGCTTACGGGTCTAAACTGGAGTCATAGACATCCAAATGTCTGTGAC
1 AGGTTTCAGTTTCCTAAATGCTTACAGGTCTAAACTGGAGTCATAGACATCCAAATATCTGTGAC
* *
3800804 AGAAGGGAAGAGTTGTATGAGCATCATAAACTCATTTACATAGTCCCAGATTAGGTTGGGATGAT
66 AGAAGGGAAGAGTTGTATGAGCATCATAAACTCATTTACACAGTCCCAGAGTAGGTTGGGATGAT
3800869 GAAACAGCCCGTTGATCATACCACTCAAGGTTTTGACACAAAGCAAGGCACAAACATTTTAGGAG
131 GAAACAGCCCGTTGATCATACCACTCAAGGTTTTGACACAAAGCAAGGCACAAACATTTTAGGAG
3800934 CATGTGCATGGCTACTTTTGATTAGAAAATCAGAAATTTGAACCTCATTTAATCACAAGCATTT
196 CATGTGCATGGCTACTTTTGATTAGAAAATCAGAAATTTGAACCTCATTTAATCACAAGCATTT
*
3800998 AGGTTTCAGTTTCCTAAATGCTTACAGGTCTAAACTGGAGTCATGGACATCCAAATATCTGTGAC
1 AGGTTTCAGTTTCCTAAATGCTTACAGGTCTAAACTGGAGTCATAGACATCCAAATATCTGTGAC
* * *
3801063 AGAAGGGAAAGAGTTGTATGAGCATCATGAACTCATTTACACAGTCCCGGAGTAGTTTGGGATGA
66 AGAAGGG-AAGAGTTGTATGAGCATCATAAACTCATTTACACAGTCCCAGAGTAGGTTGGGATGA
3801128 TGAAACAGCCCGTTGATCATACCACTCAAGGTTTTGACACAAAGCAAGGCACAAACATTTTAGGA
130 TGAAACAGCCCGTTGATCATACCACTCAAGGTTTTGACACAAAGCAAGGCACAAACATTTTAGGA
3801193 GCATGTGCATGGCTA-TTTTGATTAGAAAATCAGAAATTTGAACCTCATTTAATCA
195 GCATGTGCATGGCTACTTTTGATTAGAAAATCAGAAATTTGAACCTCATTTAATCA
3801248 AGATTCCAGA
Statistics
Matches: 239, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
259 107 0.45
260 132 0.55
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (259 bp):
AGGTTTCAGTTTCCTAAATGCTTACAGGTCTAAACTGGAGTCATAGACATCCAAATATCTGTGAC
AGAAGGGAAGAGTTGTATGAGCATCATAAACTCATTTACACAGTCCCAGAGTAGGTTGGGATGAT
GAAACAGCCCGTTGATCATACCACTCAAGGTTTTGACACAAAGCAAGGCACAAACATTTTAGGAG
CATGTGCATGGCTACTTTTGATTAGAAAATCAGAAATTTGAACCTCATTTAATCACAAGCATTT
Found at i:3802495 original size:20 final size:20
Alignment explanation
Indices: 3802470--3802547 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
3802460 GGGTAAAAAA
*
3802470 AAGAATGTATCGATATATTG
1 AAGAATGTATCGATACATTG
*
3802490 AAGAATGTATCGATACATTC
1 AAGAATGTATCGATACATTG
*
3802510 ATA-CATGTATCGATACATTG
1 A-AGAATGTATCGATACATTG
*
3802530 AAAAATGTATCGATACAT
1 AAGAATGTATCGATACAT
3802548 CTGGGTAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
19 1 0.02
20 49 0.96
21 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (20 bp):
AAGAATGTATCGATACATTG
Found at i:3802498 original size:50 final size:51
Alignment explanation
Indices: 3802373--3802507 Score: 141
Period size: 51 Copynumber: 2.7 Consensus size: 51
3802363 TTTTAAATAG
* ** * *
3802373 ATGTATCAATACATTTTTCAATGTATCGATACATATGGGAAAAAAGACAGA
1 ATGTATCGATACATTCATAAATGTATCGATACATAGGGGAAAAAAGACAGA
* * *
3802424 ATGTATCGATACATTCATACATGTATCGATATATCGGGGTAAAAAA-A-AGA
1 ATGTATCGATACATTCATAAATGTATCGATACATAGGGG-AAAAAAGACAGA
* *
3802474 ATGTATCGATATATTGA-AGAATGTATCGATACAT
1 ATGTATCGATACATTCATA-AATGTATCGATACAT
3802508 TCATACATGT
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
49 1 0.01
50 31 0.44
51 32 0.46
52 6 0.09
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.30
Consensus pattern (51 bp):
ATGTATCGATACATTCATAAATGTATCGATACATAGGGGAAAAAAGACAGA
Found at i:3807235 original size:52 final size:52
Alignment explanation
Indices: 3807169--3807305 Score: 195
Period size: 52 Copynumber: 2.6 Consensus size: 52
3807159 ATTTACCTGC
3807169 ATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCCAG
1 ATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCCAG
* * * **
3807221 ATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTTCCTGG
1 ATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCCAG
**
3807273 ATGTATCGATACA-AAAATCAGTGTATCGATACA
1 ATGTATCGATACATTTAAT-AGTGTATCGATACA
3807306 ATGTATCGAT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
51 2 0.03
52 73 0.97
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.34
Consensus pattern (52 bp):
ATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCCAG
Found at i:3807312 original size:13 final size:13
Alignment explanation
Indices: 3807294--3807318 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3807284 CAAAAATCAG
3807294 TGTATCGATACAA
1 TGTATCGATACAA
3807307 TGTATCGATACA
1 TGTATCGATACA
3807319 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3807396 original size:33 final size:33
Alignment explanation
Indices: 3807359--3807425 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
3807349 AGTAGCTTAA
*
3807359 ATTGTATTGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3807392 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3807425 A
1 A
3807426 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:3807399 original size:13 final size:13
Alignment explanation
Indices: 3807381--3807405 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3807371 CAAAAAAATA
3807381 TGTATCGATACAT
1 TGTATCGATACAT
3807394 TGTATCGATACA
1 TGTATCGATACA
3807406 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3809561 original size:13 final size:13
Alignment explanation
Indices: 3809540--3809570 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3809530 CGATACATGG
*
3809540 TACAATGTATCGA
1 TACATTGTATCGA
3809553 TACATTGTATCGA
1 TACATTGTATCGA
3809566 TACAT
1 TACAT
3809571 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:3815763 original size:13 final size:13
Alignment explanation
Indices: 3815745--3815773 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3815735 ACAACATTCC
3815745 TTGTATCGATACA
1 TTGTATCGATACA
3815758 TTGTATCGATACA
1 TTGTATCGATACA
3815771 TTG
1 TTG
3815774 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3817667 original size:21 final size:20
Alignment explanation
Indices: 3817640--3817704 Score: 78
Period size: 19 Copynumber: 3.2 Consensus size: 20
3817630 AATTATTATT
3817640 AAATTTTTATAAGGGGGAGA
1 AAATTTTTATAAGGGGGAGA
*
3817660 AAAGTTTTATAAAGGGGGAGA
1 AAATTTTTAT-AAGGGGGAGA
* *
3817681 TAATTGTT-TAAGGGGGAGA
1 AAATTTTTATAAGGGGGAGA
*
3817700 TAATT
1 AAATT
3817705 GATTAAGGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
19 15 0.38
20 10 0.25
21 15 0.38
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (20 bp):
AAATTTTTATAAGGGGGAGA
Found at i:3817695 original size:19 final size:19
Alignment explanation
Indices: 3817649--3817716 Score: 84
Period size: 19 Copynumber: 3.5 Consensus size: 19
3817639 TAAATTTTTA
*
3817649 TAAGGGGGAGAAAAGTT-TT
1 TAAGGGGGAGATAA-TTGTT
3817668 ATAAAGGGGGAGATAATTGTT
1 -T-AAGGGGGAGATAATTGTT
*
3817689 TAAGGGGGAGATAATTGAT
1 TAAGGGGGAGATAATTGTT
3817708 TAAGGGGGA
1 TAAGGGGGA
3817717 AAACGAAAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
19 26 0.59
20 4 0.09
21 14 0.32
ACGTcount: A:0.37, C:0.00, G:0.38, T:0.25
Consensus pattern (19 bp):
TAAGGGGGAGATAATTGTT
Found at i:3818251 original size:13 final size:13
Alignment explanation
Indices: 3818233--3818259 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3818223 ACATCTTGCT
3818233 TTGTATCGATACA
1 TTGTATCGATACA
3818246 TTGTATCGATACA
1 TTGTATCGATACA
3818259 T
1 T
3818260 GTTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3818256 original size:33 final size:32
Alignment explanation
Indices: 3818214--3818278 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
3818204 CACTCCCAGA
* *
3818214 TGTATCGATACATCTTGCTTTGTATCGATACAT
1 TGTATCGATACATCTT-CATTGTATCAATACAT
*
3818247 TGTATCGATACATGTTCATTGTATCAATACAT
1 TGTATCGATACATCTTCATTGTATCAATACAT
3818279 GTTTCAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATCTTCATTGTATCAATACAT
Found at i:3818268 original size:19 final size:20
Alignment explanation
Indices: 3818244--3818300 Score: 89
Period size: 19 Copynumber: 2.9 Consensus size: 20
3818234 TGTATCGATA
3818244 CATTGTATCGATACATG-TT
1 CATTGTATCGATACATGTTT
*
3818263 CATTGTATCAATACATGTTT
1 CATTGTATCGATACATGTTT
3818283 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
3818301 CAACTAGCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.47
20 3 0.09
21 15 0.44
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (20 bp):
CATTGTATCGATACATGTTT
Found at i:3820911 original size:20 final size:19
Alignment explanation
Indices: 3820861--3820921 Score: 86
Period size: 19 Copynumber: 3.2 Consensus size: 19
3820851 GCTTTGTATC
3820861 GAACAATGTATCGATACAT
1 GAACAATGTATCGATACAT
** *
3820880 GTTCATTGTATCGATACAT
1 GAACAATGTATCGATACAT
3820899 GAACAAATGTATCGATACAT
1 GAAC-AATGTATCGATACAT
3820919 GAA
1 GAA
3820922 ACTGGCAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
19 18 0.51
20 17 0.49
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (19 bp):
GAACAATGTATCGATACAT
Found at i:3824572 original size:171 final size:175
Alignment explanation
Indices: 3824225--3824572 Score: 494
Period size: 171 Copynumber: 2.0 Consensus size: 175
3824215 CTCCAATCTT
*
3824225 GTTTTTCAACTAAAAATTATATCTTTTTTTTCCTTCTCACTCGAATTTTAAGTCATCCATTTTTG
1 GTTTTTCAACTAAAAATTATATCTTTTTTTTCCTTCTCACCCGAATTTTAAGTCATCC----TT-
* * *
3824290 GACTTCAATTAACCAATGAATCTAGACACGTCTCCTATATTGTCAATTCGGTTATTTTTTGAATG
61 GACTTCAATTAACCAATGAATCCAGACACGTCTCCTATATAGTCAATTCGATTATTTTTTGAATG
*
3824355 ATTGAGGATAATTATAAGATATATTTCGATTGTCCCTTAATTTTTTTCCC
126 ATTGAGGACAATTATAAGATATATTTCGATTGTCCCTTAATTTTTTTCCC
3824405 GTTTTTCAACTAAAAATTATATCTTTTTTTTTCCTTCTCACCCGAATTTTAAGTCAT-C-T-ACT
1 GTTTTTCAACTAAAAATTATATC-TTTTTTTTCCTTCTCACCCGAATTTTAAGTCATCCTTGACT
*
3824467 TCAATTAAACC-ATGAATCCAGACACGTCTCC-A-ATAGTTAATTCGATTATTTCTTT-AATGAT
65 TCAATT-AACCAATGAATCCAGACACGTCTCCTATATAGTCAATTCGATTATTT-TTTGAATGAT
* * *
3824528 TGAGGACAATTATGAGATATATTTCGATTGTCTCTTATTTTTTTT
128 TGAGGACAATTATAAGATATATTTCGATTGTCCCTTAATTTTTTT
3824573 ATTGTTATTT
Statistics
Matches: 156, Mismatches: 9, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
171 63 0.40
172 4 0.03
173 28 0.18
174 4 0.03
175 1 0.01
180 24 0.15
181 32 0.21
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (175 bp):
GTTTTTCAACTAAAAATTATATCTTTTTTTTCCTTCTCACCCGAATTTTAAGTCATCCTTGACTT
CAATTAACCAATGAATCCAGACACGTCTCCTATATAGTCAATTCGATTATTTTTTGAATGATTGA
GGACAATTATAAGATATATTTCGATTGTCCCTTAATTTTTTTCCC
Found at i:3826214 original size:165 final size:164
Alignment explanation
Indices: 3825743--3826325 Score: 512
Period size: 165 Copynumber: 3.5 Consensus size: 164
3825733 CATGGGTTTA
* * * * * * * *
3825743 AATTTTGAAAATTCATCAAATATTATTGTTTAA-TCACCATTAAATT-A-ATTTGCAAAAATTCA
1 AATTTTTAAAATTCATTAAATATTATTATTTAATTTA-TA-TAAATTCATTTTTG-AAAATTTAA
* *
3825805 TTCATTTTCATGAGTTTTTTAG-TTTTTTCTTTGAAATTTTCTCTTTTTTCAAAATACGTTATTT
63 TTTATTTTCATGAG--TTTTAGATTTTTTCTTTGAAA-TTTCCCTTTTTT-AAAATACGTTATTT
* * *
3825869 TCTACTTCGTAATTTTTTT-AAGGGATTTTTTTTGGTTTTT
124 TCTACTTCGTAATTTTTTTGGAGGGATTTTTCTTAGTTTTT
* * * * *
3825909 AATTTTTAGAATTCATAAAATATCATTATTT-ATTTCATAGAAAATT-ATTTTT-AAAAATTAAT
1 AATTTTTAAAATTCATTAAATATTATTATTTAATTT-ATA-TAAATTCATTTTTGAAAATTTAAT
* * * * * * *
3825971 TCATTTTCATGAGTTTTCGAATTTTTTCCTTCAATTTTTCCTTTTTCTAAAATACGTTATGTTCT
64 TTATTTTCATGAGTTTTAG-ATTTTTTCTTTGAAATTTCCCTTTTT-TAAAATACGTTATTTTCT
3826036 ACTTCGTAATTTTTTTGGAGGGATTTTTCTTAGTTTTT
127 ACTTCGTAATTTTTTTGGAGGGATTTTTCTTAGTTTTT
* * *
3826074 ATTTTTTAAAATTCATTAAATATTATCATTTAATTTATATTAATTCATTTTTGAAAATTTAATTT
1 AATTTTTAAAATTCATTAAATATTATTATTTAATTTATATAAATTCATTTTTGAAAATTTAATTT
** *
3826139 ATTTTCATGAGTTTTAGATTTTTTCTTTGAAATTTCCCTTTTTTAAGAA-ATC-AAATTTTCTTC
66 ATTTTCATGAGTTTTAGATTTTTTCTTTGAAATTTCCCTTTTTTAA-AATA-CGTTATTTTCTAC
* * *
3826202 TCCGTAAATTTTTTCGG-GGAGATTTTTCTTA-TTTTA
129 TTCGT-AATTTTTTTGGAGG-GATTTTTCTTAGTTTTT
* * * * *** * *
3826238 AAATTTTAAAATTCA-TATAATACTATTATTAAACTCCCATAAAATCACTTTTGAGAAATTTAAT
1 AATTTTTAAAATTCATTA-AATATTATTATTTAATTTATATAAATTCATTTTTGA-AAATTTAAT
*
3826302 TTA-TTTCATGAATTTT-GATTTTTT
64 TTATTTTCATGAGTTTTAGATTTTTT
3826326 TTGTGTATAT
Statistics
Matches: 346, Mismatches: 55, Indels: 35
0.79 0.13 0.08
Matches are distributed among these distances:
163 15 0.04
164 117 0.34
165 146 0.42
166 64 0.18
167 4 0.01
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (164 bp):
AATTTTTAAAATTCATTAAATATTATTATTTAATTTATATAAATTCATTTTTGAAAATTTAATTT
ATTTTCATGAGTTTTAGATTTTTTCTTTGAAATTTCCCTTTTTTAAAATACGTTATTTTCTACTT
CGTAATTTTTTTGGAGGGATTTTTCTTAGTTTTT
Found at i:3826747 original size:11 final size:11
Alignment explanation
Indices: 3826731--3826759 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
3826721 AGCCAAGGTA
3826731 TAACTTCTTCT
1 TAACTTCTTCT
3826742 TAACTTCTTCT
1 TAACTTCTTCT
3826753 TAACTTC
1 TAACTTC
3826760 ATTTTGCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.28, G:0.00, T:0.52
Consensus pattern (11 bp):
TAACTTCTTCT
Found at i:3827376 original size:20 final size:20
Alignment explanation
Indices: 3827351--3827398 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
3827341 CTCATTTATG
3827351 TCGATACACATGTA-AATGTA
1 TCGATACA-ATGTAGAATGTA
*
3827371 TCGATACAATTTAGAATGTA
1 TCGATACAATGTAGAATGTA
3827391 TCGATACA
1 TCGATACA
3827399 TCCATATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
TCGATACAATGTAGAATGTA
Found at i:3833140 original size:21 final size:21
Alignment explanation
Indices: 3833116--3833156 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
3833106 TTAAGTATAA
*
3833116 ATAT-TTTTCAAGTAATAAATC
1 ATATGTTTTCAAATAA-AAATC
3833137 ATATGTTTTCAAATAAAAAT
1 ATATGTTTTCAAATAAAAAT
3833157 AATCCAGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (21 bp):
ATATGTTTTCAAATAAAAATC
Found at i:3833254 original size:21 final size:20
Alignment explanation
Indices: 3833228--3833266 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3833218 AAGTCAAAAC
3833228 CCTAGAAAGTATCGATACACA
1 CCTAG-AAGTATCGATACACA
*
3833249 CCTAGATGTATCGATACA
1 CCTAGAAGTATCGATACA
3833267 TATTGCTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (20 bp):
CCTAGAAGTATCGATACACA
Found at i:3833300 original size:19 final size:20
Alignment explanation
Indices: 3833256--3833306 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
3833246 ACACCTAGAT
3833256 GTATCGATACATATTGCTTA
1 GTATCGATACATATTGCTTA
* * *
3833276 GTATCGATAGATGTT-CTTG
1 GTATCGATACATATTGCTTA
3833295 GTATCGATACAT
1 GTATCGATACAT
3833307 CATGAATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (20 bp):
GTATCGATACATATTGCTTA
Found at i:3833395 original size:24 final size:24
Alignment explanation
Indices: 3833368--3833439 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
3833358 TTAATACATT
* * *
3833368 ACTGTTCACCACTATTCACGTATC
1 ACTGTTCATCACTGTTCATGTATC
* *
3833392 ACTGTTCATCATTGTTCATATATC
1 ACTGTTCATCACTGTTCATGTATC
3833416 ACTGTTCATCACTGTTCATGTATC
1 ACTGTTCATCACTGTTCATGTATC
3833440 GGTACATTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.40
Consensus pattern (24 bp):
ACTGTTCATCACTGTTCATGTATC
Found at i:3834611 original size:7 final size:7
Alignment explanation
Indices: 3834600--3834635 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
3834590 TTTATTAATT
3834600 ATTTTTA
1 ATTTTTA
*
3834607 TTTTTTA
1 ATTTTTA
3834614 ATTTTTA
1 ATTTTTA
3834621 ATTTTTA
1 ATTTTTA
*
3834628 TTTTTTA
1 ATTTTTA
3834635 A
1 A
3834636 ATAATATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
ATTTTTA
Found at i:3837954 original size:73 final size:73
Alignment explanation
Indices: 3837879--3838079 Score: 264
Period size: 72 Copynumber: 2.8 Consensus size: 73
3837869 TTTAAAAGTA
* *
3837879 TTTTTGAATATGATTATATGAATTTAAATTTTTTAA-AGTATAATTTATTTTTATTTATAAAAGT
1 TTTTTG-ATTTGATTATACGAATTTAAATTTTTTAAGA-TATAATTTATTTTTATTTATAAAAGT
3837943 TTAAATTTAT
64 TTAAATTTAT
* * *
3837953 TTTTTGATTTGATTATACGACTTTAAA-TTTTTAAGATATAATTTATTTTTATTTGTATAAGTTT
1 TTTTTGATTTGATTATACGAATTTAAATTTTTTAAGATATAATTTATTTTTATTTATAAAAGTTT
*
3838017 AAATTAAT
66 AAATTTAT
* * **
3838025 TTTTTG-TTTAAATATACGCGTTTAAATTTTTTTAAGATATAATTTATTTTTATTT
1 TTTTTGATTTGATTATACGAATTTAAA-TTTTTTAAGATATAATTTATTTTTATTT
3838080 GTAAGATTAG
Statistics
Matches: 114, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
71 16 0.14
72 46 0.40
73 46 0.40
74 6 0.05
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (73 bp):
TTTTTGATTTGATTATACGAATTTAAATTTTTTAAGATATAATTTATTTTTATTTATAAAAGTTT
AAATTTAT
Found at i:3838017 original size:72 final size:73
Alignment explanation
Indices: 3837879--3838083 Score: 274
Period size: 73 Copynumber: 2.8 Consensus size: 73
3837869 TTTAAAAGTA
* * * *
3837879 TTTTTGAATATGATTATATGAATTTAAATTTTTTAA-AGTATAATTTATTTTTATTTATAAAAGT
1 TTTTTG-ATTTGATTATACGACTTTAAATTTTTTAAGA-TATAATTTATTTTTATTTGTAAAAGT
*
3837943 TTAAATTTAT
64 TTAAATTAAT
*
3837953 TTTTTGATTTGATTATACGACTTTAAA-TTTTTAAGATATAATTTATTTTTATTTGTATAAGTTT
1 TTTTTGATTTGATTATACGACTTTAAATTTTTTAAGATATAATTTATTTTTATTTGTAAAAGTTT
3838017 AAATTAAT
66 AAATTAAT
* *
3838025 TTTTTG-TTTAAATATACG-CGTTTAAATTTTTTTAAGATATAATTTATTTTTATTTGTAA
1 TTTTTGATTTGATTATACGAC-TTTAAA-TTTTTTAAGATATAATTTATTTTTATTTGTAA
3838084 GATTAGTTTG
Statistics
Matches: 118, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
70 1 0.01
71 16 0.14
72 46 0.39
73 49 0.42
74 6 0.05
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (73 bp):
TTTTTGATTTGATTATACGACTTTAAATTTTTTAAGATATAATTTATTTTTATTTGTAAAAGTTT
AAATTAAT
Found at i:3838080 original size:73 final size:74
Alignment explanation
Indices: 3837901--3838083 Score: 268
Period size: 72 Copynumber: 2.5 Consensus size: 74
3837891 ATTATATGAA
* * * *
3837901 TTTAAATTTTTTAAAG-TATAATTTATTTTTATTTATAAAAGTTTAAATTTATTTTTTGATTTGA
1 TTTAAATTTTTTTAAGATATAATTTATTTTTATTTGTAAAAGTTTAAATTAATTTTTTGATTTAA
*
3837965 TTATACGAC
66 ATATACGAC
*
3837974 TTTAAA--TTTTTAAGATATAATTTATTTTTATTTGTATAAGTTTAAATTAATTTTTTG-TTTAA
1 TTTAAATTTTTTTAAGATATAATTTATTTTTATTTGTAAAAGTTTAAATTAATTTTTTGATTTAA
3838036 ATATACG-C
66 ATATACGAC
3838044 GTTTAAATTTTTTTAAGATATAATTTATTTTTATTTGTAA
1 -TTTAAATTTTTTTAAGATATAATTTATTTTTATTTGTAA
3838084 GATTAGTTTG
Statistics
Matches: 99, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
70 1 0.01
71 23 0.23
72 39 0.39
73 36 0.36
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (74 bp):
TTTAAATTTTTTTAAGATATAATTTATTTTTATTTGTAAAAGTTTAAATTAATTTTTTGATTTAA
ATATACGAC
Found at i:3846707 original size:39 final size:38
Alignment explanation
Indices: 3846664--3846741 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 38
3846654 TAAAACCACA
*
3846664 TTTAACCCATATGGCATAGGTT-AGAATAAAAATCACTAT
1 TTTAACCC-GATGGCA-AGGTTCAGAATAAAAATCACTAT
* *
3846703 TTTAATCCGATGGCACGGTTCAGAATAAAAATCACTAT
1 TTTAACCCGATGGCAAGGTTCAGAATAAAAATCACTAT
3846741 T
1 T
3846742 CTTATCCGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
37 4 0.11
38 24 0.69
39 7 0.20
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (38 bp):
TTTAACCCGATGGCAAGGTTCAGAATAAAAATCACTAT
Done.