Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2189
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: 173662
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:8591 original size:13 final size:13
Alignment explanation
Indices: 8573--8597 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8563 GATACAAGAT
8573 CAATGTATCGATA
1 CAATGTATCGATA
8586 CAATGTATCGAT
1 CAATGTATCGAT
8598 CATTGAGTAA
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):
CAATGTATCGATA
Found at i:8675 original size:19 final size:19
Alignment explanation
Indices: 8651--8707 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
8641 AGTAATACAT
8651 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
8670 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
8683 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
8702 TGTATC
1 TGTATC
8708 AATTCAGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 9 0.28
14 1 0.03
16 6 0.19
18 1 0.03
19 15 0.47
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:8686 original size:32 final size:32
Alignment explanation
Indices: 8645--8707 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
8635 TTTTGTAGTA
8645 ATACATTGTATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCG
8677 ATACATTGTATCGATACAACACTTATGTATC
1 ATACATTGTATCGATACAACACTTATGTATC
8708 AATTCAGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (32 bp):
ATACATTGTATCGATACAACACTTATGTATCG
Found at i:8688 original size:13 final size:13
Alignment explanation
Indices: 8670--8694 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8660 ACAACACTTA
8670 TGTATCGATACAT
1 TGTATCGATACAT
8683 TGTATCGATACA
1 TGTATCGATACA
8695 ACACTTATGT
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:14419 original size:27 final size:27
Alignment explanation
Indices: 14381--14454 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
14371 TTTAGTTGAA
*
14381 AATGGGGTTGGAGTGTCCCCTCGGAGG
1 AATGGGGTTGGAGTGTCCCCTCAGAGG
14408 AATGGGGTTGGAGTGTCCCCTCAGAGG
1 AATGGGGTTGGAGTGTCCCCTCAGAGG
* *
14435 AATAGGGTTAGAGTGTCCCC
1 AATGGGGTTGGAGTGTCCCC
14455 GATGAATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.19, C:0.19, G:0.39, T:0.23
Consensus pattern (27 bp):
AATGGGGTTGGAGTGTCCCCTCAGAGG
Found at i:15654 original size:32 final size:33
Alignment explanation
Indices: 15613--15676 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
15603 TAGCCAAACT
*
15613 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
*
15645 TGTATCGATATACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
15677 TTGGTTTGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:15931 original size:32 final size:32
Alignment explanation
Indices: 15895--15960 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
15885 AGTAGAACCA
15895 AGCAAGAAACATCTAACATTCAAAGTTTTCTT
1 AGCAAGAAACATCTAACATTCAAAGTTTTCTT
15927 AGCAAGAAACATCTAACATTCAAAGTTTTCTT
1 AGCAAGAAACATCTAACATTCAAAGTTTTCTT
15959 AG
1 AG
15961 ATCAAAGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (32 bp):
AGCAAGAAACATCTAACATTCAAAGTTTTCTT
Found at i:23669 original size:39 final size:40
Alignment explanation
Indices: 23612--23692 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 40
23602 TTTTATAAAA
*
23612 GGGGAGAATGCGTAAATTTGCTAAAATTACCTTA-TTAAG
1 GGGGAGAATGCATAAATTTGCTAAAATTACCTTAGTTAAG
* * * *
23651 GGGGAGAATGTATGAATTTGTTAAAATTACTTTAGTTAAG
1 GGGGAGAATGCATAAATTTGCTAAAATTACCTTAGTTAAG
23691 GG
1 GG
23693 AGAAAGAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 29 0.81
40 7 0.19
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.33
Consensus pattern (40 bp):
GGGGAGAATGCATAAATTTGCTAAAATTACCTTAGTTAAG
Found at i:24343 original size:19 final size:18
Alignment explanation
Indices: 24319--24382 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 18
24309 TAGCCAAACT
24319 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAA-A
24338 TGTATCGAT--AC---AA
1 TGTATCGATACACAAAAA
24351 TGTATCGATACACAAAAAA
1 TGTATCGATACAC-AAAAA
24370 TTGTATCGATACA
1 -TGTATCGATACA
24383 TTGGCTTGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 11 0.29
20 12 0.32
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (18 bp):
TGTATCGATACACAAAAA
Found at i:24355 original size:13 final size:13
Alignment explanation
Indices: 24337--24362 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24327 TACACAAAAT
24337 ATGTATCGATACA
1 ATGTATCGATACA
24350 ATGTATCGATACA
1 ATGTATCGATACA
24363 CAAAAAATTG
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:24360 original size:32 final size:33
Alignment explanation
Indices: 24319--24382 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
24309 TAGCCAAACT
*
24319 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
24351 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
24383 TTGGCTTGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:26661 original size:19 final size:19
Alignment explanation
Indices: 26602--26661 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
26592 CATCGATACA
*
26602 TTGTATCGATACAACACT-T
1 TTGTATCGATACAA-ATTGT
* *
26621 ATGTATCGATACATTTATTGT
1 TTGTATCGATACA--AATTGT
26642 TTGTATCGATACAAATTGT
1 TTGTATCGATACAAATTGT
26661 T
1 T
26662 GAAATTCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
19 18 0.55
20 2 0.06
21 13 0.39
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (19 bp):
TTGTATCGATACAAATTGT
Found at i:28003 original size:64 final size:64
Alignment explanation
Indices: 27859--28624 Score: 773
Period size: 64 Copynumber: 11.9 Consensus size: 64
27849 CCAGTGGATT
* * * *
27859 CAACCTCTTCTCTAAAGCCCATACAAGCTGGTGGCAACCCTTTTTCAAAGCCCACACAAATCGGT
1 CAACC-CTTCTC-AAAGCCCACACAAGTTGGTGGCAA-CCTTCTTCAAAGCCCACACAAGTCGGT
*
27924 GA
63 GG
* * * * *
27926 AAACCTTTCTCAAAGCCCACATAAGTTGGTGACAACCTTCTTCAAAGCCCACACAAGTCGATGG
1 CAACCCTTCTCAAAGCCCACACAAGTTGGTGGCAACCTTCTTCAAAGCCCACACAAGTCGGTGG
* *
27990 CAACCCTTTTCAAAGCCCACACAAGTTGGTGGCAACCTT-TCTCAAAGCCCACACAAGTTGGTGG
1 CAACCCTTCTCAAAGCCCACACAAGTTGGTGGCAACCTTCT-TCAAAGCCCACACAAGTCGGTGG
** *
28054 CAA-CCTTCTCTAAAGCCCACACAAGTTGGTGGC-ACCCCCTTCCAAAGCCCACACAAGTCAGTG
1 CAACCCTTCTC-AAAGCCCACACAAGTTGGTGGCAACCTTCTT-CAAAGCCCACACAAGTCGGTG
28117 G
64 G
* * ** *
28118 GAA-CCTTCTCTAAAGCCCACACAAGTCGGTGGC-ACCCCCTTCCAAAGCCTACACAAGTCGGTG
1 CAACCCTTCTC-AAAGCCCACACAAGTTGGTGGCAACCTTCTT-CAAAGCCCACACAAGTCGGTG
28181 G
64 G
* * ** *** *
28182 -AAACCTTCTTCAAAGCCTACACAAGTCAGTGATGACCTTCTTCAAAGCCCATACAAGTCGGTGG
1 CAACCCTTC-TCAAAGCCCACACAAGTTGGTGGCAACCTTCTTCAAAGCCCACACAAGTCGGTGG
* * * *
28246 CAACCCTTCTCAAAGCCCACATAAGTCGGTGGCAACTTTC-TCTAAAGCCCACACAAGTCGGTAG
1 CAACCCTTCTCAAAGCCCACACAAGTTGGTGGCAACCTTCTTC-AAAGCCCACACAAGTCGGTGG
* ** * **
28310 CACCCCCTTC-CAAAGCCCACACAAGTTAATGGCAACCTTCTTTAAAGCCCACACAAGTCAATGG
1 CA-ACCCTTCTCAAAGCCCACACAAGTTGGTGGCAACCTTCTTCAAAGCCCACACAAGTCGGTGG
** * **
28374 CAACCCTTCTCAAAGCCCACACAAGTTAATGGCAACCTTCTTTAAAGCCCACACAAGTCAATGG
1 CAACCCTTCTCAAAGCCCACACAAGTTGGTGGCAACCTTCTTCAAAGCCCACACAAGTCGGTGG
* ** *
28438 CAACCCTTCTCAAAGCCCACACAAGTCGGTGGCATTC-TCTTCGAAAGCCCACACAAGTTGGTGG
1 CAACCCTTCTCAAAGCCCACACAAGTTGGTGGCAACCTTCTTC-AAAGCCCACACAAGTCGGTGG
* * *** * * *
28502 CAA-CCTCCTTCAAACCCCACACAAGTCAATAGCAACCTT-TCTCAAAGCCCACACAAGCCTGTG
1 CAACCCTTC-TCAAAGCCCACACAAGTTGGTGGCAACCTTCT-TCAAAGCCCACACAAGTCGGTG
28565 G
64 G
* * * *
28566 CAACCCCTCTCAAAAGCCCATACAAGTTGGTGGCAACCCT-TTCAAAAGCCTACACAAGT
1 CAACCCTTCTC-AAAGCCCACACAAGTTGGTGGCAACCTTCTTC-AAAGCCCACACAAGT
28625 TTGTGGCATC
Statistics
Matches: 595, Mismatches: 85, Indels: 40
0.83 0.12 0.06
Matches are distributed among these distances:
63 29 0.05
64 474 0.80
65 83 0.14
66 5 0.01
67 4 0.01
ACGTcount: A:0.31, C:0.34, G:0.16, T:0.20
Consensus pattern (64 bp):
CAACCCTTCTCAAAGCCCACACAAGTTGGTGGCAACCTTCTTCAAAGCCCACACAAGTCGGTGG
Found at i:28035 original size:96 final size:95
Alignment explanation
Indices: 27872--28624 Score: 702
Period size: 96 Copynumber: 7.8 Consensus size: 95
27862 CCTCTTCTCT
* * **
27872 AAAGCCCATACAAG-CTGGTGGCAACCCTTTTTCAAAGCCCACACAAATCGGTGAAAACCTTTCT
1 AAAGCCCACACAAGTC-GGTGGCAACCC-TTTTCAAAGCCCACACAAGTCGGTGGCAACC-TTCT
* * *
27936 CAAAGCCCACATAAGTTGGTGACAACCTTCTTC
63 CAAAGCCCACACAAGTCGGTGGCAACCTTCTTC
* *
27969 AAAGCCCACACAAGTCGATGGCAACCCTTTTCAAAGCCCACACAAGTTGGTGGCAACCTTTCTCA
1 AAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAAGCCCACACAAGTCGGTGGCAACC-TTCTCA
*
28034 AAGCCCACACAAGTTGGTGGCAACCTTC-TC
65 AAGCCCACACAAGTCGGTGGCAACCTTCTTC
* * * * * *
28064 TAAAGCCCACACAAGTTGGTGGCACCCCCTTCCAAAGCCCACACAAGTCAGTGGGAACCTTCTCT
1 -AAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAAGCCCACACAAGTCGGTGGCAACCTTCTC-
**
28129 AAAGCCCACACAAGTCGGTGGC-ACCCCCTTCC
64 AAAGCCCACACAAGTCGGTGGCAACCTTCTT-C
* * * * ***
28161 AAAGCCTACACAAGTCGGTGG-AAACCTTCTTCAAAGCCTACACAAGTCAGTGATGACCTTCTTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTT-TTCAAAGCCCACACAAGTCGGTGGCAACCTTC-TC
*
28225 AAAGCCCATACAAGTCGGTGGCAACCCTTC-TC
64 AAAGCCCACACAAGTCGGTGGCAA-CCTTCTTC
* * *
28257 AAAGCCCACATAAGTCGGTGGCAA--CTTTCTCTAAAGCCCACACAAGTCGGTAGCACCCCCTTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTT-TC-AAAGCCCACACAAGTCGGTGGCA--ACCTTC
*** *
28320 -CAAAGCCCACACAAGTTAATGGCAACCTTCTTT
62 TCAAAGCCCACACAAGTCGGTGGCAACCTTCTTC
** * *** *
28353 AAAGCCCACACAAGTCAATGGCAACCCTTCTCAAAGCCCACACAAGTTAATGGCAACCTTCTTTA
1 AAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAAGCCCACACAAGTCGGTGGCAACCTTC-TCA
**
28418 AAGCCCACACAAGTCAATGGCAACCCTTC-TC
65 AAGCCCACACAAGTCGGTGGCAA-CCTTCTTC
** * * *
28449 AAAGCCCACACAAGTCGGTGGC-ATTCTCTTCGAAAGCCCACACAAGTTGGTGGCAACCTCCTTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTTTC-AAAGCCCACACAAGTCGGTGGCAACCTTC-TC
* ** *
28513 AAACCCCACACAAGTCAATAGCAACCTT-TCTC
64 AAAGCCCACACAAGTCGGTGGCAACCTTCT-TC
* * * * * *
28545 AAAGCCCACACAAGCCTGTGGCAACCCCTCTCAAAAGCCCATACAAGTTGGTGGCAACCCTT-TC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTTTC-AAAGCCCACACAAGTCGGTGGCAA-CCTTCTC
*
28609 AAAAGCCTACACAAGT
64 -AAAGCCCACACAAGT
28625 TTGTGGCATC
Statistics
Matches: 548, Mismatches: 82, Indels: 52
0.80 0.12 0.08
Matches are distributed among these distances:
94 6 0.01
95 34 0.06
96 416 0.76
97 77 0.14
98 15 0.03
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.20
Consensus pattern (95 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAAGCCCACACAAGTCGGTGGCAACCTTCTCAA
AGCCCACACAAGTCGGTGGCAACCTTCTTC
Found at i:28632 original size:32 final size:31
Alignment explanation
Indices: 27872--28624 Score: 629
Period size: 32 Copynumber: 23.5 Consensus size: 31
27862 CCTCTTCTCT
*
27872 AAAGCCCATACAAG-CTGGTGGCAACCCTTTTTC
1 AAAGCCCACACAAGTC-GGTGGCAACCC--TTTC
* ** *
27905 AAAGCCCACACAAATCGGTGAAAACCTTTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTT-TC
* * * *
27937 AAAGCCCACATAAGTTGGTGACAACCTTCTTC
1 AAAGCCCACACAAGTCGGTGGCAACCCT-TTC
*
27969 AAAGCCCACACAAGTCGATGGCAACCCTTTTC
1 AAAGCCCACACAAGTCGGTGGCAACCC-TTTC
* *
28001 AAAGCCCACACAAGTTGGTGGCAACCTTTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTT-TC
*
28033 AAAGCCCACACAAGTTGGTGGCAA-CCTTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTT-TC
* * *
28064 TAAAGCCCACACAAGTTGGTGGCACCCCCTTCC
1 -AAAGCCCACACAAGTCGGTGGCA-ACCCTTTC
* *
28097 AAAGCCCACACAAGTCAGTGGGAA-CCTTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTT-TC
* *
28128 TAAAGCCCACACAAGTCGGTGGCACCCCCTTCC
1 -AAAGCCCACACAAGTCGGTGGCA-ACCCTTTC
* * *
28161 AAAGCCTACACAAGTCGGTGGAAACCTTCTTC
1 AAAGCCCACACAAGTCGGTGGCAACCCT-TTC
* * *** *
28193 AAAGCCTACACAAGTCAGTGATGACCTTCTTC
1 AAAGCCCACACAAGTCGGTGGCAACCCT-TTC
*
28225 AAAGCCCATACAAGTCGGTGGCAACCCTTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTT-TC
* *
28257 AAAGCCCACATAAGTCGGTGGCAA-CTTTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTT-TC
* * *
28288 TAAAGCCCACACAAGTCGGTAGCACCCCCTTCC
1 -AAAGCCCACACAAGTCGGTGGCA-ACCCTTTC
***
28321 AAAGCCCACACAAGTTAATGGCAACCTTCTTT-
1 AAAGCCCACACAAGTCGGTGGCAACC--CTTTC
**
28353 AAAGCCCACACAAGTCAATGGCAACCCTTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTT-TC
***
28385 AAAGCCCACACAAGTTAATGGCAACCTTCTTT-
1 AAAGCCCACACAAGTCGGTGGCAACC--CTTTC
**
28417 AAAGCCCACACAAGTCAATGGCAACCCTTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTT-TC
**
28449 AAAGCCCACACAAGTCGGTGGC-ATTCTCTTC
1 AAAGCCCACACAAGTCGGTGGCAACCCT-TTC
* *
28480 GAAAGCCCACACAAGTTGGTGGCAACCTCCTTC
1 -AAAGCCCACACAAGTCGGTGGCAACC-CTTTC
* ** * *
28513 AAACCCCACACAAGTCAATAGCAACCTTTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTT-TC
* * *
28545 AAAGCCCACACAAGCCTGTGGCAACCCCTCTC
1 AAAGCCCACACAAGTCGGTGGCAA-CCCTTTC
* *
28577 AAAAGCCCATACAAGTTGGTGGCAACCCTTTC
1 -AAAGCCCACACAAGTCGGTGGCAACCCTTTC
*
28609 AAAAGCCTACACAAGT
1 -AAAGCCCACACAAGT
28625 TTGTGGCATC
Statistics
Matches: 597, Mismatches: 91, Indels: 65
0.79 0.12 0.09
Matches are distributed among these distances:
30 10 0.02
31 31 0.05
32 484 0.81
33 56 0.09
34 16 0.03
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.20
Consensus pattern (31 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTTC
Found at i:28753 original size:52 final size:52
Alignment explanation
Indices: 28708--29371 Score: 393
Period size: 52 Copynumber: 12.9 Consensus size: 52
28698 TTTAAGTTCG
* * * *
28708 ATATCGCTGGCCTTGAATTAGTATATTGGCACATTTACCATCTTTAAGTCTA
1 ATATCGCTAGCCTTGAATCAGCATATTGGCACATTTATCATCTTTAAGTCTA
* * * * * * * *
28760 ATGTTGCTAGTCTTAAATTAGCACATTGGCACATTTTTC-TTTCTTAAGTCTA
1 ATATCGCTAGCCTTGAATCAGCATATTGGCACATTTATCATCT-TTAAGTCTA
* * * *
28812 ATATCGCTAGCCTTGAATCAGCATATTTGCGCCTTTATCATCTTTAAGTCCA
1 ATATCGCTAGCCTTGAATCAGCATATTGGCACATTTATCATCTTTAAGTCTA
* * * * * * *
28864 ATATCGCTGGCTTTGAATCAACATATTAGCACATTTTTCTTTTTTAAGTCTA
1 ATATCGCTAGCCTTGAATCAGCATATTGGCACATTTATCATCTTTAAGTCTA
* * * * * ** * *
28916 ATATCGTTGGCCTTAAATCAACATATCGGTGTC-TTTGTCATCTTTAAGTCCA
1 ATATCGCTAGCCTTGAATCAGCATATTGG-CACATTTATCATCTTTAAGTCTA
* * * * * * *
28968 ATGTTGCTAGCCTTGAATCAGCACATTGGCACTTTTTTC-TTTCTTAAGTCCA
1 ATATCGCTAGCCTTGAATCAGCATATTGGCACATTTATCATCT-TTAAGTCTA
* * * * * ** *
29020 ATATCGCTGGCCTTAAATCAGCATATTGACATC-TTTAACAT-TCCTAAACCCA
1 ATATCGCTAGCCTTGAATCAGCATATTGGCA-CATTTATCATCT-TTAAGTCTA
* * * * * * * *
29072 ATGTCGTTGGCCTTGAATCAGTACATTGGCA-TTCTTCTCATCTTCAAGTCTA
1 ATATCGCTAGCCTTGAATCAGCATATTGGCACAT-TTATCATCTTTAAGTCTA
* * * * *
29124 ATATCACTAGCCGTGAATCAGCACATTGGCACATTTATCATCCTTAAGCCTA
1 ATATCGCTAGCCTTGAATCAGCATATTGGCACATTTATCATCTTTAAGTCTA
* * * *
29176 ATATCACTAGCCTTGAATCAGCACATTGGCA-A-CTGTCATCTTTAAGT-TCA
1 ATATCGCTAGCCTTGAATCAGCATATTGGCACATTTATCATCTTTAAGTCT-A
** * * * *
29226 ATATTTCTGGCCTTGAATCAACATA-T-G--TA-TTATCATCTTTAAGTCCA
1 ATATCGCTAGCCTTGAATCAGCATATTGGCACATTTATCATCTTTAAGTCTA
* * * * * * * * *
29273 ATGTTGCTAGCCGTGAATCGGCACATTAGCACCTTTATCATCCTTAAGTCCA
1 ATATCGCTAGCCTTGAATCAGCATATTGGCACATTTATCATCTTTAAGTCTA
* ** * * * *
29325 ATATTGCTAGCCTTGAATTGGCACATTAGCACCTTTATCATCATTAA
1 ATATCGCTAGCCTTGAATCAGCATATTGGCACATTTATCATCTTTAA
29372 ATCAGATGTT
Statistics
Matches: 476, Mismatches: 117, Indels: 38
0.75 0.19 0.06
Matches are distributed among these distances:
47 33 0.07
48 2 0.00
49 3 0.01
50 32 0.07
51 7 0.01
52 392 0.82
53 7 0.01
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (52 bp):
ATATCGCTAGCCTTGAATCAGCATATTGGCACATTTATCATCTTTAAGTCTA
Found at i:28816 original size:104 final size:103
Alignment explanation
Indices: 28689--29395 Score: 501
Period size: 104 Copynumber: 6.9 Consensus size: 103
28679 ATTTATCAAA
* * * * *
28689 TTTTCTTTCTTTAAGT-TCGATATCGCTGGCCTTGAATTAGTATATTGGCACATTTACCATCTTT
1 TTTTCTTTC-TTAAGTCT-AATATCGCTGGCCTTAAATCAGCATATTGGCAC-TTTATCATCTTT
* * * *
28753 AAGTCTAATGTTGCTAGTCTTAAATTAGCACATTGGCACAT
63 AAGTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCACAT
* *
28794 TTTTCTTTCTTAAGTCTAATATCGCTAGCCTTGAATCAGCATATTTGCGC-CTTTATCATCTTTA
1 TTTTCTTTCTTAAGTCTAATATCGCTGGCCTTAAATCAGCATA-TTG-GCACTTTATCATCTTTA
* * * * * * *
28858 AGTCCAATATCGCTGGCTTTGAATCAACATATTAGCACAT
64 AGTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCACAT
* * * * ** *
28898 TTTTCTTTTTTAAGTCTAATATCGTTGGCCTTAAATCAACATATCGGTGTCTTTGTCATCTTTAA
1 TTTTCTTTCTTAAGTCTAATATCGCTGGCCTTAAATCAGCATATTGG-CACTTTATCATCTTTAA
*
28963 GTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCACTT
65 GTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCACAT
* * * *
29002 TTTTCTTTCTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGACATCTTTAACAT-TCCTA
1 TTTTCTTTCTTAAGTCTAATATCGCTGGCCTTAAATCAGCATATTGGCA-CTTTATCATCT-TTA
** * * * *
29066 AACCCAATGTCGTTGGCCTTGAATCAGTACATTGG--CAT
64 AGTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCACAT
* * * * * * * *
29104 TCTTCTCATCTTCAAGTCTAATATCACTAGCCGTGAATCAGCACATTGGCACATTTATCATCCTT
1 TTTTCT-TTCTT-AAGTCTAATATCGCTGGCCTTAAATCAGCATATTGGCAC-TTTATCATCTTT
* **
29169 AAG-CCTAATATCACTAGCCTTGAATCAGCACATTGGCA-A-
63 AAGTCC-AATGTTGCTAGCCTTGAATCAGCACATTGGCACAT
* * * ** * * *
29208 CTGTC-ATCTTTAAGT-TCAATATTTCTGGCCTTGAATCAACATA-T-GTA--TTATCATCTTTA
1 TTTTCTTTC-TTAAGTCT-AATATCGCTGGCCTTAAATCAGCATATTGGCACTTTATCATCTTTA
* * * *
29267 AGTCCAATGTTGCTAGCCGTGAATCGGCACATTAGCACCT
64 AGTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCACAT
* * * * * * * ** * * *
29307 TTATCATCCTTAAGTCCAATATTGCTAGCCTTGAATTGGCACATTAGCACCTTTATCATCATTAA
1 TTTTCTTTCTTAAGTCTAATATCGCTGGCCTTAAATCAGCATATTGGCA-CTTTATCATCTTTAA
*
29372 AT-CAGATGTTGC-AGGCCTTGAATC
65 GTCCA-ATGTTGCTA-GCCTTGAATC
29396 TGTACACTAG
Statistics
Matches: 473, Mismatches: 101, Indels: 57
0.75 0.16 0.09
Matches are distributed among these distances:
97 39 0.08
98 2 0.00
99 29 0.06
100 4 0.01
101 4 0.01
102 35 0.07
103 15 0.03
104 328 0.69
105 15 0.03
106 2 0.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.37
Consensus pattern (103 bp):
TTTTCTTTCTTAAGTCTAATATCGCTGGCCTTAAATCAGCATATTGGCACTTTATCATCTTTAAG
TCCAATGTTGCTAGCCTTGAATCAGCACATTGGCACAT
Found at i:28980 original size:156 final size:153
Alignment explanation
Indices: 28803--29342 Score: 481
Period size: 156 Copynumber: 3.5 Consensus size: 153
28793 TTTTTCTTTC
* * * * * *
28803 TTAAGTCTAATATCGCTAGCCTTGAATCAGCATATTTGCGCCTTTATCATCTTTAAGTCCAATAT
1 TTAAGTCCAATATCGCTAGCCGTGAATCAGCACATTGGCACCTTTATCATCCTTAAGTCCAATAT
* * * * *
28868 CGCTGGCTTTGAATCAACATATTAGCACATTTTTCTTTTTTAAGTCTAATATCGTTGGCCTTAAA
66 CGCTAGCCTTGAATCAGCATATT-GCACATTTTTCATTTTTAAGTCTAATATCGTTGGCCTTGAA
*
28933 TCAACATATCGGTGTCTTTGTCATCT
130 TCAACATAT-GGTGTC-TTATCATCT
* * * * * * *
28959 TTAAGTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCACTTTTTTCTTTCTTAAGTCCAATAT
1 TTAAGTCCAATATCGCTAGCCGTGAATCAGCACATTGGCACCTTTATCATCCTTAAGTCCAATAT
* * * ** ** * *
29024 CGCTGGCCTTAAATCAGCATATTG-ACATCTTTAACATTCCTAAACCCAATGTCGTTGGCCTTGA
66 CGCTAGCCTTGAATCAGCATATTGCACAT-TTT-TCATTTTTAAGTCTAATATCGTTGGCCTTGA
*
29088 ATCAGTACAT-TGGCAT-TCTTCTCATCT
129 ATCA--ACATATGG--TGTCTTATCATCT
* * * *
29115 TCAAGTCTAATATCACTAGCCGTGAATCAGCACATTGGCACATTTATCATCCTTAAG-CCTAATA
1 TTAAGTCCAATATCGCTAGCCGTGAATCAGCACATTGGCACCTTTATCATCCTTAAGTCC-AATA
* * * * * *
29179 TCACTAGCCTTGAATCAGCACATTGGCA-A-CTGTCATCTTTAAGT-TCAATAT-TTCTGGCCTT
65 TCGCTAGCCTTGAATCAGCATATT-GCACATTTTTCATTTTTAAGTCT-AATATCGT-TGGCCTT
*
29240 GAATCAACATA---TGTATTATCATCT
127 GAATCAACATATGGTGTCTTATCATCT
* * * *
29264 TTAAGTCCAATGTTGCTAGCCGTGAATCGGCACATTAGCACCTTTATCATCCTTAAGTCCAATAT
1 TTAAGTCCAATATCGCTAGCCGTGAATCAGCACATTGGCACCTTTATCATCCTTAAGTCCAATAT
*
29329 TGCTAGCCTTGAAT
66 CGCTAGCCTTGAAT
29343 TGGCACATTA
Statistics
Matches: 309, Mismatches: 61, Indels: 35
0.76 0.15 0.09
Matches are distributed among these distances:
148 1 0.00
149 75 0.24
150 2 0.01
152 4 0.01
153 1 0.00
154 27 0.09
155 7 0.02
156 181 0.59
157 5 0.02
158 6 0.02
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (153 bp):
TTAAGTCCAATATCGCTAGCCGTGAATCAGCACATTGGCACCTTTATCATCCTTAAGTCCAATAT
CGCTAGCCTTGAATCAGCATATTGCACATTTTTCATTTTTAAGTCTAATATCGTTGGCCTTGAAT
CAACATATGGTGTCTTATCATCT
Found at i:30042 original size:20 final size:20
Alignment explanation
Indices: 30017--30075 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
30007 ACTGCCAAGG
30017 AAATGTATCGATACATTAGT
1 AAATGTATCGATACATTAGT
***
30037 AAATGTATCGATACATGCTT
1 AAATGTATCGATACATTAGT
30057 ACAATTGTATCGATACATT
1 A-AA-TGTATCGATACATT
30076 TCTCATTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 18 0.55
21 2 0.06
22 13 0.39
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
Consensus pattern (20 bp):
AAATGTATCGATACATTAGT
Found at i:31087 original size:22 final size:22
Alignment explanation
Indices: 31034--31087 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
31024 GCCCATATTT
* *
31034 ATGCATTTTATGTCTTCATTCC
1 ATGCATTTTGTGTCATCATTCC
31056 ATGCATTTTGTGTCATCATTCC
1 ATGCATTTTGTGTCATCATTCC
31078 ATGCATTTTG
1 ATGCATTTTG
31088 ACATGTCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (22 bp):
ATGCATTTTGTGTCATCATTCC
Found at i:34683 original size:52 final size:52
Alignment explanation
Indices: 34592--34714 Score: 135
Period size: 52 Copynumber: 2.4 Consensus size: 52
34582 TCTCTGAGAA
* * * * *
34592 GATACTCCAACCCCATTTTTACTTCTAAAATGCTAAATTTTTCTTTTTTAAG
1 GATACTCCAACCCTATTTTTACTTATAAAATGCTAAATTTTTCATCTCTAAG
* * *
34644 GATACTCCAACCCTGTTTTTACTTATGAAACAT-C-GAATTTTTCATCTCTAGG
1 GATACTCCAACCCTATTTTTACTTAT-AAA-ATGCTAAATTTTTCATCTCTAAG
34696 GATACTCC-ACCCTATTTTT
1 GATACTCCAACCCTATTTTT
34715 TCACTTTCAC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
51 10 0.17
52 44 0.73
53 4 0.07
54 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (52 bp):
GATACTCCAACCCTATTTTTACTTATAAAATGCTAAATTTTTCATCTCTAAG
Found at i:38534 original size:19 final size:17
Alignment explanation
Indices: 38493--38531 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
38483 ATCTATAAGT
*
38493 TATTTATT-TAATTTTA
1 TATTTATTATAAATTTA
38509 TATTTATTATAAATTTA
1 TATTTATTATAAATTTA
38526 TTATTT
1 -TATTT
38532 TATAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 7 0.35
18 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTATTATAAATTTA
Found at i:39575 original size:15 final size:16
Alignment explanation
Indices: 39550--39582 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
39540 ATTTATATCG
*
39550 TATTAATATTATTTTT
1 TATTAATATTATGTTT
39566 TATT-ATATTATGTTT
1 TATTAATATTATGTTT
39581 TA
1 TA
39583 ACTATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TATTAATATTATGTTT
Found at i:39749 original size:17 final size:17
Alignment explanation
Indices: 39729--39785 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
39719 TTATGCTCGT
39729 ATTATTTTTAAATTATA
1 ATTATTTTTAAATTATA
* * *
39746 ATTATATTTAAAGTATT
1 ATTATTTTTAAATTATA
*
39763 ATATATTTATATAAATTTTA
1 AT-TATTT-T-TAAATTATA
39783 ATT
1 ATT
39786 CCGTAATTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
17 16 0.53
18 4 0.13
19 2 0.07
20 8 0.27
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTATTTTTAAATTATA
Found at i:39777 original size:20 final size:20
Alignment explanation
Indices: 39740--39777 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
39730 TTATTTTTAA
*
39740 ATTATAATTATATTTAAAGT
1 ATTATAATTATATATAAAGT
39760 ATTATATATT-TATATAAA
1 ATTATA-ATTATATATAAA
39778 TTTTAATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
ATTATAATTATATATAAAGT
Found at i:41414 original size:2 final size:2
Alignment explanation
Indices: 41402--41433 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
41392 TGCTTGATCC
41402 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
41434 AATAAGAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:42373 original size:20 final size:20
Alignment explanation
Indices: 42328--42364 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
42318 ATTACACACA
*
42328 AATTAAATTAAAATTATAAT
1 AATTAAATTAAAATTAAAAT
42348 AATTAAA-TAAAATTAAA
1 AATTAAATTAAAATTAAA
42365 GATATTTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AATTAAATTAAAATTAAAAT
Found at i:43567 original size:20 final size:20
Alignment explanation
Indices: 43542--43593 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
43532 TACTCAGATG
*
43542 TATCGATACATTTTTCAATA
1 TATCGATACATTTATCAATA
* * *
43562 TATCGATACATGTATGAATG
1 TATCGATACATTTATCAATA
43582 TATCGATACATT
1 TATCGATACATT
43594 CTGTCTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
TATCGATACATTTATCAATA
Found at i:44536 original size:20 final size:21
Alignment explanation
Indices: 44504--44542 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
44494 AGCCTTTGAC
*
44504 CATGCATTTTTTATTATGTTT
1 CATGCATTTTTTAATATGTTT
44525 CATGCA-TTTTTAATATGT
1 CATGCATTTTTTAATATGT
44543 CCAGCATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (21 bp):
CATGCATTTTTTAATATGTTT
Found at i:46452 original size:54 final size:52
Alignment explanation
Indices: 46341--46461 Score: 145
Period size: 54 Copynumber: 2.3 Consensus size: 52
46331 CACTAATCTT
* * *
46341 TGTATCGATACATGCAGGCATATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGAATATTTGCCCAGATGTATCGAGACACTATAAAA
* * *
46393 GGTATCGATACATGCAGGAAAATTTTTGCCCAGATGTAT-GAGACACTATGTAAA
1 TGTATCGATACATGCAGG--AATATTTGCCCAGATGTATCGAGACACTAT-AAAA
46447 TGTATCGGATACATG
1 TGTATC-GATACATG
46462 AGCAACTTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
52 17 0.29
53 8 0.14
54 25 0.43
55 8 0.14
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGAATATTTGCCCAGATGTATCGAGACACTATAAAA
Found at i:60335 original size:22 final size:22
Alignment explanation
Indices: 60290--60335 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
60280 AGATGCACGG
*
60290 TTAATATTTTAATATATTAAAA
1 TTAATATTTTAATATATAAAAA
*
60312 TTAAT-TTTTAATTTATAAAGAA
1 TTAATATTTTAATATATAAA-AA
60334 TT
1 TT
60336 TTATATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TTAATATTTTAATATATAAAAA
Found at i:61774 original size:20 final size:20
Alignment explanation
Indices: 61746--61820 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
61736 TTTTACCCTG
61746 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
61766 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
61786 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
61806 ATGTATCGATACATT
1 ATGTATCGATACATT
61821 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:61790 original size:40 final size:39
Alignment explanation
Indices: 61746--61823 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
61736 TTTTACCCTG
* *
61746 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
61786 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
61824 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:62757 original size:23 final size:23
Alignment explanation
Indices: 62730--62786 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
62720 AGCCTTTGAC
*
62730 CATGCATTTTTTTTATTGTGTTT
1 CATGCATTTTTTTTATTATGTTT
62753 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
62776 CATGCATTTTT
1 CATGCATTTTT
62787 AACATGTCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.63
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:65039 original size:14 final size:13
Alignment explanation
Indices: 65020--65064 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
65010 ACCTAATCCT
*
65020 AAAAAAAAGAAAGA
1 AAAAAAAACAAA-A
65034 AAAAAAAAC-AAA
1 AAAAAAAACAAAA
*
65046 AAAAAAACCAAAA
1 AAAAAAAACAAAA
65059 AAAAAA
1 AAAAAA
65065 CCTTTTCACC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 9 0.32
13 11 0.39
14 8 0.29
ACGTcount: A:0.89, C:0.07, G:0.04, T:0.00
Consensus pattern (13 bp):
AAAAAAAACAAAA
Found at i:65048 original size:12 final size:12
Alignment explanation
Indices: 65020--65064 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
65010 ACCTAATCCT
*
65020 AAAAAAAAGAA-
1 AAAAAAAAAAAC
*
65031 AGAAAAAAAAAC
1 AAAAAAAAAAAC
*
65043 AAAAAAAAAACC
1 AAAAAAAAAAAC
65055 AAAAAAAAAA
1 AAAAAAAAAA
65065 CCTTTTCACC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.89, C:0.07, G:0.04, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:65065 original size:12 final size:12
Alignment explanation
Indices: 65033--65066 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
65023 AAAAAGAAAG
65033 AAAAAAAAA-CA
1 AAAAAAAAACCA
65044 AAAAAAAAACCA
1 AAAAAAAAACCA
65056 AAAAAAAAACC
1 AAAAAAAAACC
65067 TTTTCACCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAACCA
Found at i:74832 original size:25 final size:26
Alignment explanation
Indices: 74802--74871 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
74792 CTTTACACCC
*
74802 CAAAAAAAATAAAAAAAGAAACAA-AA
1 CAAAAAAAACAAAAAAA-AAACAACAA
74828 CAAAAAAAACAAAAAAAAAACAACAA
1 CAAAAAAAACAAAAAAAAAACAACAA
* *
74854 GAAAAAATAGCAAAAAAA
1 CAAAAAA-AACAAAAAAA
74872 TAGAAGGGTC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
25 6 0.15
26 24 0.62
27 9 0.23
ACGTcount: A:0.83, C:0.10, G:0.04, T:0.03
Consensus pattern (26 bp):
CAAAAAAAACAAAAAAAAAACAACAA
Found at i:74858 original size:11 final size:9
Alignment explanation
Indices: 74802--74845 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
74792 CTTTACACCC
74802 CAAAAAAAA
1 CAAAAAAAA
*
74811 -TAAAAAAA
1 CAAAAAAAA
* *
74819 GAAACAAAA
1 CAAAAAAAA
74828 CAAAAAAAA
1 CAAAAAAAA
74837 CAAAAAAAA
1 CAAAAAAAA
74846 AACAACAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
8 7 0.24
9 22 0.76
ACGTcount: A:0.86, C:0.09, G:0.02, T:0.02
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:74858 original size:14 final size:13
Alignment explanation
Indices: 74803--74871 Score: 68
Period size: 14 Copynumber: 5.2 Consensus size: 13
74793 TTTACACCCC
*
74803 AAAAAAAA-TAAA
1 AAAAAAAACAAAA
*
74815 AAAAGAAACAAAA
1 AAAAAAAACAAAA
74828 CAAAAAAAACAAAA
1 -AAAAAAAACAAAA
*
74842 AAAAAACAACAAGA
1 AAAAAA-AACAAAA
* *
74856 AAAAATAGCAAAA
1 AAAAAAAACAAAA
74869 AAA
1 AAA
74872 TAGAAGGGTC
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
12 7 0.15
13 17 0.36
14 23 0.49
ACGTcount: A:0.84, C:0.09, G:0.04, T:0.03
Consensus pattern (13 bp):
AAAAAAAACAAAA
Found at i:76160 original size:28 final size:28
Alignment explanation
Indices: 76089--77191 Score: 1490
Period size: 28 Copynumber: 38.6 Consensus size: 28
76079 AATATTCATT
*
76089 CCTTTCAAAGCCCACAAATCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
76117 TCTTTTCAAAGCCCACAAGTCAGTGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
76146 CCTTTCAAAGCCCACAAGTCAGTGGTAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
76174 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
76202 CCTTTCAATGCCCATAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
76230 CCTTTCGAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
76258 CCTTGCGAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
76286 TCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
76314 CCTTTCAAAGCCCACATAAGTCAGTGGCAC
1 CCTTTCAAAGCCCAC--AAGTCAGTGGCAC
* *
76344 TCCTTTTAAAGCCCACGCAAGTCAATGGCAC
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCAC
* *
76375 CTTTTCAAAGCCCACGAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
76403 TCATTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
76431 CATTTC-AAGCCCACGAGTCAGTGGTAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
76458 CTTTTCAAAGCCCACGAGTCAGTGGCA-
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
76485 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
76513 TCTTTTCAAAGTCCACAAGTCAGTGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
76542 CCTTTCAAAGCCCACAAGTCAGTGGCACC
1 CCTTTCAAAGCCCACAAGTCAGTGGCA-C
* *
76571 CCTTTCAAAGCCCACGCAAATTAGTGGCAC
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCAC
* *
76601 CCTTTTAAAGCCCACAAGTTAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
76629 TCTTTTCAAAGCTCACAAGACAGTGGCACC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA-C
76659 CCTTTCAAAGCCCACAAGTCAGTGGCACC
1 CCTTTCAAAGCCCACAAGTCAGTGGCA-C
76688 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
76716 TCTTTTCAAAGCCCACACGAGTCGGTGGTAAC
1 -CCTTTCAAAGCCCACA--AGTCAGTGG-CAC
** *
76748 TTTTTTCAAAGCCCACAAATCAGTGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
76777 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
76805 CCTTTTCAAAGCCCACGCAAGTAAGTGGCAC
1 CC-TTTCAAAGCCCA--CAAGTCAGTGGCAC
*
76836 CCTTTCAAAGCCCACAAGTTAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
76864 CCTTTCAAAGCCCACAAGTTAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
76892 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
76920 TCTTTTCAAAGCCCACAAGTTAGTGGCAT
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
76949 CCTTTCAAAGCCCACAAGTCAGTGGCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
76977 CCTTTCAAAGCCCGCAAATCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
77005 TCTTTTCAAAGCCCACGAGTCAGTGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
77034 CCTTTCAAAGCCCACAAGTCAGTGGTAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
77062 TCTTTTCAAAGCCCACAAGTTAGTGGCAT
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
77091 CTTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
77119 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
77147 CCTTTCAAAGCCCACAAGTTAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
77175 TCTTTTCAAAGCCCACA
1 -CCTTTCAAAGCCCACA
77192 CGAGTTGGTG
Statistics
Matches: 962, Mismatches: 88, Indels: 48
0.88 0.08 0.04
Matches are distributed among these distances:
27 49 0.05
28 517 0.54
29 259 0.27
30 59 0.06
31 59 0.06
32 18 0.02
33 1 0.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.21
Consensus pattern (28 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCAC
Found at i:77827 original size:20 final size:20
Alignment explanation
Indices: 77799--77873 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
77789 TTTTACCCTG
77799 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
77819 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
77839 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
77859 ATGTATCGATACATT
1 ATGTATCGATACATT
77874 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:77843 original size:40 final size:39
Alignment explanation
Indices: 77799--77876 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
77789 TTTTACCCTG
* *
77799 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
77839 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
77877 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:78809 original size:21 final size:21
Alignment explanation
Indices: 78783--78837 Score: 83
Period size: 23 Copynumber: 2.5 Consensus size: 21
78773 AGCCTTTGAC
*
78783 CATGCATTTTTTATTCTGTTT
1 CATGCATTTTTTATTATGTTT
78804 CATGCATTTTTTTTATTATGTTT
1 CATGCA--TTTTTTATTATGTTT
78827 CATGCATTTTT
1 CATGCATTTTT
78838 AACATGTCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 11 0.35
23 20 0.65
ACGTcount: A:0.16, C:0.13, G:0.09, T:0.62
Consensus pattern (21 bp):
CATGCATTTTTTATTATGTTT
Found at i:78819 original size:23 final size:23
Alignment explanation
Indices: 78789--78837 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
78779 TGACCATGCA
*
78789 TTTTTTATTCTGTTTCATGCATT
1 TTTTTTATTATGTTTCATGCATT
78812 TTTTTTATTATGTTTCATGCATT
1 TTTTTTATTATGTTTCATGCATT
78835 TTT
1 TTT
78838 AACATGTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.14, C:0.10, G:0.08, T:0.67
Consensus pattern (23 bp):
TTTTTTATTATGTTTCATGCATT
Found at i:82329 original size:30 final size:32
Alignment explanation
Indices: 82284--82347 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 32
82274 ATTATTAATT
82284 AATATTAGAAAAAAATTTATTGA-TTTAAAAA
1 AATATTAGAAAAAAATTTATTGATTTTAAAAA
*
82315 AATATTA-TAAAAAATTTATTGATTTTAAAAA
1 AATATTAGAAAAAAATTTATTGATTTTAAAAA
82346 AA
1 AA
82348 ATCTTTGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 14 0.45
31 17 0.55
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.38
Consensus pattern (32 bp):
AATATTAGAAAAAAATTTATTGATTTTAAAAA
Found at i:82939 original size:210 final size:212
Alignment explanation
Indices: 82630--83027 Score: 624
Period size: 210 Copynumber: 1.9 Consensus size: 212
82620 TATTTTATAG
*
82630 TTAGAGCTCAATGAATCTATATAAATTAAAAAAAGAGTTAAAACAAAATTCTTAGTAATTTATTG
1 TTAGAGCTCAATGAATCTATATAAATTAAAAAAAGAGTTAAAACAAAATTCATAGTAATTTATTG
*
82695 AAAGAATAAATAAAATTATTAATTAATATTATAAAAAAA-TTATTGATTTTAAAAAAATCTTTGA
66 AAAGAATAAATAAAATTATTAATTAATATTATAAAAAAATTTATTGATTTTAAAAAAATCATTG-
*
82759 AAAAAAAAACCTATAATAAACATTAGCATTTATATAAAAAAACTGTATATATATATATATATCTA
130 AAAAAAAAACCTATAATAAACATTAGCATTTATATAAAAAAACTATAT-TATATATATATATCTA
82824 TTAATTAATATTTTAAAAT
194 TTAATTAATATTTTAAAAT
* * *
82843 TTAGA-CTCAGTGAATCTATATAAATTAAGAAAA-AGTTAAAGCAAAATTCATAGTAATTTATTG
1 TTAGAGCTCAATGAATCTATATAAATTAAAAAAAGAGTTAAAACAAAATTCATAGTAATTTATTG
*
82906 AAA-AATAAATAAAATTATTAATTAATATTATAAAAAAATTTATTGATTTTAAAAAAATCATTGT
66 AAAGAATAAATAAAATTATTAATTAATATTATAAAAAAATTTATTGATTTTAAAAAAATCATTGA
* * * * * * *
82970 GAAAGAAACCTATAATAAACATTAGTATTTTTGTTAAAAAACTATATTTTATATATAT
131 AAAAAAAACCTATAATAAACATTAGCATTTATATAAAAAAACTATATTATATATATAT
83028 TATATAGATA
Statistics
Matches: 170, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
209 10 0.06
210 75 0.44
211 54 0.32
212 26 0.15
213 5 0.03
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.37
Consensus pattern (212 bp):
TTAGAGCTCAATGAATCTATATAAATTAAAAAAAGAGTTAAAACAAAATTCATAGTAATTTATTG
AAAGAATAAATAAAATTATTAATTAATATTATAAAAAAATTTATTGATTTTAAAAAAATCATTGA
AAAAAAAACCTATAATAAACATTAGCATTTATATAAAAAAACTATATTATATATATATATCTATT
AATTAATATTTTAAAAT
Found at i:92350 original size:32 final size:32
Alignment explanation
Indices: 92314--92545 Score: 169
Period size: 32 Copynumber: 7.5 Consensus size: 32
92304 TAGAAAGAGA
*
92314 TGCCACCAACTTGTGTGAGCTTTT-GAGAGGGT
1 TGCCACCGACTTGTGTGAGCTTTTAGA-AGGGT
* *
92346 TGCCACCGACTTGTGTGGGCTTTTAGAAAGGT
1 TGCCACCGACTTGTGTGAGCTTTTAGAAGGGT
* * *
92378 TACCATCGACTTGTGTG-GGTTTTAGAAGGGT
1 TGCCACCGACTTGTGTGAGCTTTTAGAAGGGT
** * * **
92409 TAACACCGACTTGTGTGGGCTTTGACTAGGGT
1 TGCCACCGACTTGTGTGAGCTTTTAGAAGGGT
* * *
92441 TGTCACCGACTTGTGTGAGCTTTGACTAA-GGT
1 TGCCACCGACTTGTGTGAGCTTTTA-GAAGGGT
* * *
92473 TGTCACCGACTTGTG-G-GCTTTAAAAAGGGT
1 TGCCACCGACTTGTGTGAGCTTTTAGAAGGGT
* * *
92503 AT--CACCGACTTGT-AG-GCTTTAAAAAGGG-
1 -TGCCACCGACTTGTGTGAGCTTTTAGAAGGGT
*
92531 TGTCACCGACTTGTG
1 TGCCACCGACTTGTG
92546 AGCTTTGAAA
Statistics
Matches: 171, Mismatches: 20, Indels: 20
0.81 0.09 0.09
Matches are distributed among these distances:
27 1 0.01
29 38 0.22
30 9 0.05
31 29 0.17
32 91 0.53
33 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (32 bp):
TGCCACCGACTTGTGTGAGCTTTTAGAAGGGT
Found at i:92451 original size:63 final size:64
Alignment explanation
Indices: 92316--92515 Score: 178
Period size: 63 Copynumber: 3.2 Consensus size: 64
92306 GAAAGAGATG
* ** * *
92316 CCACCAACTTGTGTGAGCTTTTGAGAGGGTTGCCACCGACTTGTGTGGGCTTTTAGAAAGGTTA
1 CCACCGACTTGTGTGAGCTTTTGAGAGGGTTAACACCGACTTGTGTGGGCTTTGACAAAGGTTA
* * * * *
92380 CCATCGACTTGTGTG-GGTTTT-AGAAGGGTTAACACCGACTTGTGTGGGCTTTGACTAGGGTTG
1 CCACCGACTTGTGTGAGCTTTTGAG-AGGGTTAACACCGACTTGTGTGGGCTTTGACAAAGGTTA
* * * ** * *
92443 TCACCGACTTGTGTGAGC-TTTGACTAAGGTTGTCACCGAC-T-TGTGGGCTTT-AAAAAGGGTA
1 CCACCGACTTGTGTGAGCTTTTGA-GAGGGTTAACACCGACTTGTGTGGGCTTTGACAAAGGTTA
*
92504 TCACCGACTTGT
1 CCACCGACTTGT
92516 AGGCTTTAAA
Statistics
Matches: 110, Mismatches: 22, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
61 17 0.15
62 12 0.11
63 54 0.49
64 27 0.25
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.32
Consensus pattern (64 bp):
CCACCGACTTGTGTGAGCTTTTGAGAGGGTTAACACCGACTTGTGTGGGCTTTGACAAAGGTTA
Found at i:92485 original size:95 final size:92
Alignment explanation
Indices: 92317--92559 Score: 235
Period size: 95 Copynumber: 2.6 Consensus size: 92
92307 AAAGAGATGC
* * * * * * *
92317 CACCAACTTGTGTGAGCTTTTGAGAGGGTTGCCACCGACTTGTGTGGGCTTTTAGAAAGGTTACC
1 CACCGACTTGTGTGGGC-TTTGAAAGGGTTGTCACCGACTTGTGTGAGCTTTGACAAAGGTTACC
* * * *
92382 ATCGACTTGTGTGGGTTTTAGAAGGGTTAA
65 ACCGACTTGTG-GGCTTTAAAAAGGG-TAA
* * **
92412 CACCGACTTGTGTGGGCTTTGACTAGGGTTGTCACCGACTTGTGTGAGCTTTGACTAAGGTTGTC
1 CACCGACTTGTGTGGGCTTTGA-AAGGGTTGTCACCGACTTGTGTGAGCTTTGACAAAGGTTACC
*
92477 ACCGACTTGTGGGCTTTAAAAAGGGTAT
65 ACCGACTTGTGGGCTTTAAAAAGGGTAA
* * *
92505 CACCGAC-T-TGTAGGCTTTAAAAAGGG-TGTCACCGAC-T-TGTGAGCTTTGAAAAAGG
1 CACCGACTTGTGTGGGCTTT-GAAAGGGTTGTCACCGACTTGTGTGAGCTTTGACAAAGG
92560 CGCCATTGAC
Statistics
Matches: 126, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
88 16 0.13
89 1 0.01
90 10 0.08
91 13 0.10
92 2 0.02
93 9 0.07
94 16 0.13
95 59 0.47
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (92 bp):
CACCGACTTGTGTGGGCTTTGAAAGGGTTGTCACCGACTTGTGTGAGCTTTGACAAAGGTTACCA
CCGACTTGTGGGCTTTAAAAAGGGTAA
Found at i:92510 original size:29 final size:29
Alignment explanation
Indices: 92480--92878 Score: 319
Period size: 29 Copynumber: 14.0 Consensus size: 29
92470 GGTTGTCACC
** *
92480 GACTTGTGGGCTTTAAAAAGGGTATCACC
1 GACTTGTGGGCTTTAAAAAGGGTGCCACT
* * *
92509 GACTTGTAGGCTTTAAAAAGGGTGTCACC
1 GACTTGTGGGCTTTAAAAAGGGTGCCACT
* * *
92538 GACTTGTGAGCTTTGAAAAA-GGCGCCATT
1 GACTTGTGGGCTTT-AAAAAGGGTGCCACT
* *
92567 GACTTGTGAGCTTTGAAAAGGGTGCCACT
1 GACTTGTGGGCTTTAAAAAGGGTGCCACT
* * ** * *
92596 AACTTGTGAGCTTT-TGAAGAGTGCCATT
1 GACTTGTGGGCTTTAAAAAGGGTGCCACT
* * * *
92624 GACTTATGGGCTTT-AAAAGGATACCTCT
1 GACTTGTGGGCTTTAAAAAGGGTGCCACT
** *
92652 GACTTGTGGGCTTT-TGAAGGGTACCACT
1 GACTTGTGGGCTTTAAAAAGGGTGCCACT
** *
92680 GACTTGTGGG-TTTTGAAAGGGTACCACT
1 GACTTGTGGGCTTTAAAAAGGGTGCCACT
*
92708 GACTTGTGGGCTTTGAAAAA-AGTGCCACT
1 GACTTGTGGGCTTT-AAAAAGGGTGCCACT
* * * * **
92737 AACTTGTAGGCTTTGAAAAGAGTATCACT
1 GACTTGTGGGCTTTAAAAAGGGTGCCACT
* * *
92766 AACTTGTGGGCTTT-GAAAGAGTGCCACT
1 GACTTGTGGGCTTTAAAAAGGGTGCCACT
* * * *
92794 AACTTATGGACTTT-AAAAGGATGCCACT
1 GACTTGTGGGCTTTAAAAAGGGTGCCACT
*
92822 GACTTGTGGGCTTTGAAAAGGGTGCCACT
1 GACTTGTGGGCTTTAAAAAGGGTGCCACT
* * *
92851 AACTTGTGGGTTTTAGAAAGGGTGCCAC
1 GACTTGTGGGCTTTAAAAAGGGTGCCAC
92879 AGAGTTATGA
Statistics
Matches: 304, Mismatches: 59, Indels: 14
0.81 0.16 0.04
Matches are distributed among these distances:
27 3 0.01
28 136 0.45
29 157 0.52
30 8 0.03
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (29 bp):
GACTTGTGGGCTTTAAAAAGGGTGCCACT
Found at i:92665 original size:56 final size:57
Alignment explanation
Indices: 92480--92871 Score: 303
Period size: 57 Copynumber: 6.9 Consensus size: 57
92470 GGTTGTCACC
** * ** * * * ** *
92480 GACTTGTGGGCTTTAAAAAGGGTATCACCGACTTGTAGGCTTTAAAAAGGGTGTCACC
1 GACTTGTGGGCTTTTGAAAGAGTGCCACTGACTTGTGGGCTTT-AAAAGGATACCACT
* * * * * * *
92538 GACTTGTGAGC-TTTGAAAAAGGCGCCATTGACTTGTGAGCTTTGAAAAGGGTGCCACT
1 GACTTGTGGGCTTTTGAAAGA-GTGCCACTGACTTGTGGGCTTT-AAAAGGATACCACT
* * * * *
92596 AACTTGTGAGCTTTTG-AAGAGTGCCATTGACTTATGGGCTTTAAAAGGATACCTCT
1 GACTTGTGGGCTTTTGAAAGAGTGCCACTGACTTGTGGGCTTTAAAAGGATACCACT
* * * * *
92652 GACTTGTGGGCTTTTG-AAGGGTACCACTGACTTGTGGGTTTTGAAAGGGTACCACT
1 GACTTGTGGGCTTTTGAAAGAGTGCCACTGACTTGTGGGCTTTAAAAGGATACCACT
* * * *
92708 GACTTGTGGGC-TTTGAAAAAAGTGCCACTAACTTGTAGGCTTTGAAAA-GAGTATCACT
1 GACTTGTGGGCTTTTG-AAAGAGTGCCACTGACTTGTGGGCTTT-AAAAGGA-TACCACT
* * * * *
92766 AACTTGTGGGC-TTTGAAAGAGTGCCACTAACTTATGGACTTTAAAAGGATGCCACT
1 GACTTGTGGGCTTTTGAAAGAGTGCCACTGACTTGTGGGCTTTAAAAGGATACCACT
* * *
92822 GACTTGTGGGC-TTTGAAAAGGGTGCCACTAACTTGTGGGTTTTAGAAAGG
1 GACTTGTGGGCTTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTA-AAAGG
92872 GTGCCACAGA
Statistics
Matches: 271, Mismatches: 54, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
55 4 0.01
56 91 0.34
57 94 0.35
58 78 0.29
59 4 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (57 bp):
GACTTGTGGGCTTTTGAAAGAGTGCCACTGACTTGTGGGCTTTAAAAGGATACCACT
Found at i:92900 original size:170 final size:172
Alignment explanation
Indices: 92480--92881 Score: 508
Period size: 170 Copynumber: 2.3 Consensus size: 172
92470 GGTTGTCACC
* * * * * * * *
92480 GACTTGTGGGCTTTAAAAAGGGTATCACCGACTTGTAGGCTTTAAAAAGGGTGTCACCGACTTGT
1 GACTTGTGGGCTTTGAAAAGGGTACCACTGACTTGTGGGTTTTAGAAAGGGTGCCACAGACTTGT
* * * * * *
92545 GAGCTTTGAAAAAGGCGCCATTGACTTGTGAGCTTTGAAAAGGGTGCCACTAACTTGTGAGCTTT
66 GAGCTTTGAAAAAAGTGCCACTAACTTGTGAGCTTTGAAAAGAGTACCACTAACTTGTGAGCTTT
* * * *
92610 TGAAGAGTGCCATTGACTTATGGGCTTTAAAAGGATACCTCT
131 TGAAGAGTGCCACTAACTTATGGACTTTAAAAGGATACCACT
* *
92652 GACTTGTGGGCTTTTG--AAGGGTACCACTGACTTGTGGGTTTT-GAAAGGGTACCACTGACTTG
1 GACTTGTGGGC-TTTGAAAAGGGTACCACTGACTTGTGGGTTTTAGAAAGGGTGCCACAGACTTG
* * *
92714 TGGGCTTTGAAAAAAGTGCCACTAACTTGT-AGGCTTTGAAAAGAGTATCACTAACTTGTGGGC-
65 TGAGCTTTGAAAAAAGTGCCACTAACTTGTGA-GCTTTGAAAAGAGTACCACTAACTTGTGAGCT
*
92777 TTTGAAAGAGTGCCACTAACTTATGGACTTTAAAAGGATGCCACT
129 TTTG-AAGAGTGCCACTAACTTATGGACTTTAAAAGGATACCACT
* *
92822 GACTTGTGGGCTTTGAAAAGGGTGCCACTAACTTGTGGGTTTTAGAAAGGGTGCCACAGA
1 GACTTGTGGGCTTTGAAAAGGGTACCACTGACTTGTGGGTTTTAGAAAGGGTGCCACAGA
92882 GTTATGAACT
Statistics
Matches: 197, Mismatches: 27, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
169 9 0.05
170 114 0.58
171 46 0.23
172 25 0.13
173 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (172 bp):
GACTTGTGGGCTTTGAAAAGGGTACCACTGACTTGTGGGTTTTAGAAAGGGTGCCACAGACTTGT
GAGCTTTGAAAAAAGTGCCACTAACTTGTGAGCTTTGAAAAGAGTACCACTAACTTGTGAGCTTT
TGAAGAGTGCCACTAACTTATGGACTTTAAAAGGATACCACT
Found at i:92919 original size:27 final size:27
Alignment explanation
Indices: 92889--92950 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
92879 AGAGTTATGA
92889 ACTTAAAAAAGTACCACGAAATTGTGG
1 ACTTAAAAAAGTACCACGAAATTGTGG
** * *
92916 ACTTAAAAGTGTGCCACGAAGTTGTGG
1 ACTTAAAAAAGTACCACGAAATTGTGG
92943 AC-TAAAAA
1 ACTTAAAAA
92951 GTGTTCCATG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.17
27 25 0.83
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.23
Consensus pattern (27 bp):
ACTTAAAAAAGTACCACGAAATTGTGG
Found at i:92951 original size:27 final size:27
Alignment explanation
Indices: 92902--92979 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
92892 TAAAAAAGTA
* *
92902 CCACGAAATTGTGGACTTAAAAGTGTG
1 CCACGAAGTTGTGGACTAAAAAGTGTG
*
92929 CCACGAAGTTGTGGACTAAAAAGTGTT
1 CCACGAAGTTGTGGACTAAAAAGTGTG
* * *
92956 CCATGAAGTTATAGACTTAAAAAG
1 CCACGAAGTTGTGGAC-TAAAAAG
92980 AAATGTTACT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 37 0.84
28 7 0.16
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (27 bp):
CCACGAAGTTGTGGACTAAAAAGTGTG
Found at i:97420 original size:51 final size:51
Alignment explanation
Indices: 97304--97421 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 51
97294 AAATAACGGG
* ** * *
97304 GTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGAAAATAAAACCAGA
* *
97355 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAACCAG-
1 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGAAAATAAAACCAGA
97405 GATTGGAGTATCCCCGA
1 G-TTGGAGTATCCCCGA
97422 GATGAAAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 1 0.02
51 58 0.98
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGAAAATAAAACCAGA
Found at i:99744 original size:20 final size:19
Alignment explanation
Indices: 99719--99806 Score: 113
Period size: 20 Copynumber: 4.4 Consensus size: 19
99709 TGCTTGAATA
*
99719 TATCGATACATTGTAAAATG
1 TATCGATACAATG-AAAATG
*
99739 TATCGATACAATGAGCAATG
1 TATCGATACAATGA-AAATG
*
99759 TATCGCTACAATGCAAAATG
1 TATCGATACAATG-AAAATG
99779 TATCGATACAATGAACAATG
1 TATCGATACAATGAA-AATG
99799 TATCGATA
1 TATCGATA
99807 AAAATTGTGA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
19 3 0.05
20 56 0.93
21 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (19 bp):
TATCGATACAATGAAAATG
Found at i:99777 original size:40 final size:40
Alignment explanation
Indices: 99719--99806 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
99709 TGCTTGAATA
* * *
99719 TATCGATACATTGTAAAATGTATCGATACAATGAGCAATG
1 TATCGATACAATGCAAAATGTATCGATACAATGAACAATG
*
99759 TATCGCTACAATGCAAAATGTATCGATACAATGAACAATG
1 TATCGATACAATGCAAAATGTATCGATACAATGAACAATG
99799 TATCGATA
1 TATCGATA
99807 AAAATTGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (40 bp):
TATCGATACAATGCAAAATGTATCGATACAATGAACAATG
Found at i:104419 original size:10 final size:10
Alignment explanation
Indices: 104404--104428 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
104394 TTCAAAAAAT
104404 ATATATATAC
1 ATATATATAC
104414 ATATATATAC
1 ATATATATAC
104424 ATATA
1 ATATA
104429 AATATAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATATATAC
Found at i:107735 original size:15 final size:14
Alignment explanation
Indices: 107710--107752 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
107700 TGTTTTATTT
107710 AAAT-TTAAATATA
1 AAATATTAAATATA
107723 AAATATATAAATAT-
1 AAATAT-TAAATATA
107737 AAATATT-AATATA
1 AAATATTAAATATA
107750 AAA
1 AAA
107753 CTTTTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.19
13 8 0.30
14 7 0.26
15 7 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATATTAAATATA
Found at i:115164 original size:16 final size:15
Alignment explanation
Indices: 115126--115169 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
115116 TAAAATAAAC
*
115126 AAATAATTATATTAGT
1 AAATAATTA-ATAAGT
*
115142 AATTAATTAATAAGT
1 AAATAATTAATAAGT
115157 AAAATAATTAATA
1 -AAATAATTAATA
115170 GAATAAAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (15 bp):
AAATAATTAATAAGT
Found at i:115211 original size:149 final size:153
Alignment explanation
Indices: 115044--115329 Score: 413
Period size: 149 Copynumber: 1.9 Consensus size: 153
115034 TATTTATAAT
* * * *
115044 ATAAATATTGAAATAAATATAAATAAATTAATTAA-AAAATATATTACAT-AAACAAAAA-AATT
1 ATAAATACTGAAATAAATATAAATAAATTAATTAAGAAAATATATGAAATAAAAAAAAAAGAATT
*
115106 ATACGCTACATAAAATAAACAAATAATTAT-ATTAGTAATTAATT-A-ATAAGTAAAATAATTAA
66 ATACGCTACATAAAATAAACAAATAA--ATGATTAGTAATTAATTAATATAAATAAAATAATTAA
115168 TAGAATAAAACCAAATGTTTACAAC
129 TAGAATAAAACCAAATGTTTACAAC
* *
115193 ATAAATACTGAAATAAATATAAATTAATTAATTAAGAAAATATGTGAAATAAAAAAAAAAGAATT
1 ATAAATACTGAAATAAATATAAATAAATTAATTAAGAAAATATATGAAATAAAAAAAAAAGAATT
* * *
115258 TTACGCTGCATAAAATAAATAAATAAATGATTAGTAATTAATTAATATAAATAAAATAATTAATA
66 ATACGCTACATAAAATAAACAAATAAATGATTAGTAATTAATTAATATAAATAAAATAATTAATA
*
115323 TAATAAA
131 GAATAAA
115330 TAAAATAAAT
Statistics
Matches: 120, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
149 33 0.28
150 13 0.11
151 22 0.18
152 28 0.23
153 24 0.20
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (153 bp):
ATAAATACTGAAATAAATATAAATAAATTAATTAAGAAAATATATGAAATAAAAAAAAAAGAATT
ATACGCTACATAAAATAAACAAATAAATGATTAGTAATTAATTAATATAAATAAAATAATTAATA
GAATAAAACCAAATGTTTACAAC
Found at i:115319 original size:18 final size:17
Alignment explanation
Indices: 115296--115329 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
115286 GATTAGTAAT
115296 TAATTAATATAAATAAAA
1 TAATTAATAT-AATAAAA
115314 TAATTAATATAATAAA
1 TAATTAATATAATAAA
115330 TAAAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAATTAATATAATAAAA
Found at i:115325 original size:9 final size:9
Alignment explanation
Indices: 115292--115345 Score: 51
Period size: 9 Copynumber: 6.3 Consensus size: 9
115282 AAATGATTAG
115292 TAAT-TAAT
1 TAATATAAT
*
115300 TAATATAAA
1 TAATATAAT
*
115309 TAAAATAAT
1 TAATATAAT
115318 TAATATAAT
1 TAATATAAT
* *
115327 AAATA-AAA
1 TAATATAAT
115335 TAA-ATAAT
1 TAATATAAT
115343 TAA
1 TAA
115346 ATTATAAAAC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
7 1 0.03
8 13 0.36
9 22 0.61
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TAATATAAT
Found at i:115359 original size:25 final size:26
Alignment explanation
Indices: 115306--115360 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
115296 TAATTAATAT
*
115306 AAATAAAATAATTAATATAATAAATA
1 AAATAAAATAATTAATATAATAAACA
*
115332 AAAT-AAATAATTAA-ATTATAAAACA
1 AAATAAAATAATTAATATAAT-AAACA
115357 AAAT
1 AAAT
115361 TAAGAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (26 bp):
AAATAAAATAATTAATATAATAAACA
Found at i:115360 original size:21 final size:21
Alignment explanation
Indices: 115292--115389 Score: 51
Period size: 22 Copynumber: 4.5 Consensus size: 21
115282 AAATGATTAG
*
115292 TAATT-AATTAATATAAATAAAA
1 TAATTAAATT-ATA-AAAAAAAA
*
115314 TAATTAATATAATAAATAAAATAAA
1 TAATTAA-ATTAT-AA-AAAA-AAA
*
115339 TAATTAAATTATAAAACAAAAT
1 TAATTAAATTATAAAA-AAAAA
* *
115361 TAA-GAAA--ATAAATAAAAA
1 TAATTAAATTATAAAAAAAAA
*
115379 TAACTAAATTA
1 TAATTAAATTA
115390 AATTTAGAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
18 7 0.12
19 8 0.14
21 4 0.07
22 12 0.20
23 8 0.14
24 10 0.17
25 10 0.17
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (21 bp):
TAATTAAATTATAAAAAAAAA
Found at i:115392 original size:13 final size:13
Alignment explanation
Indices: 115270--115414 Score: 52
Period size: 13 Copynumber: 10.8 Consensus size: 13
115260 ACGCTGCATA
115270 AAATAAATAAA-T
1 AAATAAATAAATT
* *
115282 AAATGATTAGTAATT
1 AAATAAATA--AATT
* *
115297 AATTAATATAAATA
1 AAATAA-ATAAATT
*
115311 AAAT-AATTAA-T
1 AAATAAATAAATT
*
115322 ATAATAAATAAAAT
1 A-AATAAATAAATT
*
115336 AAATAATTAAATT
1 AAATAAATAAATT
115349 ATAA-AACA-AAATT
1 A-AATAA-ATAAATT
*
115362 AAGA-AAATAAATAA
1 AA-ATAAATAAAT-T
*
115376 AAATAACTAAATT
1 AAATAAATAAATT
*
115389 AAATTTAGA-AAATT
1 AAA--TAAATAAATT
115403 AAATGAAATAAA
1 AAAT-AAATAAA
115415 AAAAAATACG
Statistics
Matches: 97, Mismatches: 19, Indels: 32
0.66 0.13 0.22
Matches are distributed among these distances:
11 1 0.01
12 17 0.18
13 38 0.39
14 32 0.33
15 7 0.07
16 2 0.02
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (13 bp):
AAATAAATAAATT
Found at i:116382 original size:13 final size:13
Alignment explanation
Indices: 116366--116393 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
116356 AATAATATAA
116366 AATATTTATATTT
1 AATATTTATATTT
116379 AATATTTATATTT
1 AATATTTATATTT
116392 AA
1 AA
116394 AATATATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
AATATTTATATTT
Found at i:116480 original size:17 final size:17
Alignment explanation
Indices: 116454--116492 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
116444 TTTAAAAAAT
116454 TAAT-TATACTTATATC
1 TAATATATACTTATATC
*
116470 TAATATATACTTATATT
1 TAATATATACTTATATC
116487 TAATAT
1 TAATAT
116493 TAATCCCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATATATACTTATATC
Found at i:117639 original size:17 final size:18
Alignment explanation
Indices: 117613--117649 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
117603 TCGTTATTAT
*
117613 TTACTATTTAAACTTAAA
1 TTACTATTTAAAATTAAA
117631 TTACT-TTTAAAATTAAA
1 TTACTATTTAAAATTAAA
117648 TT
1 TT
117650 TAAATGGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (18 bp):
TTACTATTTAAAATTAAA
Found at i:118833 original size:18 final size:18
Alignment explanation
Indices: 118810--118850 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
118800 ATTGGTTACT
118810 ATTTATTATTTAAACTT-A
1 ATTTATTATTTAAA-TTCA
*
118828 ATTTATTTTTTAAATTCA
1 ATTTATTATTTAAATTCA
118846 ATTTA
1 ATTTA
118851 AATAGCTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTATTATTTAAATTCA
Found at i:118871 original size:413 final size:410
Alignment explanation
Indices: 117926--122154 Score: 3520
Period size: 412 Copynumber: 10.4 Consensus size: 410
117916 TTAGATAATT
* * * * * **
117926 GATTTTGACTTTTATACATTTATCATATAAGATTTTATATTTTTAAGTATTAGAATTATTATTGT
1 GATTTTGGCTTTTATATATTTATTATATAAGATTTTATATTTTTAATTATTAAAATTATTATTAA
* * * * * *
117991 TTACTGTTTAATATTTGAATTTGATTCATTTTTAAAATTAAATTTAAATAGCTCCAAATTATCAA
66 TTACTATTTACTATTTGAACTTGATTTATTTTTAAAATTGAATTTAAATAGCTCCAAATTATCAT
* * ** * * * *
118056 TTGTAGAAAACCCCTATTTATTGTAATCTATTAAATAGAGTTAATTTAATATTTTTATGAGATAT
131 TTGTAGAAAATCTCTATTTATAATAGTCTAGTAAATAAATTTAATTTAATA-TTTTATGAGATAT
* *
118121 GAAAAGAAAAATAAAATTTTATTTGTTCACATATATATATATATATATATAAGAGGTAAGTCAAT
195 GAAAA-AAAATTAAAATTTTATTTG------T-T-TACATATATATATAT-A-AGGTAAGTCAAT
* * *
118186 TAAAAATATAAAA-AGATATAAATATAATTAATTATATTAAATATTTTAATATTAAATTAAATCA
249 TAAAAGTATAAAAGA-AAATAAATATAATTAATTATATAAAATATTTTAATATTAAATTAAATCA
* ** * * **
118250 AGTCAAAATAATTAAATAT--G-TA-A-CCT-A--TTGT--GA-CTTTTTA-G-A-AAT-T-A-C
313 AGTCAAAATAATTAAATGTGCGATACATGATGACTTTTTACGATCATCCTATGAATAATATAAGC
* *
118298 --T-CACATTGGATAATTACCTTTTAAGTAAAA
378 TATCCACATTAGATAATTACCTTTTTAGTAAAA
* * * **
118328 GGTTTTGGCTTTTACATATTTATTATATAA-AATTTATATTTTTAATTATTAAAATTATTATTGG
1 GATTTTGGCTTTTATATATTTATTATATAAGATTTTATATTTTTAATTATTAAAATTATTATTAA
* * * * * *
118392 TTACTGTTTACTATTTAAATTTGATTTATTTTTAAAATTAAATTTAAATAGATCTAAATTATCAT
66 TTACTATTTACTATTTGAACTTGATTTATTTTTAAAATTGAATTTAAATAGCTCCAAATTATCAT
* * *
118457 TTGTAAAAAATCTTTATTTATAATAGT-AAGGTAAATAAATTTAATTTAATATTGTTATGAGATA
131 TTGTAGAAAATCTCTATTTATAATAGTCTA-GTAAATAAATTTAATTTAATATT-TTATGAGATA
* *
118521 TGAAAATAAAATTAAAATTTTATTTGTTTACATATATATATATAAGGCAAATCAATTAAAAGTAT
194 TGAAAA-AAAATTAAAATTTTATTTGTTTACATATATATATATAAGGTAAGTCAATTAAAAGTAT
* * *
118586 AAAAAGAAAATAAATATAATTAATTATATGAAATATTTTAATATTACATTAAATCAAGTTAAAAT
258 -AAAAGAAAATAAATATAATTAATTATATAAAATATTTTAATATTAAATTAAATCAAGTCAAAAT
* * * *
118651 AATTAAATGTGCAACACATGATGACTTTTTACGATCATCCTACGAATAATATAATCTATCCACAT
322 AATTAAATGTGCGATACATGATGACTTTTTACGATCATCCTATGAATAATATAAGCTATCCACAT
* *
118716 TAGATAATTACCTTTTTCGTTAAA
387 TAGATAATTACCTTTTTAGTAAAA
* * * **
118740 GATTTTGGCTTTTATATATTTATCATATAAGATTTAATATTTTTAATTATTCAAATTATTATTGG
1 GATTTTGGCTTTTATATATTTATTATATAAGATTTTATATTTTTAATTATTAAAATTATTATTAA
* * * * *
118805 TTACTATTTATTATTTAAACTTAATTTATTTTTTAAATTCAATTTAAATAGCTCCAAATTATCAT
66 TTACTATTTACTATTTGAACTTGATTTATTTTTAAAATTGAATTTAAATAGCTCCAAATTATCAT
* * ** * * *
118870 TTGTA-AAAACCCTTTATTTATCGTAGTCTATTGAATAAATTTAATTTAATATTTT-T-CG---T
131 TTGTAGAAAA-TCTCTATTTATAATAGTCTAGTAAATAAATTTAATTTAATATTTTATGAGATAT
* * *
118929 --AAAAAAATTAAAATTTTATTTGTTTATATATATATAATTAAAAGGTAAGTCAATCAAAAGTAT
195 GAAAAAAAATTAAAATTTTATTTGTTTACATATATAT-A-TATAAGGTAAGTCAATTAAAAGTAT
* *
118992 AACAG--AA-AAAT-TAA--AA-T-T-T----TA-TTTAATATTAAATTAAATTAAGTCAAAATA
258 AAAAGAAAATAAATATAATTAATTATATAAAATATTTTAATATTAAATTAAATCAAGTCAAAATA
* * * * * * * * *
119043 ATTAAATATGCAATATATTATGATTTTTTGCGA-CTATCCATATATGAATAATGTATGGTATCCA
323 ATTAAATGTGCGATACATGATGACTTTTTACGATC-ATCC---TATGAATAATATAAGCTATCCA
* * *
119107 CATCAGTTAATTA-CTTTTTTGTAAAA
384 CATTAGATAATTACCTTTTTAGTAAAA
* * * *
119133 GTTTTTAGCTTTTATATATTTATTATATAACATTTTATATTTTTAATTATTAAAATTATTGTCT-
1 GATTTTGGCTTTTATATATTTATTATATAAGATTTTATATTTTTAATTATTAAAATTATTAT-TA
* * * * * * * *
119197 GTTATTATTTATTATTTGAACTTGATTTATTTATAAAATTAAATTTAAATAGCCCCAAATTACCT
65 ATTACTATTTACTATTTGAACTTGATTTATTTTTAAAATTGAATTTAAATAGCTCCAAATTATCA
* * *
119262 TTTTTAGAAAAT-TCCTATTTATAATAGTCTAGCAAATAAATTTAATTTAATATTTTTAT-ACA-
130 TTTGTAGAAAATCT-CTATTTATAATAGTCTAGTAAATAAATTTAATTTAATA-TTTTATGAGAT
* * *
119324 AT-ATAAAAAATTAAAATTTTATTTGTTTACATATATATATATATAAGGAAAATCAATTAAAAGT
193 ATGAAAAAAAATTAAAATTTTATTTGTTTAC--ATATATATATATAAGGTAAGTCAATTAAAAGT
* *
119388 ATAAATA-AAAATATATATAATTAATTATATAAAATATTTTAATATTAAATTAAATCAAATCAAA
256 ATAAA-AGAAAATAAATATAATTAATTATATAAAATATTTTAATATTAAATTAAATCAAGTCAAA
* * * * * * * * * * *
119452 ATAATTGAGTGTGTGACACATGATGAATTTTTATGACCTTTCATATGTGAATAATATAGGTTATC
320 ATAATTAAATGTGCGATACATGATGACTTTTTACGATC-ATCCTA--TGAATAATATAAGCTATC
*
119517 CACATT-GAATAATTACCTTTTTCGTAAAA
382 CACATTAG-ATAATTACCTTTTTAGTAAAA
* *
119546 -AGTTTTGG-TTTTATATATTTATTATATAAGATTTTATATTTTTAATTATTATAATTATTGTT-
1 GA-TTTTGGCTTTTATATATTTATTATATAAGATTTTATATTTTTAATTATTAAAATTATTATTA
* * * * *
119608 GTTAACTGTTTGCTATTTGAATTTGATTTATTCTTAAAATTGAATTTAAAT-GACAT-CAAATTA
65 ATT-ACTATTTACTATTTGAACTTGATTTATTTTTAAAATTGAATTTAAATAG-C-TCCAAATTA
* * * * * * * *
119671 TTAATTGTAG-AAAGCCCTTATTTATAATAATCCATTAAATAAATTTAATTTAATATTTTTTGTG
127 TCATTTGTAGAAAATCTC-TATTTATAATAGTCTAGTAAATAAATTTAATTTAATA--TTTTATG
* * * * * * * *
119735 AGATATGGAAAAAAATTAAGATTTTATTTATTTACATATATACATAAAAGGCAAGTTGAA-CAAA
189 AGATATGAAAAAAAATTAAAATTTTATTTGTTTACATATATATATATAAGGTAAG-TCAATTAAA
* * *
119799 AATAT-AAA-AAAATAAATATAATTAATTATATAAAATATTTTAATATTAAATT-AATTAGAATC
253 AGTATAAAAGAAAATAAATATAATTAATTATATAAAATATTTTAATATTAAATTAAATCA-AGTC
* * *
119861 AAAATAATTAAATATACGACACATGATGACTTTTT-C-ATCACTGCTCATATATGAATAATATAA
317 AAAATAATTAAATGTGCGATACATGATGACTTTTTACGATCA-T-C-C---TATGAATAATATAA
*
119924 GCTATCCACATTAAATAATTACCTTTTTAGTAAAA
376 GCTATCCACATTAGATAATTACCTTTTTAGTAAAA
* * ** *
119959 GATTTT-GCTTTTATACATTTATTATATAAGATTCTTATATTATTAATTATTTCAATTATTGTTA
1 GATTTTGGCTTTTATATATTTATTATATAAGATT-TTATATTTTTAATTATTAAAATTATTATTA
* * * * *
120023 ATTACTATTTA-TCATTTGAACTAT-ATTTACTTTTAAAATTGAATTTAAATGGTTCTAACTTA-
65 ATTACTATTTACT-ATTTGAACT-TGATTTATTTTTAAAATTGAATTTAAATAGCTCCAAATTAT
* * ** *
120085 CTATTTATAGAAAATCTCTATTTATAATAGTCTCGTGCATAAATTTAATTTAATATTTTTGTGAG
128 C-ATTTGTAGAAAATCTCTATTTATAATAGTCTAGTAAATAAATTTAATTTAATA-TTTTATGAG
* * * ** * *
120150 ACAATGAAAAAAAAATAAAATTTTAATTGTAAATATATATATATATAAAGGTAAGTTAATTAAAA
191 A-TATGAAAAAAAATTAAAATTTTATTTGTTTACATATATATATAT-AAGGTAAGTCAATTAAAA
* *
120215 GTATAAAATAAAATAAATATAATTAATTATATAAAA-A-ATTAATATTAAATTAAAT-AAGTCAA
254 GTATAAAAGAAAATAAATATAATTAATTATATAAAATATTTTAATATTAAATTAAATCAAGTCAA
* * * ** * * *
120277 AATAATTAAATGTGTGATACATGATAATTTTTTACGACTGTTTACATTTGAATAATAAAAGCTAT
319 AATAATTAAATGTGCGATACATGATGACTTTTTACGA-T-CAT-CCTATGAATAATATAAGCTAT
* * * **
120342 CAATATTGGATAATTACCTTTTTCTTAAAA
381 CCACATTAGATAATTACCTTTTTAGTAAAA
* * * ** *
120372 GGTTTTGGCTTTTGTACATTTATCGTATAAGATTTTATATTTTTAATTATTAAAATTATTATCAA
1 GATTTTGGCTTTTATATATTTATTATATAAGATTTTATATTTTTAATTATTAAAATTATTATTAA
* * * *
120437 TTACTGTTTACTATTTGAACTT-A---ATTTTTTAATTTGAATTTAAAT-GTCTGCAAA-T-T-A
66 TTACTATTTACTATTTGAACTTGATTTATTTTTAAAATTGAATTTAAATAG-CTCCAAATTATCA
* * * * * *
120494 --T-TAAAAAATCTTTATTTATAGTAGTTTATTAAATAAATTTAATTTAATATTTTTTGTTAGAT
130 TTTGTAGAAAATCTCTATTTATAATAGTCTAGTAAATAAATTTAATTTAATATTTTATG--AGAT
* *
120556 ATGAAAAGAAAATT-AAATATTTATTTGTTTAC--------ATAT-ACGTAAGTCAATTAAATGT
193 ATGAAAA-AAAATTAAAAT-TTTATTTGTTTACATATATATATATAAGGTAAGTCAATTAAAAGT
* * * * *
120611 ATAAAAGAATAGAAATGTAATTAATTATATTAAATATTTTAATATTAAATTAAATCAAGTTAAAA
256 ATAAAAGAAAATAAATATAATTAATTATATAAAATATTTTAATATTAAATTAAATCAAGTCAAAA
** * * * ** * **
120676 TAATTAAATACGTGATATATGATGACTTTTTATGATCATTTATATGTGAATAATATAGGCTATTT
321 TAATTAAATGTGCGATACATGATGACTTTTTACGATCA-TCCTA--TGAATAATATAAGCTATCC
* * *
120741 ATATTTGATAATTACCTTTTTAATAAAA
383 ACATTAGATAATTACCTTTTTAGTAAAA
* * *
120769 GGTTTTGACTTTTATATATTTATTATATAAGATTTTTATATTTTTAATTATTAAAATTATTATTG
1 GATTTTGGCTTTTATATATTTATTATATAAGA-TTTTATATTTTTAATTATTAAAATTATTATTA
* * * *
120834 ATTATTGTTTACTATTT-AACTTGATTTATTTTTAAAA-TGAAATTTAAAT-GATTCTAAATTAT
65 ATTACTATTTACTATTTGAACTTGATTTATTTTTAAAATTG-AATTTAAATAG-CTCCAAATTAT
* * * *
120896 TATTTGTAGAAAATCTCTATTTATAATAGTGTAGTAAATAAATTTAAGTTAATATTTTATAAGAT
128 CATTTGTAGAAAATCTCTATTTATAATAGTCTAGTAAATAAATTTAATTTAATATTTTATGAGAT
* * * * *
120961 ATCAAAAAAAATTAGAATTTTATTTGTTTGCATATATATATATAA--TAAATCAGTTAAAAGTAT
193 ATGAAAAAAAATTAAAATTTTATTTGTTTACATATATATATATAAGGTAAGTCAATTAAAAGTAT
** *
121024 AAAAGAAAATAAATATAATTAATTATATAAAATA-TTTAATATTAAATTAAGCCAAGTTAAAATA
258 AAAAGAAAATAAATATAATTAATTATATAAAATATTTTAATATTAAATTAAATCAAGTCAAAATA
* * * * ** * * *
121088 GTTAAATGTACGA-ACATTATAACTTTTTATAATTATCTATATGTGAATAATATAAACTATCCAC
323 ATTAAATGTGCGATACATGATGACTTTTTACGATCATC-CTA--TGAATAATATAAGCTATCCAC
* *
121152 GTT-GAATAATTATCTTTTT-GTAAAA
385 ATTAG-ATAATTACCTTTTTAGTAAAA
* * * * *
121177 -AGTTTTGGCCTTTATATATTTATCATATAAAATTTTATATTTATAA-TATTAAAATTATTGTTA
1 GA-TTTTGGCTTTTATATATTTATTATATAAGATTTTATATTTTTAATTATTAAAATTATTATTA
* * * * * *
121240 GTTACTATTTACTATTTAAACTTGATTTATTTTTAAAATTAAAATTAAATGGC-CC----CATCA
65 ATTACTATTTACTATTTGAACTTGATTTATTTTTAAAATTGAATTTAAATAGCTCCAAATTATCA
* * * * *
121300 --T-T-----ATCCCTATATATAATATTCTAGTAAATAAAATTAATTTAATATTTTTTGAGATAA
130 TTTGTAGAAAATCTCTATTTATAATAGTCTAGTAAATAAATTTAATTTAATATTTTATGAGAT-A
* * * *
121357 TCAAAGAAAATCAAAATTTTATTTATTTACAAATATATATATATATATATATAAGGTAAGTCAAT
194 TGAAAAAAAATTAAAATTTTATTTGTTTAC----------ATATATATATATAAGGTAAGTCAAT
* * *
121422 TAAAAGTATAAATGAAAGA-AAATATAATTCACTATATAAAATATTTTAATATTAAATTAAATCA
249 TAAAAGTATAAAAGAAA-ATAAATATAATTAATTATATAAAATATTTTAATATTAAATTAAATCA
* ** ** *
121486 AGTCAAAATAATTAAATTTTTGATACATGAT-ACCTTTTTATAATCGT-CTACATGTAAATAATA
313 AGTCAAAATAATTAAATGTGCGATACATGATGA-CTTTTTACGATCATCCT--ATG--AATAATA
* * * *
121549 -AAACTATCTATATTAGATAATTACTTTTTTTA-TAAAA
373 TAAGCTATCCACATTAGATAATTAC-CTTTTTAGTAAAA
* * * *
121586 GATTTTGGTTTTTATATATTTATCATTTAAGATTTT-TATTTTTTAAATTATTAAAATTATTATC
1 GATTTTGGCTTTTATATATTTATTATATAAGATTTTATA-TTTTT-AATTATTAAAATTATTATT
* * * * * * * *
121650 GATTATTATTTACTATTTGAACTTAATTTATTTTTAAAATTGAATTTAAGTGGCTTCAAAATATT
64 AATTACTATTTACTATTTGAACTTGATTTATTTTTAAAATTGAATTTAAATAGCTCCAAATTATC
* * * * *
121715 ATTTGCAGAATA-CTCCTATTTATAGTAGTCTATTAAATAAATTTAATTTAATATTTTTTTGAGA
129 ATTTGTAGAAAATCT-CTATTTATAATAGTCTAGTAAATAAATTTAATTTAATA-TTTTATGAGA
* * * *
121779 TAAG-TAAAAAATTAAAATTTTATTTGTTTACAAATATAAATATAAAAAAGGTAAGTCAATTAAA
192 TATGAAAAAAAATTAAAATTTTATTTGTTTAC--ATAT--ATATATATAAGGTAAGTCAATTAAA
* * *
121843 AGTATAAAACAAAATAAATATAATTAATTATATGAAATATTTTAATATTAAATTAAATAAAGTCA
253 AGTATAAAAGAAAATAAATATAATTAATTATATAAAATATTTTAATATTAAATTAAATCAAGTCA
* * * * * * *
121908 AAAT-AGTAGATGTGCGATATATAATTACTTTTTACGATTATTCAC-ATGTAAATAATATAGGCT
318 AAATAATTAAATGTGCGATACATGATGACTTTTTACGATCA-TC-CTATG--AATAATATAAGCT
* * *
121971 ATCCATATTAGACAATTA-CTTTTTTGATAAAA
379 ATCCACATTAGATAATTACCTTTTTAG-TAAAA
* *
122003 -AGTTTTGGCTTTTATATATTTATTATATAAGATTTT-TATTTTTATAATTATTGAAATTATTGT
1 GA-TTTTGGCTTTTATATATTTATTATATAAGATTTTATA-TTTT-TAATTATTAAAATTATTAT
* * * * *
122066 CAATTACTATTTACAATTTGAACTTAATTTATTTTTAAAATTGATTTTAAATAGCTTCAAATTA-
63 TAATTACTATTTACTATTTGAACTTGATTTATTTTTAAAATTGAATTTAAATAGCTCCAAATTAT
* * *
122130 CTATTTTTAAAAAATCCCTATTTAT
128 C-ATTTGTAGAAAATCTCTATTTAT
122155 TTTATTATTT
Statistics
Matches: 3127, Mismatches: 499, Indels: 387
0.78 0.12 0.10
Matches are distributed among these distances:
390 1 0.00
391 76 0.02
392 71 0.02
393 174 0.06
394 128 0.04
395 32 0.01
396 25 0.01
397 112 0.04
398 97 0.03
399 5 0.00
400 19 0.01
401 189 0.06
402 44 0.01
403 58 0.02
404 71 0.02
405 37 0.01
406 57 0.02
407 139 0.04
408 96 0.03
409 147 0.05
410 45 0.01
411 124 0.04
412 355 0.11
413 331 0.11
414 226 0.07
415 55 0.02
416 72 0.02
417 267 0.09
418 3 0.00
419 1 0.00
423 24 0.01
424 35 0.01
425 11 0.00
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.44
Consensus pattern (410 bp):
GATTTTGGCTTTTATATATTTATTATATAAGATTTTATATTTTTAATTATTAAAATTATTATTAA
TTACTATTTACTATTTGAACTTGATTTATTTTTAAAATTGAATTTAAATAGCTCCAAATTATCAT
TTGTAGAAAATCTCTATTTATAATAGTCTAGTAAATAAATTTAATTTAATATTTTATGAGATATG
AAAAAAAATTAAAATTTTATTTGTTTACATATATATATATAAGGTAAGTCAATTAAAAGTATAAA
AGAAAATAAATATAATTAATTATATAAAATATTTTAATATTAAATTAAATCAAGTCAAAATAATT
AAATGTGCGATACATGATGACTTTTTACGATCATCCTATGAATAATATAAGCTATCCACATTAGA
TAATTACCTTTTTAGTAAAA
Found at i:119364 original size:806 final size:811
Alignment explanation
Indices: 116897--122129 Score: 4005
Period size: 805 Copynumber: 6.5 Consensus size: 811
116887 AGCAGTTTAT
* * * * *
116897 TAAATAAATTTAATTTAATATTTTTGTTAGATATAAAAAGAAAATAAAAATTTTATTTATTTACA
1 TAAATAAATTTAATTTAATATTTTT-ATA-A-ATGATAA-AAAATTAAAATTTTATTTGTTTACA
* * * * *
116962 TATATATATATATATAAGATAAGTCAATTAAAAGTA-AAAATAAAA-AAACTATATTTAATTATC
62 -ATATATATATATATAAGGTAAATCAATTAAAAGTATAAAAGAAAATAAA-TATAATTAATTATA
* * * * *
117025 TGAAATATTTTAATATTAAATTAAATTAAGTTAAGTCAATAATTAAAAGTGTGACACATGA-ACA
125 TAAAATATTTTAATATTAAATTAAATCAAGTCAA---AATAATTAAATGTGCGACACATGATA-A
* * * * * * * * *
117089 TTTTTTTATGATTGTTCGTATGTGAATAATAT-AGATTATCTATATTGAATAATTATCTTTTTAG
186 -CTTTTTACGATT-ATC--ATATGAATAATATAAG-CTATCCACATTG-ATAATTACCTTTTTCG
* * *
117153 TAAAAAATTTTGGTTTTTATATATTTATCATATAAGATTTTATATTTTTAATTATTAGAATTATT
245 TAAAAAGTTTTGGCTTTTATATATTTATCATATAAGATTTTATATTTTTAATTATTAAAATTATT
* * * * *
117218 -TTCAATTACT-GTTATTATGTGAACTTAATTTATTTTTTAAATTGAATTTAAATAGCTCCAAA-
310 GTT-AGTTACTATTTACTATTTGAACTTAATTTATTTTTAAAATTGAATTTAAAT-GCTCCAAAT
* * *
117280 T-T-A-TT--AAACTCTTATTTATGATAGTCTATTAAATAAATTTAATTCAATATTTTTTTGAGA
373 TATCATTTAAAAACCCTTATTTATAATAGTCTATTAAATAAATTTAATTTAATA-TTTTTTGAGA
* * * *
117340 TACGGAAAGAAAATTAAAATTTTATTTGTTT--ATATATGT-A-TAAAAGGTAAGTTAATTAAAA
437 T---GAAAGAAAATTAAAATTTTATTTATTTACATATATATAATTAAAAGGTAAGTCAATCAAAA
* *
117401 GTATAAAA-GAAATAAAAATAATTAATTATATAAAATATTTTAATATTAAATTAAATGAAGTCAA
499 GTATAAAATGAAAT--AAAT-A-TAA-TA-ATATAATATTTTAATATTAAATTAAATCAAGTCAA
* * *** * * * * * * * *
117465 AATAATTAAATGTGAGACGTATTATGACTTTTTA-CAACTGTTCACATGTAAATAATAT-AGATT
558 AATAATTAAATATGCGATACATGATGACTTTTTATCGACTATCCATATATGAATAATATAAG-CT
* * * *
117528 ATCCACATTAAATAATTACTTTTTTGGTAAAAG-----G--TTT-TA-GTTT-TTATAT---A-T
622 ATCCACATTAGATAATTACCTTTTTAGTAAAAGATTTTGCTTTTATATATTTATTATATAAGATT
* * * * * *
117579 TTACTA----T-ATAATTGAAATTATTATTCGTTATTATTTACTATTTAAACTTAAATTACTTTT
687 TTA-TATTTTTAATTATTAAAATTATTATT-GTTATTATTTACTATTTGAACTTGATTTATTTTT
* * *
117639 AAAATTAAATTTAAATGGCT-TCAAATTATCATTTTTAGAAAATCTCTATTTATAATATTCTAG
750 AAAATTAAATTTAAATAGCTCT-AAATTA-CTTTTTTAGAAAATCTCTATTTATAATAGTCTAG
* * * *
117702 CAAGTAAATTTAATTTAATATTTTTGTGAGAT-ATAGAATGGAAATTAAAATTTTATTTGTTTAC
1 TAAATAAATTTAATTTAATATTTTTAT-AAATGATA-AA---AAATTAAAATTTTATTTGTTTAC
117766 -ATATATATATATATACACGGTAAATCAATTAAAA-T-T--------AT-AA-ATAATTAATTAT
61 AATATATATATATATA-A-GGTAAATCAATTAAAAGTATAAAAGAAAATAAATATAATTAATTAT
* * * * * * * *
117818 ATAAAATATTTTAATACTAAA-T---T-AAGTTAAAATAATTAAGTAT-CTATATATGA-GACTT
124 ATAAAATATTTTAATATTAAATTAAATCAAGTCAAAATAATTAAATGTGCGACACATGATAACTT
* * *
117876 TTTACGATCATTCACATGTGAATAATATAAGCTATCCGCATTAGAT-A--A-----TT-G-----
189 TTTACGATTA-T--CATATGAATAATATAAGCTATCCACATT-GATAATTACCTTTTTCGTAAAA
* * * * *
117927 A-TTTTGACTTTTATACATTTATCATATAAGATTTTATATTTTTAAGTATTAGAATTATTATT-G
250 AGTTTTGGCTTTTATATATTTATCATATAAGATTTTATATTTTTAATTATTAAAATTATTGTTAG
* * * * * *
117990 TTTACTGTTTAATATTTGAATTTGATTCATTTTTAAAATTAAATTTAAATAGCTCCAAATTATCA
315 -TTACTATTTACTATTTGAACTTAATTTATTTTTAAAATTGAATTTAAAT-GCTCCAAATTATC-
* ** * * *
118055 ATTGTAGAAAACCCCTATTTATTGTAATCTATTAAATAGAGTTAATTTAATATTTTTATGAGATA
377 ATT-TA-AAAACCCTTATTTATAATAGTCTATTAAATAAATTTAATTTAATATTTTT-TGAG--A
* * *
118120 TGAAAAGAAAAATAAAATTTTATTTGTTCACATATATATATATATATATATAAGAGGTAAGTCAA
437 TG-AAAGAAAATTAAAATTTTATTTATT----TACATATATATA-AT-TA-AA-AGGTAAGTCAA
* * * *
118185 TTAAAAATATAAAAAGATATAAATATAATTAATTATATTAAATATTTTAATATTAAATTAAATCA
493 TCAAAAGTATAAAATGAAATAAATATAA-T-A--ATA-T-AATATTTTAATATTAAATTAAATCA
* * * *
118250 AGTCAAAATAATTAAATAT--G-----T-A--ACCTATTGT-GACT-T---TTTA-G-A-AAT-T
552 AGTCAAAATAATTAAATATGCGATACATGATGACTTTTTATCGACTATCCATATATGAATAATAT
* * * *
118296 -A-C--T-CACATTGGATAATTACCTTTTAAGTAAAAGGTTTTGGCTTTTACATATTTATTATAT
617 AAGCTATCCACATTAGATAATTACCTTTTTAGTAAAAGATTTT-GCTTTTATATATTTATTATAT
* * * * *
118356 AA-AATTTATATTTTTAATTATTAAAATTATTATTGGTTACTGTTTACTATTTAAATTTGATTTA
681 AAGATTTTATATTTTTAATTATTAAAATTATTATT-GTTATTATTTACTATTTGAACTTGATTTA
* * * * *
118420 TTTTTAAAATTAAATTTAAATAGATCTAAATTATCATTTGTAAAAAATCTTTATTTATAATAGT-
745 TTTTTAAAATTAAATTTAAATAGCTCTAAATTA-CTTTTTTAGAAAATCTCTATTTATAATAGTC
*
118484 AAGG
809 TA-G
* *
118488 TAAATAAATTTAATTTAATATTGTTATGAGATATGAAAATAAAATTAAAATTTTATTTGTTTAC-
1 TAAATAAATTTAATTTAATATTTTTAT-A-A-ATGATAA-AAAATTAAAATTTTATTTGTTTACA
*
118552 --ATATATATATATAAGGCAAATCAATTAAAAGTATAAAAAGAAAATAAATATAATTAATTATAT
62 ATATATATATATATAAGGTAAATCAATTAAAAGTAT-AAAAGAAAATAAATATAATTAATTATAT
* * * * *
118615 GAAATATTTTAATATTACATTAAATCAAGTTAAAATAATTAAATGTGCAACACATGATGACTTTT
126 AAAATATTTTAATATTAAATTAAATCAAGTCAAAATAATTAAATGTGCGACACATGATAACTTTT
* * * * *
118680 TACGATCATCCTACGAATAATATAATCTATCCACATTAGATAATTACCTTTTTCGT-TAAAGATT
191 TACGATTATCATATGAATAATATAAGCTATCCACATT-GATAATTACCTTTTTCGTAAAAAG-TT
* * * *
118744 TTGGCTTTTATATATTTATCATATAAGATTTAATATTTTTAATTATTCAAATTATTATTGGTTAC
254 TTGGCTTTTATATATTTATCATATAAGATTTTATATTTTTAATTATTAAAATTATTGTTAGTTAC
* * * *
118809 TATTTATTATTTAAACTTAATTTATTTTTTAAATTCAATTTAAATAGCTCCAAATTATCATTTGT
319 TATTTACTATTTGAACTTAATTTATTTTTAAAATTGAATTTAAAT-GCTCCAAATTATCA-TT-T
** * *
118874 AAAAACCCTTTATTTATCGTAGTCTATTGAATAAATTTAATTTAATA-TTTTT-CG-T-AAA-AA
381 AAAAACCC-TTATTTATAATAGTCTATTAAATAAATTTAATTTAATATTTTTTGAGATGAAAGAA
* * *
118934 AATTAAAATTTTATTTGTTTATATATATATAATTAAAAGGTAAGTCAATCAAAAGTATAACA-G-
445 AATTAAAATTTTATTTATTTACATATATATAATTAAAAGGTAAGTCAATCAAAAGTATAAAATGA
* * *
118997 AA-AAAT-TAA-AAT-T-TTA-TTTAATATTAAATTAAATTAAGTCAAAATAATTAAATATGCAA
510 AATAAATATAATAATATAATATTTTAATATTAAATTAAATCAAGTCAAAATAATTAAATATGCGA
* * * * * * *
119056 TATATTATGA-TTTTT-TGCGACTATCCATATATGAATAATGTATGGTATCCACATCAGTTAATT
575 TACATGATGACTTTTTAT-CGACTATCCATATATGAATAATATAAGCTATCCACATTAGATAATT
* * *
119119 A-CTTTTTTGTAAAAGTTTTTAGCTTTTATATATTTATTATATAACATTTTATATTTTTAATTAT
639 ACCTTTTTAGTAAAAGATTTT-GCTTTTATATATTTATTATATAAGATTTTATATTTTTAATTAT
* * *
119183 TAAAATTATTGTCTGTTATTATTTATTATTTGAACTTGATTTATTTATAAAATTAAATTTAAATA
703 TAAAATTATTAT-TGTTATTATTTACTATTTGAACTTGATTTATTTTTAAAATTAAATTTAAATA
* *
119248 GCCCCAAATTACCTTTTTTAGAAAAT-TCCTATTTATAATAGTCTAG
767 GCTCTAAATTA-CTTTTTTAGAAAATCT-CTATTTATAATAGTCTAG
*
119294 CAAATAAATTTAATTTAATATTTTTATACAAT-ATAAAAAATTAAAATTTTATTTGTTTAC-ATA
1 TAAATAAATTTAATTTAATATTTTTATA-AATGATAAAAAATTAAAATTTTATTTGTTTACAATA
* *
119357 TATATATATATAAGGAAAATCAATTAAAAGTATAAATA-AAAATATATATAATTAATTATATAAA
65 TATATATATATAAGGTAAATCAATTAAAAGTATAAA-AGAAAATAAATATAATTAATTATATAAA
* * * *
119421 ATATTTTAATATTAAATTAAATCAAATCAAAATAATTGAGTGTGTGACACATGATGAA-TTTTTA
129 ATATTTTAATATTAAATTAAATCAAGTCAAAATAATTAAATGTGCGACACATGAT-AACTTTTTA
* * *
119485 TGACCTT-TCATATGTGAATAATATAGGTTATCCACATTGAATAATTACCTTTTTCGTAAAAAGT
193 CGA--TTATCATA--TGAATAATATAAGCTATCCACATTG-ATAATTACCTTTTTCGTAAAAAGT
* *
119549 TTTGG-TTTTATATATTTATTATATAAGATTTTATATTTTTAATTATTATAATTATTGTT-GTTA
253 TTTGGCTTTTATATATTTATCATATAAGATTTTATATTTTTAATTATTAAAATTATTGTTAGTT-
* * * * * *
119612 ACTGTTTGCTATTTGAATTTGATTTATTCTTAAAATTGAATTTAAATGACAT-CAAATTATTAAT
317 ACTATTTACTATTTGAACTTAATTTATTTTTAAAATTGAATTTAAATG-C-TCCAAATTA-TCAT
* * *
119676 TGTAGAAAGCCCTTATTTATAATAATCCATTAAATAAATTTAATTTAATATTTTTTGTGAGATAT
379 T-TA-AAAACCCTTATTTATAATAGTCTATTAAATAAATTTAATTTAATA-TTTTT-TGAG--AT
* * * * *
119741 GGAAA-AAAATTAAGATTTTATTTATTTACATATATA-CA-TAAAAGGCAAGTTGAA-CAAAAAT
438 -GAAAGAAAATTAAAATTTTATTTATTTACATATATATAATTAAAAGGTAAG-TCAATCAAAAGT
* *
119802 ATAAAA--AAATAAATATAATTAATTATATAAAATATTTTAATATTAAATT-AATTAGAATCAAA
501 ATAAAATGAAATAAATATAA-T-A--ATAT--AATATTTTAATATTAAATTAAATCA-AGTCAAA
* * *
119864 ATAATTAAATATACGACACATGATGACTTTTTCATC-ACT-GCTCATATATGAATAATATAAGCT
559 ATAATTAAATATGCGATACATGATGACTTTTT-ATCGACTATC-CATATATGAATAATATAAGCT
* *
119927 ATCCACATTAAATAATTACCTTTTTAGTAAAAGATTTTGCTTTTATACATTTATTATATAAGATT
622 ATCCACATTAGATAATTACCTTTTTAGTAAAAGATTTTGCTTTTATATATTTATTATATAAGATT
* ** * * * *
119992 CTTATATTATTAATTATTTCAATTATTGTTAATTACTATTTA-TCATTTGAACTAT-ATTTACTT
687 -TTATATTTTTAATTATTAAAATTATTATT-GTTATTATTTACT-ATTTGAACT-TGATTTATTT
* * * * * *
120055 TTAAAATTGAATTTAAATGGTTCTAACTTACTATTTATAGAAAATCTCTATTTATAATAGTCTCG
748 TTAAAATTAAATTTAAATAGCTCTAAATTACT-TTTTTAGAAAATCTCTATTTATAATAGTCTAG
** * * * *
120120 TGCATAAATTTAATTTAATATTTTTGTGAGACAATGAAAAAAAAATAAAATTTTAATTG--TA-A
1 TAAATAAATTTAATTTAATA-TTTT-T-ATA-AATGATAAAAAATTAAAATTTTATTTGTTTACA
* * *
120182 ATATATATATATATAAAGGTAAGTTAATTAAAAGTATAAAATAAAATAAATATAATTAATTATAT
62 ATATATATATATAT-AAGGTAAATCAATTAAAAGTATAAAAGAAAATAAATATAATTAATTATAT
* * * *
120247 AAAA-A-ATTAATATTAAATTAAAT-AAGTCAAAATAATTAAATGTGTGATACATGATAATTTTT
126 AAAATATTTTAATATTAAATTAAATCAAGTCAAAATAATTAAATGTGCGACACATGATAACTTTT
* * * * * * *
120309 TACGACTGTTTACATTTGAATAATAAAAGCTATCAATATTGGATAATTACCTTTTTCTTAAAAGG
191 TACGA-T-TAT-CATATGAATAATATAAGCTATCCACATT-GATAATTACCTTTTTCGTAAAAAG
* * * * * *
120374 TTTTGGCTTTTGTACATTTATCGTATAAGATTTTATATTTTTAATTATTAAAATTATTATCAATT
252 TTTTGGCTTTTATATATTTATCATATAAGATTTTATATTTTTAATTATTAAAATTATTGTTAGTT
* * * *
120439 ACTGTTTACTATTTGAACTTAA--T-TTTTT-AATTTGAATTTAAATGTCTGCAAA-T-T-ATTA
317 ACTATTTACTATTTGAACTTAATTTATTTTTAAAATTGAATTTAAATG-CTCCAAATTATCATTT
* * * *
120497 AAAAATCTTTATTTATAGTAGTTTATTAAATAAATTTAATTTAATATTTTTTGTTAGATATGAAA
381 AAAAACCCTTATTTATAATAGTCTATTAAATAAATTTAATTTAATATTTTTTG--AG--ATG-AA
* ** * * * * ** *
120562 AGAAAATT-AAATATTTATTTGTTTACATATACGTAAGT-CAA-TTAAATGTAT-AAAAGAATAG
441 AGAAAATTAAAAT-TTTATTTATTTACATATATATAATTAAAAGGTAAGTCAATCAAAAGTATA-
* * * *
120623 AAATGTAATTAAT-T-ATATTA-AATATTTTAATATTAAATTAAATCAAGTTAAAATAATTAAAT
504 AAATGAAATAAATATAATAATATAATATTTTAATATTAAATTAAATCAAGTCAAAATAATTAAAT
* * * ** * * ** * *
120685 ACGTGATATATGATGACTTTTTAT-GA-TCATTTATATGTGAATAATATAGGCTATTTATATTTG
569 ATGCGATACATGATGACTTTTTATCGACT-ATCCATATATGAATAATATAAGCTATCCACATTAG
* *
120748 ATAATTACCTTTTTAATAAAAGGTTTTGACTTTTATATATTTATTATATAAGATTTTTATATTTT
633 ATAATTACCTTTTTAGTAAAAGATTTTG-CTTTTATATATTTATTATATAAGA-TTTTATATTTT
* *
120813 TAATTATTAAAATTATTATTGATTATTGTTTACTATTT-AACTTGATTTATTTTTAAAATGAAAT
696 TAATTATTAAAATTATTATTG-TTATTATTTACTATTTGAACTTGATTTATTTTTAAAATTAAAT
* *
120877 TTAAAT-GATTCTAAATTA-TTATTTGTAGAAAATCTCTATTTATAATAGTGTAG
760 TTAAATAG-CTCTAAATTACTT-TTT-TAGAAAATCTCTATTTATAATAGTCTAG
* * *
120930 TAAATAAATTTAAGTTAATA-TTTTATAAGAT-ATCAAAAAAAATTAGAATTTTATTTGTTTGC-
1 TAAATAAATTTAATTTAATATTTTTATAA-ATGAT---AAAAAATTAAAATTTTATTTGTTTACA
*
120992 --ATATATATATATAA--TAAATCAGTTAAAAGTATAAAAGAAAATAAATATAATTAATTATATA
62 ATATATATATATATAAGGTAAATCAATTAAAAGTATAAAAGAAAATAAATATAATTAATTATATA
** * * * *
121053 AAATA-TTTAATATTAAATTAAGCCAAGTTAAAATAGTTAAATGTACGA-ACATTATAACTTTTT
127 AAATATTTTAATATTAAATTAAATCAAGTCAAAATAATTAAATGTGCGACACATGATAACTTTTT
** * * *
121116 ATAATTATCTATATGTGAATAATATAAACTATCCACGTTGAATAATTATCTTTTT-GTAAAAAGT
192 ACGATTATC-ATA--TGAATAATATAAGCTATCCACATTG-ATAATTACCTTTTTCGTAAAAAGT
* * *
121180 TTTGGCCTTTATATATTTATCATATAAAATTTTATATTTATAA-TATTAAAATTATTGTTAGTTA
253 TTTGGCTTTTATATATTTATCATATAAGATTTTATATTTTTAATTATTAAAATTATTGTTAGTTA
* * * * *
121244 CTATTTACTATTTAAACTTGATTTATTTTTAAAATTAAAATTAAATGGC-CC----CATCA-TT-
318 CTATTTACTATTTGAACTTAATTTATTTTTAAAATTGAATTTAAAT-GCTCCAAATTATCATTTA
* * * * * *
121302 --ATCCC-TATATATAATATTCTAGTAAATAAAATTAATTTAATATTTTTTGAGATAATCAAAGA
382 AAAACCCTTATTTATAATAGTCTATTAAATAAATTTAATTTAATATTTTTTGAG---ATGAAAGA
* *
121364 AAATCAAAATTTTATTTATTTACAAATATATATATATATATATATAAGGTAAGTCAATTAAAAGT
444 AAATTAAAATTTTATTTATTTAC----ATATATATA-AT-TA-A-AAGGTAAGTCAATCAAAAGT
*
121429 AT-AAATGAAAGAAAATATAATTCACTATATAAAATATTTTAATATTAAATTAAATCAAGTCAAA
501 ATAAAATGAAA-TAAATATAA-T-A--ATAT--AATATTTTAATATTAAATTAAATCAAGTCAAA
* ** * * *
121493 ATAATTAAATTTTTGATACATGAT-ACCTTTTTATAATCGTCTA--CATGTA--AATAATA-AAA
559 ATAATTAAATATGCGATACATGATGA-C-TTTT-T-ATCGACTATCCATATATGAATAATATAAG
* * * * * *
121552 CTATCTATATTAGATAATTACTTTTTTTA-TAAAAGATTTTGGTTTTTATATATTTATCATTTAA
620 CTATCCACATTAGATAATTAC-CTTTTTAGTAAAAGATTTT-GCTTTTATATATTTATTATATAA
* *
121616 GATTTT-TATTTTTTAAATTATTAAAATTATTATCGATTATTATTTACTATTTGAACTTAATTTA
683 GATTTTATA-TTTTT-AATTATTAAAATTATTATTG-TTATTATTTACTATTTGAACTTGATTTA
* * * * * * *
121680 TTTTTAAAATTGAATTTAAGTGGCT-TCAAAATA-TTATTT-GCAGAATACTCCTATTTATAGTA
745 TTTTTAAAATTAAATTTAAATAGCTCT-AAATTACTTTTTTAG-AAAAT-CT-CTATTTATAATA
*
121742 GTCTAT
806 GTCTAG
* * *
121748 TAAATAAATTTAATTTAATATTTTTTTGAGATAAGTAAAAAATTAAAATTTTATTTGTTTACAAA
1 TAAATAAATTTAATTTAATATTTTTAT-AAATGA-TAAAAAATTAAAATTTTATTTGTTTAC-AA
* * * * * *
121813 TATAAATATAAAAAAGGTAAGTCAATTAAAAGTATAAAACAAAATAAATATAATTAATTATATGA
63 TATATATATATATAAGGTAAATCAATTAAAAGTATAAAAGAAAATAAATATAATTAATTATATAA
* * * * * * *
121878 AATATTTTAATATTAAATTAAATAAAGTCAAAAT-AGTAGATGTGCGATATATAATTACTTTTTA
128 AATATTTTAATATTAAATTAAATCAAGTCAAAATAATTAAATGTGCGACACATGATAACTTTTTA
* * * * *
121942 CGATTATTCACATGTAAATAATATAGGCTATCCATATTAGACAATTA-CTTTTTTGATAAAAAGT
193 CGATTA-TCATATG--AATAATATAAGCTATCCACATT-GATAATTACCTTTTTCG-TAAAAAGT
* * * *
122006 TTTGGCTTTTATATATTTATTATATAAGATTTT-TATTTTTATAATTATTGAAATTATTGTCAAT
253 TTTGGCTTTTATATATTTATCATATAAGATTTTATA-TTTT-TAATTATTAAAATTATTGTTAGT
* * *
122070 TACTATTTACAATTTGAACTTAATTTATTTTTAAAATTGATTTTAAATAGCTTCAAATTA
316 TACTATTTACTATTTGAACTTAATTTATTTTTAAAATTGAATTTAAAT-GCTCCAAATTA
122130 CTATTTTTAA
Statistics
Matches: 3606, Mismatches: 509, Indels: 598
0.77 0.11 0.13
Matches are distributed among these distances:
768 84 0.02
769 48 0.01
770 1 0.00
771 1 0.00
773 3 0.00
774 6 0.00
775 4 0.00
776 3 0.00
777 8 0.00
778 67 0.02
779 6 0.00
780 4 0.00
781 11 0.00
782 21 0.01
783 73 0.02
784 28 0.01
785 9 0.00
786 156 0.04
787 6 0.00
788 9 0.00
789 21 0.01
790 26 0.01
791 48 0.01
792 3 0.00
793 11 0.00
794 36 0.01
795 31 0.01
796 5 0.00
797 25 0.01
798 3 0.00
799 54 0.01
800 30 0.01
801 59 0.02
802 45 0.01
803 112 0.03
804 89 0.02
805 353 0.10
806 268 0.07
807 41 0.01
808 59 0.02
809 17 0.00
810 141 0.04
811 113 0.03
812 34 0.01
813 21 0.01
814 183 0.05
815 8 0.00
816 21 0.01
817 154 0.04
818 190 0.05
819 21 0.01
820 15 0.00
821 3 0.00
822 15 0.00
823 30 0.01
824 109 0.03
825 146 0.04
826 263 0.07
827 95 0.03
828 84 0.02
829 55 0.02
830 20 0.01
833 1 0.00
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (811 bp):
TAAATAAATTTAATTTAATATTTTTATAAATGATAAAAAATTAAAATTTTATTTGTTTACAATAT
ATATATATATAAGGTAAATCAATTAAAAGTATAAAAGAAAATAAATATAATTAATTATATAAAAT
ATTTTAATATTAAATTAAATCAAGTCAAAATAATTAAATGTGCGACACATGATAACTTTTTACGA
TTATCATATGAATAATATAAGCTATCCACATTGATAATTACCTTTTTCGTAAAAAGTTTTGGCTT
TTATATATTTATCATATAAGATTTTATATTTTTAATTATTAAAATTATTGTTAGTTACTATTTAC
TATTTGAACTTAATTTATTTTTAAAATTGAATTTAAATGCTCCAAATTATCATTTAAAAACCCTT
ATTTATAATAGTCTATTAAATAAATTTAATTTAATATTTTTTGAGATGAAAGAAAATTAAAATTT
TATTTATTTACATATATATAATTAAAAGGTAAGTCAATCAAAAGTATAAAATGAAATAAATATAA
TAATATAATATTTTAATATTAAATTAAATCAAGTCAAAATAATTAAATATGCGATACATGATGAC
TTTTTATCGACTATCCATATATGAATAATATAAGCTATCCACATTAGATAATTACCTTTTTAGTA
AAAGATTTTGCTTTTATATATTTATTATATAAGATTTTATATTTTTAATTATTAAAATTATTATT
GTTATTATTTACTATTTGAACTTGATTTATTTTTAAAATTAAATTTAAATAGCTCTAAATTACTT
TTTTAGAAAATCTCTATTTATAATAGTCTAG
Found at i:119584 original size:23 final size:25
Alignment explanation
Indices: 119554--119599 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
119544 AAAGTTTTGG
119554 TTTTATATATTT-ATTA-TATAAGA
1 TTTTATATATTTAATTATTATAAGA
*
119577 TTTTATATTTTTAATTATTATAA
1 TTTTATATATTTAATTATTATAA
119600 TTATTGTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 4 0.20
25 5 0.25
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTTATATATTTAATTATTATAAGA
Found at i:120831 original size:24 final size:24
Alignment explanation
Indices: 120780--120831 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
120770 GTTTTGACTT
* *
120780 TTATATATTTATTATATAAGATTT
1 TTATATATTTATTATATAAAATTA
*
120804 TTATATTTTTAATTAT-TAAAATTA
1 TTATATATTT-ATTATATAAAATTA
120828 TTAT
1 TTAT
120832 TGATTATTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
TTATATATTTATTATATAAAATTA
Found at i:121217 original size:21 final size:22
Alignment explanation
Indices: 121191--121232 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
121181 TTGGCCTTTA
*
121191 TATATTTATCATA-TAAAATTT
1 TATATTTATAATATTAAAATTT
121212 TATATTTATAATATTAAAATT
1 TATATTTATAATATTAAAATT
121233 ATTGTTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TATATTTATAATATTAAAATTT
Found at i:121883 original size:417 final size:423
Alignment explanation
Indices: 120594--122135 Score: 1385
Period size: 417 Copynumber: 3.7 Consensus size: 423
120584 TTACATATAC
* * * * *
120594 GTAAGTCAATTAAATGTATAAAAGAATAG-AAATGTAATTAATTATATTAAATATTTTAATATTA
1 GTAAGTCAATTAAAAGTATAAAACAA-AGAAAATATAATTAACTATATAAAATATTTTAATATTA
* * * ** * * * * ** * *
120658 AATTAAATCAAGTTAAAATAATTAAATACGTGATATATGATGACTTTTTATGATCATTTATATGT
65 AATTAAATAAAGTCAAAAT-AGTAAATGTGCGATACATAATTACTTTTTACAATCATTCACATGT
* ** ** * * * * * *
120723 GAATAATATAGGCTATTTATATTTGATAATTACCTTTTTAATAAAAGGTTTTGACTTTTATATAT
129 AAATAATATAAACTATCCATATTAGACAATTACTTTTTTGATAAAAAGTTTTGGCTTTTATATAT
* ** * * *
120788 TTATTATATAAGATTTTTATATTTT-TAATTATTAAAATTATTATTGATTATTGTTTACTATTT-
194 TTATCATATAAGATTTTTAT-TTTTATAATTATTAAAATTATTATCAATTACTATTTACAATTTG
* * * * * *
120851 AACTTGATTTATTTTTAAAA-TGAAATTTAAAT-GATTCTAAATTATTATTTGTAGAA-AATCTC
258 AACTTAATTTATTTTTAAAATTG-AATTTAAATAGCTTC-AAAATACTATTTGCAGAATACTC-C
* * * * * * * * *
120913 TATTTATAATAGTGTAGTAAATAAATTTAAGTTAATATTTTATAAGAT-ATCAAAAAAAATTAGA
320 TATATATAATAGTCTAGTAAATAAAATTAATTTAATATTTTTTGAGATAAT-AAAGAAAATCAAA
* *
120977 ATTTTATTTGTTTGC------ATATATATATATA-AT-A-
384 ATTTTATTTATTTACAAATATATATATATATATATATAAG
* * *
121008 --AA-TCAGTTAAAAGTATAAAAGAAA-ATAAATATAATTAATTATATAAAATA-TTTAATATTA
1 GTAAGTCAATTAAAAGTATAAAACAAAGA-AAATATAATTAACTATATAAAATATTTTAATATTA
*** * * * * * * *
121068 AATTAAGCCAAGTTAAAATAGTTAAATGTACGA-ACATTATAACTTTTTATAATTA-TCTATATG
65 AATTAAATAAAGTCAAAATAG-TAAATGTGCGATACATAATTACTTTTTACAATCATTC-ACATG
* ** * *
121131 TGAATAATATAAACTATCCACGTT-GAATAATTA-TCTTTTTG-TAAAAAGTTTTGGCCTTTATA
128 TAAATAATATAAACTATCCATATTAG-ACAATTACT-TTTTTGATAAAAAGTTTTGGCTTTTATA
* * * * * *
121193 TATTTATCATATAA-AATTTTATATTTATAA-TATTAAAATTATTGTTAGTTACTATTTACTATT
191 TATTTATCATATAAGATTTTTATTTTTATAATTATTAAAATTATTATCAATTACTATTTACAATT
* * * * * **
121256 TAAACTTGATTTATTTTTAAAATTAAAATTAAATGGC--C-CCAT-C-A-TT-----AT-C-CCT
256 TGAACTTAATTTATTTTTAAAATTGAATTTAAATAGCTTCAAAATACTATTTGCAGAATACTCCT
*
121308 ATATATAATATTCTAGTAAATAAAATTAATTTAATATTTTTTGAGATAATCAAAGAAAATCAAAA
321 ATATATAATAGTCTAGTAAATAAAATTAATTTAATATTTTTTGAGATAAT-AAAGAAAATCAAAA
121373 TTTTATTTATTTACAAATATATATATATATATATATAAG
385 TTTTATTTATTTACAAATATATATATATATATATATAAG
** *
121412 GTAAGTCAATTAAAAGTATAAATGAAAGAAAATATAATTCACTATATAAAATATTTTAATATTAA
1 GTAAGTCAATTAAAAGTATAAAACAAAGAAAATATAATTAACTATATAAAATATTTTAATATTAA
* * * ** * * *
121477 ATTAAATCAAGTCAAAATAATTAAATTTTTGATACATGA-TACCTTTTTATAATC-GTCTACATG
66 ATTAAATAAAGTCAAAAT-AGTAAATGTGCGATACATAATTA-CTTTTTACAATCATTC-ACATG
* * * *
121540 TAAATAATA-AAACTATCTATATTAGATAATTACTTTTTTTAT-AAAAGATTTTGGTTTTTATAT
128 TAAATAATATAAACTATCCATATTAGACAATTACTTTTTTGATAAAAAG-TTTTGGCTTTTATAT
* * * *
121603 ATTTATCATTTAAGATTTTTATTTTT-TAAATTATTAAAATTATTATCGATTATTATTTACTATT
192 ATTTATCATATAAGATTTTTATTTTTAT-AATTATTAAAATTATTATCAATTACTATTTACAATT
* * *
121667 TGAACTTAATTTATTTTTAAAATTGAATTTAAGTGGCTTCAAAATATTATTTGCAGAATACTCCT
256 TGAACTTAATTTATTTTTAAAATTGAATTTAAATAGCTTCAAAATACTATTTGCAGAATACTCCT
* * * * *
121732 ATTTATAGTAGTCTATTAAATAAATTTAATTTAATATTTTTTTGAGATAAGT-AA-AAAATTAAA
321 ATATATAATAGTCTAGTAAATAAAATTAATTTAATA-TTTTTTGAGATAA-TAAAGAAAATCAAA
*
121795 ATTTTATTTGTTTACAAATATA-A-ATATA-A-A-A-AAG
384 ATTTTATTTATTTACAAATATATATATATATATATATAAG
* *
121829 GTAAGTCAATTAAAAGTATAAAACAAA-ATAAATATAATTAATTATATGAAATATTTTAATATTA
1 GTAAGTCAATTAAAAGTATAAAACAAAGA-AAATATAATTAACTATATAAAATATTTTAATATTA
* * * *
121893 AATTAAATAAAGTCAAAATAGTAGATGTGCGATATATAATTACTTTTTACGATTATTCACATGTA
65 AATTAAATAAAGTCAAAATAGTAAATGTGCGATACATAATTACTTTTTACAATCATTCACATGTA
**
121958 AATAATATAGGCTATCCATATTAGACAATTACTTTTTTGATAAAAAGTTTTGGCTTTTATATATT
130 AATAATATAAACTATCCATATTAGACAATTACTTTTTTGATAAAAAGTTTTGGCTTTTATATATT
* * *
122023 TATTATATAAGATTTTTATTTTTATAATTATTGAAATTATTGTCAATTACTATTTACAATTTGAA
195 TATCATATAAGATTTTTATTTTTATAATTATTAAAATTATTATCAATTACTATTTACAATTTGAA
* *
122088 CTTAATTTATTTTTAAAATTGATTTTAAATAGCTTCAAATTACTATTT
260 CTTAATTTATTTTTAAAATTGAATTTAAATAGCTTCAAAATACTATTT
122136 TTAAAAAATC
Statistics
Matches: 934, Mismatches: 136, Indels: 113
0.79 0.11 0.10
Matches are distributed among these distances:
394 42 0.04
395 27 0.03
396 1 0.00
401 15 0.02
402 3 0.00
403 1 0.00
404 1 0.00
406 35 0.04
407 80 0.09
408 99 0.11
409 114 0.12
410 47 0.05
411 101 0.11
412 2 0.00
413 1 0.00
414 2 0.00
416 38 0.04
417 228 0.24
418 7 0.01
419 1 0.00
420 1 0.00
421 5 0.01
422 3 0.00
423 30 0.03
424 36 0.04
425 13 0.01
426 1 0.00
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (423 bp):
GTAAGTCAATTAAAAGTATAAAACAAAGAAAATATAATTAACTATATAAAATATTTTAATATTAA
ATTAAATAAAGTCAAAATAGTAAATGTGCGATACATAATTACTTTTTACAATCATTCACATGTAA
ATAATATAAACTATCCATATTAGACAATTACTTTTTTGATAAAAAGTTTTGGCTTTTATATATTT
ATCATATAAGATTTTTATTTTTATAATTATTAAAATTATTATCAATTACTATTTACAATTTGAAC
TTAATTTATTTTTAAAATTGAATTTAAATAGCTTCAAAATACTATTTGCAGAATACTCCTATATA
TAATAGTCTAGTAAATAAAATTAATTTAATATTTTTTGAGATAATAAAGAAAATCAAAATTTTAT
TTATTTACAAATATATATATATATATATATAAG
Found at i:122194 original size:818 final size:813
Alignment explanation
Indices: 118306--122213 Score: 3087
Period size: 826 Copynumber: 4.8 Consensus size: 813
118296 ACTCACATTG
* * * * *
118306 GATAATTACCTTTTAAGTAAAAGGTTTTGGCTTTTACATATTTATTATATAA-A-ATTTATATTT
1 GATAATTACTTTTTTA-TAAAAGATTTTGGCTTTTATATATTTATTATATAAGATTTTTATATTT
* * * * * * * *
118369 TTAATTATTAAAATTATTATTGGTTACTGTTTACTATTTAAATTTGATTTATTTTTAAAATTAAA
65 TTAATTATTAAAATTATTATCGATTATTATTTACTATTTGAACTTAATTTATTTTTAAAATTGAA
* * * * * *
118434 TTTAAATAG-ATCTAAATTATCATTTGTAAAAAATCTTTATTTATAATAGT-AAGGTAAATAAAT
130 TTTAAATGGCTTCTAAATTATTATTTGTAGAAAATCTCTATTTATAATAGTCTA-GTAAATAAAT
*
118497 TTAATTTAATATTGTTATGAGATATGAAAATAAAATTAAAATTTTATTTGTTTACATATATATAT
194 TTAATTTAATATTTTTATGAGATAT-AAAA-AAAATTAAAATTTTATTTGTTTACATATATATAT
* * *
118562 --ATAAGGCAAATCAATTAAAAGTATAAAAAGAAAATAAATATAATTAATTATATGAAATATTTT
257 AAAAAAGGTAAATCAATTAAAAGTAT-AAAA-AAAATAAATATAATTAATTATATAAAATATTTT
* * * * * * *
118625 AATATTACATTAAATCAAGTTAAAATAATTAAATGTGCAACACATGATGACTTTTTACGA-TCA-
320 AATATTAAATTAAATAAAGTCAAAAT-AGTAAATGTGCGATACATGATAACTTTTTACGACT-AT
** * * *
118688 TC-C-TACGAATAATATAATCTATCCACATT-AGATAATTACCTTTTTCGT-TAAAGATTTTGGC
383 TCACATGTGAATAATATAAGCTATCCACATTGA-ATAATTA-CTTTTTTGTAAAAAG-TTTTGGC
* * * ***
118749 TTTTATATATTTATCATATAAGATTTAATATTTTTAATTATTCAAATTATTATTGGTTACTATTT
445 TTTTATATATTTATCATATAAGATTTTATATTTTTAATTATTAAAATTATTGTCAATTACTATTT
* * * * * *
118814 ATTATTTAAACTTAATTTATTTTTTAAATTCAATTTAAAT-AGCTCCAAATTA-TCATTTGT-AA
510 ACTATTTGAACTTAATTTATTTTTAAAATTGAATTTAAATGA-CTTCAAATTACT-ATTTTTAAA
* * * * ** *
118876 AAA-CCCTTTATTTATCGTAGTCTATTGAATAAATTTAATTTAATATTTTTCGTAAA-AAAATTA
573 AAATCCC-TAATTTA----A---T-TT-AAT-AGTTT--TTTGAGA---TAAGGAAAGAAAATTA
* * *
118939 AAATTTTATTTGTTT----ATATATATATA-AT-TAA-AAGGTAAGTCAATCAAAAGTATAACAG
622 AGATTTTATTTATTTACAAATATATATATATATATAATAAGGTAAGTCAATTAAAAGTATAA-AG
*
118997 --A-AAAAT-TAA--AA-T-T-T----TA-TTTAATATTAAATTAAATTAAGTCAAAATAATTAA
686 AAAGAAAATATAATTAATTATATAAAATATTTTAATATTAAATTAAATCAAGTCAAAATAATTAA
*** * * * *** * * * * * * * * *
119048 ATATGCAATATATTATGATTTTTTGCGA-CTATCCATATATGAATAATGTATGGTATCCACATCA
751 ATATATGATACATGATGACTTTTTATAATCTCTACATGTA--AATAATATAAGCTATCTATATTA
* * * * *
119112 GTTAATTACTTTTTTGTAAAAGTTTTTAGCTTTTATATATTTATTATATAACA-TTTTATATTTT
1 GATAATTACTTTTTTATAAAAGATTTTGGCTTTTATATATTTATTATATAAGATTTTTATATTTT
* * * * *
119176 TAATTATTAAAATTATTGTCTG-TTATTATTTATTATTTGAACTTGATTTATTTATAAAATTAAA
66 TAATTATTAAAATTATTATC-GATTATTATTTACTATTTGAACTTAATTTATTTTTAAAATTGAA
* * * *
119240 TTTAAATAGC-CCCAAATTACCTT-TTT-TAGAAAAT-TCCTATTTATAATAGTCTAGCAAATAA
130 TTTAAATGGCTTCTAAATTA--TTATTTGTAGAAAATCT-CTATTTATAATAGTCTAGTAAATAA
* *
119301 ATTTAATTTAATATTTTTAT-ACA-ATATAAAAAATTAAAATTTTATTTGTTTACATATATATAT
192 ATTTAATTTAATATTTTTATGAGATATAAAAAAAATTAAAATTTTATTTGTTTACATATATATAT
* * * *
119364 ATATAAGGAAAATCAATTAAAAGTATAAATAAAAATATATATAATTAATTATATAAAATATTTTA
257 AAAAAAGGTAAATCAATTAAAAGTATAAA-AAAAATAAATATAATTAATTATATAAAATATTTTA
* * * * * *
119429 ATATTAAATTAAATCAAA-TCAAAATAATTGAGTGTGTGACACATGATGAA-TTTTTATGACCT-
321 ATATTAAATTAAAT-AAAGTCAAAAT-AGTAAATGTGCGATACATGAT-AACTTTTTACGA-CTA
* * * *
119491 TTCATATGTGAATAATATAGGTTATCCACATTGAATAATTACCTTTTTCGTAAAAAGTTTTGG-T
382 TTCACATGTGAATAATATAAGCTATCCACATTGAATAATTA-CTTTTTTGTAAAAAGTTTTGGCT
* * ** *
119555 TTTATATATTTATTATATAAGATTTTATATTTTTAATTATTATAATTATTGT-TGTTAACTGTTT
446 TTTATATATTTATCATATAAGATTTTATATTTTTAATTATTAAAATTATTGTCAATT-ACTATTT
* * * * * *
119619 GCTATTTGAATTTGATTTATTCTTAAAATTGAATTTAAATGACATCAAATTATTAATTGTAGAAA
510 ACTATTTGAACTTAATTTATTTTTAAAATTGAATTTAAATGACTTCAAATTACT-ATT-T-----
* * *
119684 GCCCTTATTTATAATAATCCATTAAATAAATTTAATTTAATATTTTTTGTGAGATATGGAAA-AA
568 ----TTA---A-AA-AATCC-----CT-AATTTAATTTAATAGTTTTT-TGAGATAAGGAAAGAA
* * * * *
119748 AATTAAGATTTTATTTATTTAC--------ATATATACATAA-AAGGCAAGTTGAA-CAAAAATA
617 AATTAAGATTTTATTTATTTACAAATATATATATATATATAATAAGGTAAG-TCAATTAAAAGTA
* *
119803 TAAA-AAA-ATAAATATAATTAATTATATAAAATATTTTAATATTAAATT-AATTAGAATCAAAA
681 TAAAGAAAGA-AAATATAATTAATTATATAAAATATTTTAATATTAAATTAAATCA-AGTCAAAA
* * * *
119865 TAATTAAATATACGACACATGATGACTTTTTCATCA-CTGCT-CATATATGAATAATATAAGCTA
744 TAATTAAATATATGATACATGATGACTTTTT-ATAATCT-CTACATGTA--AATAATATAAGCTA
* *
119928 TCCACATTA
805 TCTATATTA
* * * * *
119937 AATAATTACCTTTTTAGTAAAAGATTTT-GCTTTTATACATTTATTATATAAGATTCTTATATTA
1 GATAATTACTTTTTTA-TAAAAGATTTTGGCTTTTATATATTTATTATATAAGATTTTTATATTT
** * ** * *
120001 TTAATTATTTCAATTATTGTTAATTACTATTTA-TCATTTGAAC-TATATTTACTTTTAAAATTG
65 TTAATTATTAAAATTATTATCGATTATTATTTACT-ATTTGAACTTA-ATTTATTTTTAAAATTG
* * * * **
120064 AATTTAAATGG-TTCTAACTTACTATTTATAGAAAATCTCTATTTATAATAGTCTCGTGCATAAA
128 AATTTAAATGGCTTCTAAATTATTATTTGTAGAAAATCTCTATTTATAATAGTCTAGTAAATAAA
* * * * *
120128 TTTAATTTAATATTTTTGTGAGACAATGAAAAAAAAATAAAATTTTAATTG--TAAATATATATA
193 TTTAATTTAATATTTTTATGAGA-TAT-AAAAAAAATTAAAATTTTATTTGTTTACATATATATA
* * * *
120191 TATATAAAGGTAAGTTAATTAAAAGTATAAAATAAAATAAATATAATTAATTATATAAAA-A-AT
256 TA-AAAAAGGTAAATCAATTAAAAGTATAAAA-AAAATAAATATAATTAATTATATAAAATATTT
* * * *
120254 TAATATTAAATTAAAT-AAGTCAAAATAATTAAATGTGTGATACATGATAATTTTTTACGACTGT
319 TAATATTAAATTAAATAAAGTCAAAAT-AGTAAATGTGCGATACATGATAACTTTTTACGACTAT
* * * * * * *
120318 TTACATTTGAATAATAAAAGCTATCAATATTGGATAATTACCTTTTTCT-TAAAAGGTTTTGGCT
383 TCACATGTGAATAATATAAGCTATCCACATTGAATAATTA-CTTTTT-TGTAAAAAGTTTTGGCT
* * * * *
120382 TTTGTACATTTATCGTATAAGATTTTATATTTTTAATTATTAAAATTATTATCAATTACTGTTTA
446 TTTATATATTTATCATATAAGATTTTATATTTTTAATTATTAAAATTATTGTCAATTACTATTTA
* * *
120447 CTATTTGAACTTAA--T-TTTTT-AATTTGAATTTAAATGTCTGCAAA-T--TA---TTAAAAAA
511 CTATTTGAACTTAATTTATTTTTAAAATTGAATTTAAATGACTTCAAATTACTATTTTTAAAAAA
* * * * * *** * * *
120502 T-CTTTATTT-A--TAGTAGTTTATT-AAAT-A--AATTTAATTTAATATTTTTTGTTAGATATG
576 TCCCTAATTTAATTTAATAGTTTTTTGAGATAAGGAAAGAAAATTAAGATTTTAT-TT--AT-T-
* * * * * * * *
120559 AAAAGAAAATTAAATATTTATTTGTTTACATATACGTAAGTCAATTAAATGTATAAAAGAATAG-
636 --TA-CAAA-T--ATATATATATATATA-ATA-AGGTAAGTCAATTAAAAGTAT-AAAGAA-AGA
* * * **
120623 AAATGTAATTAATTATATTAAATATTTTAATATTAAATTAAATCAAGTTAAAATAATTAAATACG
691 AAATATAATTAATTATATAAAATATTTTAATATTAAATTAAATCAAGTCAAAATAATTAAATATA
* * * * * * * *
120688 TGATATATGATGACTTTTTATGATCATTTATATGTGAATAATATAGGCTATTTATATTT
756 TGATACATGATGACTTTTTATAATC-TCTACATGTAAATAATATAAGCTATCTATATTA
* * *
120747 GATAATTACCTTTTTAATAAAAGGTTTTGACTTTTATATATTTATTATATAAGATTTTTATATTT
1 GATAATTA-CTTTTTTATAAAAGATTTTGGCTTTTATATATTTATTATATAAGATTTTTATATTT
* * *
120812 TTAATTATTAAAATTATTATTGATTATTGTTTACTATTT-AACTTGATTTATTTTTAAAA-TGAA
65 TTAATTATTAAAATTATTATCGATTATTATTTACTATTTGAACTTAATTTATTTTTAAAATTG-A
* *
120875 ATTTAAAT-GATTCTAAATTATTATTTGTAGAAAATCTCTATTTATAATAGTGTAGTAAATAAAT
129 ATTTAAATGGCTTCTAAATTATTATTTGTAGAAAATCTCTATTTATAATAGTCTAGTAAATAAAT
* * * *
120939 TTAAGTTAATA-TTTTATAAGATATCAAAAAAAATTAGAATTTTATTTGTTTGCATATATATAT-
194 TTAATTTAATATTTTTATGAGATAT-AAAAAAAATTAAAATTTTATTTGTTTACATATATATATA
* *
121002 -ATAA--TAAATCAGTTAAAAGTATAAAAGAAAATAAATATAATTAATTATATAAAATA-TTTAA
258 AAAAAGGTAAATCAATTAAAAGTATAAAA-AAAATAAATATAATTAATTATATAAAATATTTTAA
*** * * * ** *
121063 TATTAAATTAAGCCAAGTTAAAATAGTTAAATGTACGA-ACATTATAACTTTTTATAATTA-TCT
322 TATTAAATTAAATAAAGTCAAAATAG-TAAATGTGCGATACATGATAACTTTTTACGACTATTC-
* * * *
121126 ATATGTGAATAATATAAACTATCCACGTTGAATAATTA-TCTTTTTGTAAAAAGTTTTGGCCTTT
385 ACATGTGAATAATATAAGCTATCCACATTGAATAATTACT-TTTTTGTAAAAAGTTTTGGCTTTT
* * * *
121190 ATATATTTATCATATAAAATTTTATATTTATAA-TATTAAAATTATTGTTAGTTACTATTTACTA
449 ATATATTTATCATATAAGATTTTATATTTTTAATTATTAAAATTATTGTCAATTACTATTTACTA
* * * * * ** * * * *
121254 TTTAAACTTGATTTATTTTTAAAATTAAAATTAAATGGCCCCATCATTATCCCTATATAT-AATA
514 TTTGAACTTAATTTATTTTTAAAATTGAATTTAAATGACTTCA-AATTA---CTATTTTTAAAAA
* ** ** * *
121318 TTCTAGTAAATAAAATTAATTTAATA-TTTTTTGAGATAATCAAAGAAAATCAAAATTTTATTTA
575 ATC-CCT-AAT----TTAATTTAATAGTTTTTTGAGATAAGGAAAGAAAATTAAGATTTTATTTA
121382 TTTACAAATATATATATATATATATATAAGGTAAGTCAATTAAAAGTATAAATGAAAGAAAATAT
634 TTTACAAATATATATATATATATA-ATAAGGTAAGTCAATTAAAAGTATAAA-GAAAGAAAATAT
* * * *
121447 AATTCACTATATAAAATATTTTAATATTAAATTAAATCAAGTCAAAATAATTAAATTTTTGATAC
697 AATTAATTATATAAAATATTTTAATATTAAATTAAATCAAGTCAAAATAATTAAATATATGATAC
*
121512 ATGAT-ACCTTTTTATAATCGTCTACATGTAAATAATA-AAACTATCTATATTA
762 ATGATGA-CTTTTTATAATC-TCTACATGTAAATAATATAAGCTATCTATATTA
* * *
121564 GATAATTACTTTTTTTATAAAAGATTTTGGTTTTTATATATTTATCATTTAAGATTTTTAT-TTT
1 GATAATTAC-TTTTTTATAAAAGATTTTGGCTTTTATATATTTATTATATAAGATTTTTATATTT
121628 TTAAATTATTAAAATTATTATCGATTATTATTTACTATTTGAACTTAATTTATTTTTAAAATTGA
65 TT-AATTATTAAAATTATTATCGATTATTATTTACTATTTGAACTTAATTTATTTTTAAAATTGA
* * * * * *
121693 ATTTAAGTGGCTTC-AAAATATTATTTGCAGAATA-CTCCTATTTATAGTAGTCTATTAAATAAA
129 ATTTAAATGGCTTCTAAATTATTATTTGTAGAAAATCT-CTATTTATAATAGTCTAGTAAATAAA
* * *
121756 TTTAATTTAATATTTTTTTGAGATA-AGTAAAAAATTAAAATTTTATTTGTTTACAAATATAAAT
193 TTTAATTTAATATTTTTATGAGATATA-AAAAAAATTAAAATTTTATTTGTTTAC--ATATATAT
* *
121820 ATAAAAAAGGTAAGTCAATTAAAAGTATAAAACAAAATAAATATAATTAATTATATGAAATATTT
255 ATAAAAAAGGTAAATCAATTAAAAGTATAAAA-AAAATAAATATAATTAATTATATAAAATATTT
* * * * *
121885 TAATATTAAATTAAATAAAGTCAAAATAGTAGATGTGCGATATATAATTACTTTTTACGATTATT
319 TAATATTAAATTAAATAAAGTCAAAATAGTAAATGTGCGATACATGATAACTTTTTACGACTATT
* * * *
121950 CACATGTAAATAATATAGGCTATCCATATT-AGACAATTACTTTTTTGATAAAAAGTTTTGGCTT
384 CACATGTGAATAATATAAGCTATCCACATTGA-ATAATTACTTTTTTG-TAAAAAGTTTTGGCTT
* *
122014 TTATATATTTATTATATAAGATTTT-TATTTTTATAATTATTGAAATTATTGTCAATTACTATTT
447 TTATATATTTATCATATAAGATTTTATA-TTTT-TAATTATTAAAATTATTGTCAATTACTATTT
* *
122078 ACAATTTGAACTTAATTTATTTTTAAAATTGATTTTAAAT-AGCTTCAAATTACTATTTTTAAAA
510 ACTATTTGAACTTAATTTATTTTTAAAATTGAATTTAAATGA-CTTCAAATTACTATTTTTAAAA
* * *
122142 AATCCCT-ATTTATTTTATTA-TTTTTGTGAGATAAGGAAAGAAAATTAA-ATTTTATTTGTTTA
574 AATCCCTAATTTAATTTAATAGTTTTT-TGAGATAAGGAAAGAAAATTAAGATTTTATTTATTTA
*
122204 CATATATATA
638 CAAATATATA
122214 AAAAAATAAA
Statistics
Matches: 2499, Mismatches: 411, Indels: 372
0.76 0.13 0.11
Matches are distributed among these distances:
786 2 0.00
787 12 0.00
788 2 0.00
789 3 0.00
790 3 0.00
791 9 0.00
793 1 0.00
794 5 0.00
795 1 0.00
800 1 0.00
801 3 0.00
802 36 0.01
803 84 0.03
804 72 0.03
805 225 0.09
806 261 0.10
807 37 0.01
808 43 0.02
809 23 0.01
810 140 0.06
811 145 0.06
812 32 0.01
813 7 0.00
814 28 0.01
815 2 0.00
816 11 0.00
817 116 0.05
818 258 0.10
819 55 0.02
820 15 0.01
821 4 0.00
822 11 0.00
823 30 0.01
824 119 0.05
825 164 0.07
826 267 0.11
827 103 0.04
828 84 0.03
829 52 0.02
830 33 0.01
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.44
Consensus pattern (813 bp):
GATAATTACTTTTTTATAAAAGATTTTGGCTTTTATATATTTATTATATAAGATTTTTATATTTT
TAATTATTAAAATTATTATCGATTATTATTTACTATTTGAACTTAATTTATTTTTAAAATTGAAT
TTAAATGGCTTCTAAATTATTATTTGTAGAAAATCTCTATTTATAATAGTCTAGTAAATAAATTT
AATTTAATATTTTTATGAGATATAAAAAAAATTAAAATTTTATTTGTTTACATATATATATAAAA
AAGGTAAATCAATTAAAAGTATAAAAAAAATAAATATAATTAATTATATAAAATATTTTAATATT
AAATTAAATAAAGTCAAAATAGTAAATGTGCGATACATGATAACTTTTTACGACTATTCACATGT
GAATAATATAAGCTATCCACATTGAATAATTACTTTTTTGTAAAAAGTTTTGGCTTTTATATATT
TATCATATAAGATTTTATATTTTTAATTATTAAAATTATTGTCAATTACTATTTACTATTTGAAC
TTAATTTATTTTTAAAATTGAATTTAAATGACTTCAAATTACTATTTTTAAAAAATCCCTAATTT
AATTTAATAGTTTTTTGAGATAAGGAAAGAAAATTAAGATTTTATTTATTTACAAATATATATAT
ATATATAATAAGGTAAGTCAATTAAAAGTATAAAGAAAGAAAATATAATTAATTATATAAAATAT
TTTAATATTAAATTAAATCAAGTCAAAATAATTAAATATATGATACATGATGACTTTTTATAATC
TCTACATGTAAATAATATAAGCTATCTATATTA
Found at i:126501 original size:20 final size:20
Alignment explanation
Indices: 126472--126585 Score: 111
Period size: 20 Copynumber: 5.5 Consensus size: 20
126462 TACCTAGATC
*
126472 TATCGATACATTTTTCAATG
1 TATCGATACATTGTTCAATG
* * * *
126492 TATCGTTACATGGATGAATG
1 TATCGATACATTGTTCAATG
*
126512 TATCGATACATTCTTCAATG
1 TATCGATACATTGTTCAATG
* * *
126532 TATTGATACATTCTACCCAGATG
1 TATCGATACATTGT--TCA-ATG
126555 TATCGATACATTGTTCAATG
1 TATCGATACATTGTTCAATG
*
126575 TATTGATACAT
1 TATCGATACAT
126586 CTAGTTAAAA
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
20 56 0.75
21 2 0.03
22 2 0.03
23 15 0.20
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (20 bp):
TATCGATACATTGTTCAATG
Found at i:133676 original size:22 final size:23
Alignment explanation
Indices: 133651--133693 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
133641 ACAAAAAATG
133651 AAAAGAAAAACAA-AAAAGGTGC
1 AAAAGAAAAACAAGAAAAGGTGC
* *
133673 AAAAGTAAAATAAGAAAAGGT
1 AAAAGAAAAACAAGAAAAGGT
133694 AACAACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.67, C:0.05, G:0.19, T:0.09
Consensus pattern (23 bp):
AAAAGAAAAACAAGAAAAGGTGC
Found at i:135002 original size:27 final size:27
Alignment explanation
Indices: 134966--135072 Score: 142
Period size: 27 Copynumber: 4.0 Consensus size: 27
134956 TGGCATTCCT
* *
134966 TTTTAAGTCCACAACTCCGTGGTAACT
1 TTTTAAGTCCACAACTCCGTGGCAACC
* *
134993 TTTTAAGTCCACAACTCTGTAGCAACC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* *
135020 TTTTAAGTCCACAACTTCGTGCCAACC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* *
135047 TTTTAAGTCCACAACTCTGTGCCAAC
1 TTTTAAGTCCACAACTCCGTGGCAAC
135073 ATCATTATGA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCAACC
Found at i:135853 original size:19 final size:18
Alignment explanation
Indices: 135814--135847 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
135804 AAATCGTGTT
*
135814 TAAAATATTATATATTTA
1 TAAAAAATTATATATTTA
135832 TAAAAAATTA-ATATTT
1 TAAAAAATTATATATTT
135848 TAATAATTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAAAAATTATATATTTA
Found at i:139394 original size:154 final size:154
Alignment explanation
Indices: 139223--139691 Score: 803
Period size: 154 Copynumber: 3.0 Consensus size: 154
139213 TGTATTGTTC
139223 TAGACATGTATCATATAAATTCGCTATGGTAAACCGTGTATATTAGATTTAAAAGTTATTATTTA
1 TAGACATGTATCATATAAATTCGCTATGGTAAACCGTGTATATTAGATTTAAAAGTTATTATTTA
* *
139288 TTTGATATGAATTAATTTTTATCTATAGAGAATTTTTAAATTAATATATTTATGTTCAAATAATA
66 TTTGAAATGAATTAATTTTTATCTATAGAGAATTTTTAAATTAAAATATTTATGTTCAAATAATA
139353 ATAATAATTTTTTATTTAATCAAT
131 ATAATAATTTTTTATTTAATCAAT
* *
139377 TAGACATGTGTCATATAAATTTGCTATGGTAAACCGTGTATATTAGATTTAAAAGTTATTATTTA
1 TAGACATGTATCATATAAATTCGCTATGGTAAACCGTGTATATTAGATTTAAAAGTTATTATTTA
* *
139442 TGTGAAATGAATTCATTTTTATCTATAGAGAATTTTTAAATTAAAATATTTATGTTCAAATAATA
66 TTTGAAATGAATTAATTTTTATCTATAGAGAATTTTTAAATTAAAATATTTATGTTCAAATAATA
139507 ATAATAATTTTTTATTTAATCAAT
131 ATAATAATTTTTTATTTAATCAAT
* *
139531 TAGACATGTATCATATAAATTCGCTACGGTAAACCGTGTATATTAAATTTAAAAGTTATTATTTA
1 TAGACATGTATCATATAAATTCGCTATGGTAAACCGTGTATATTAGATTTAAAAGTTATTATTTA
*
139596 TTTGAAATGAATTAATTTTTATCTATAGAGAATTTTTAAATTAAAATATTTATGCTCAAATAACA
66 TTTGAAATGAATTAATTTTTATCTATAGAGAATTTTTAAATTAAAATATTTATG-T----TCA-A
139661 ATAATAATAATAATTTTTTATTTAATCAAT
125 ATAATAATAATAATTTTTTATTTAATCAAT
139691 T
1 T
139692 TGCACTTGCT
Statistics
Matches: 296, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
154 261 0.88
155 1 0.00
159 2 0.01
160 32 0.11
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (154 bp):
TAGACATGTATCATATAAATTCGCTATGGTAAACCGTGTATATTAGATTTAAAAGTTATTATTTA
TTTGAAATGAATTAATTTTTATCTATAGAGAATTTTTAAATTAAAATATTTATGTTCAAATAATA
ATAATAATTTTTTATTTAATCAAT
Found at i:139799 original size:17 final size:16
Alignment explanation
Indices: 139758--139822 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
139748 AGATTATATT
*
139758 TTAGATAGAAAAATTA
1 TTAGATAAAAAAATTA
* *
139774 TTTGTTAAAAACAATTA
1 TTAGATAAAAA-AATTA
139791 TTAGAT-AAAAAATT-
1 TTAGATAAAAAAATTA
139805 TTAGA-AAAGAAAA-TA
1 TTAGATAAA-AAAATTA
139820 TTA
1 TTA
139823 AGTAGGTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
14 8 0.20
15 11 0.28
16 12 0.30
17 9 0.22
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (16 bp):
TTAGATAAAAAAATTA
Found at i:140643 original size:32 final size:33
Alignment explanation
Indices: 140582--140646 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
140572 AAATTTTCGA
* * *
140582 ATTATTTTTGAGTTCGAGTCGTTTTGAATTCAG
1 ATTATTTTTAAGTTCGAGTCATTTCGAATTCAG
*
140615 ATTA-TTTTAAGTTCGGGTCATTTCGAATTCAG
1 ATTATTTTTAAGTTCGAGTCATTTCGAATTCAG
140647 GACAATCGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 24 0.86
33 4 0.14
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (33 bp):
ATTATTTTTAAGTTCGAGTCATTTCGAATTCAG
Found at i:141482 original size:15 final size:15
Alignment explanation
Indices: 141462--141490 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
141452 CAGATTAATT
141462 GTTCGGATCATTTCA
1 GTTCGGATCATTTCA
141477 GTTCGGATCATTTC
1 GTTCGGATCATTTC
141491 GGGTTTGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (15 bp):
GTTCGGATCATTTCA
Found at i:144726 original size:2 final size:2
Alignment explanation
Indices: 144721--144749 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
144711 TCTGTGTGTG
144721 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
144750 TTCTATTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:146847 original size:15 final size:16
Alignment explanation
Indices: 146827--146858 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
146817 CATTTCTTAA
146827 TTTTTA-TTTTTATTT
1 TTTTTATTTTTTATTT
146842 TTTTTATTTTTTATTT
1 TTTTTATTTTTTATTT
146858 T
1 T
146859 GTGAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTATTTTTTATTT
Found at i:147532 original size:15 final size:15
Alignment explanation
Indices: 147512--147542 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
147502 TATAACATAT
*
147512 ACTAATAAATATAAA
1 ACTAATAAATACAAA
147527 ACTAATAAATACAAA
1 ACTAATAAATACAAA
147542 A
1 A
147543 ATTTAAATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (15 bp):
ACTAATAAATACAAA
Found at i:147893 original size:14 final size:12
Alignment explanation
Indices: 147855--147884 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
147845 AGTTAGATTG
147855 AATTTAATATTA
1 AATTTAATATTA
147867 AATTTAATATTA
1 AATTTAATATTA
147879 AATTTA
1 AATTTA
147885 TCATATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTTAATATTA
Found at i:147929 original size:34 final size:34
Alignment explanation
Indices: 147864--147929 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
147854 GAATTTAATA
*
147864 TTAAATTTAATATTAAATTTATCATATTAATTTT
1 TTAAATTTAATATTAAATTTATAATATTAATTTT
*
147898 TTAAATTT-GTATTAAAATTTATAA-ATATAATT
1 TTAAATTTAATATT-AAATTTATAATAT-TAATT
147930 ATTATGGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 6 0.21
34 22 0.79
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (34 bp):
TTAAATTTAATATTAAATTTATAATATTAATTTT
Found at i:149341 original size:22 final size:24
Alignment explanation
Indices: 149295--149354 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
149285 CGATGGATGG
149295 TTAATATTTTAATATATATAAAAA
1 TTAATATTTTAATATATATAAAAA
* * *
149319 TTAAT-TTTTAATTTATACAAAAT
1 TTAATATTTTAATATATATAAAAA
* *
149342 TTTATATATTAAT
1 TTAATATTTTAAT
149355 TGTGACAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 19 0.63
24 11 0.37
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TTAATATTTTAATATATATAAAAA
Found at i:151977 original size:10 final size:10
Alignment explanation
Indices: 151962--151991 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
151952 GGAATTTGAG
151962 AAAAAAAAGA
1 AAAAAAAAGA
*
151972 AAAAAAAAGG
1 AAAAAAAAGA
151982 AAAAAAAAGA
1 AAAAAAAAGA
151992 GATGATAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:153876 original size:13 final size:12
Alignment explanation
Indices: 153857--153886 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
153847 TATAAACAAG
153857 AAAAAAGAGAAA
1 AAAAAAGAGAAA
153869 ATAAAAAGAGAAA
1 A-AAAAAGAGAAA
153882 AAAAA
1 AAAAA
153887 TTAAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (12 bp):
AAAAAAGAGAAA
Found at i:154066 original size:19 final size:19
Alignment explanation
Indices: 154042--154098 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
154032 ATTAGAAGAT
154042 TATGTTAAATAAA-TAATTA
1 TATGTT-AATAAATTAATTA
*
154061 TATGTTTATAAATTAATTAA
1 TATGTTAATAAATTAATT-A
154081 TAT-TT-ATAAAATTAATTA
1 TATGTTAAT-AAATTAATTA
154099 AATTATAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
18 8 0.24
19 22 0.65
20 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (19 bp):
TATGTTAATAAATTAATTA
Found at i:154099 original size:19 final size:18
Alignment explanation
Indices: 154050--154099 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
154040 ATTATGTTAA
*
154050 ATAAA-TAATTATATGTTT
1 ATAAATTAATTA-ATATTT
154068 ATAAATTAATTAATATTT
1 ATAAATTAATTAATATTT
154086 ATAAAATTAATTAA
1 AT-AAATTAATTAA
154100 ATTATAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
ATAAATTAATTAATATTT
Found at i:154311 original size:13 final size:14
Alignment explanation
Indices: 154290--154330 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
154280 GTATTTATTT
154290 ATAAAAATAAAAAA
1 ATAAAAATAAAAAA
*
154304 AT-AAAATACAAAA
1 ATAAAAATAAAAAA
154317 ATAAGAAATAAAAA
1 ATAA-AAATAAAAA
154331 GAAAATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (14 bp):
ATAAAAATAAAAAA
Found at i:155354 original size:24 final size:22
Alignment explanation
Indices: 155327--155374 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
155317 AGAGTAAATA
* *
155327 AAATTTTAATTTTTTATATTTATT
1 AAATTATAATTATTTAT-TTT-TT
155351 AAATTATAATTATTTATTTTTT
1 AAATTATAATTATTTATTTTTT
155373 AA
1 AA
155375 TATAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 3 0.14
24 15 0.68
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
AAATTATAATTATTTATTTTTT
Found at i:155583 original size:18 final size:19
Alignment explanation
Indices: 155562--155613 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 19
155552 TCAAAAATAT
155562 ATTTTATTATTAATA-TCA
1 ATTTTATTATTAATACTCA
*
155580 ATTTTATTAATATAATACTTA
1 ATTTTATT-AT-TAATACTCA
155601 ATTTTATTATTAA
1 ATTTTATTATTAA
155614 CGTTATTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.27
19 5 0.17
20 7 0.23
21 10 0.33
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTTATTATTAATACTCA
Found at i:157459 original size:13 final size:13
Alignment explanation
Indices: 157441--157466 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
157431 ATCCCAAGTT
157441 TAAAAAATAAAAA
1 TAAAAAATAAAAA
157454 TAAAAAATAAAAA
1 TAAAAAATAAAAA
157467 AGGCTAGGCT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:158295 original size:1 final size:1
Alignment explanation
Indices: 158262--158286 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
158252 CACTACCGGG
158262 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
158287 CAGATTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:166297 original size:33 final size:33
Alignment explanation
Indices: 166259--166353 Score: 181
Period size: 33 Copynumber: 2.9 Consensus size: 33
166249 AACCCCAAGT
166259 TAACATATATTTACAGAATAAAGAACTATAAGC
1 TAACATATATTTACAGAATAAAGAACTATAAGC
*
166292 TAACATATATCTACAGAATAAAGAACTATAAGC
1 TAACATATATTTACAGAATAAAGAACTATAAGC
166325 TAACATATATTTACAGAATAAAGAACTAT
1 TAACATATATTTACAGAATAAAGAACTAT
166354 GTATGTATTG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.52, C:0.13, G:0.08, T:0.27
Consensus pattern (33 bp):
TAACATATATTTACAGAATAAAGAACTATAAGC
Found at i:167795 original size:20 final size:19
Alignment explanation
Indices: 167747--167795 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
167737 CTAGTAAATC
* * *
167747 ATATATTTATTTTATTTTT
1 ATATATTTATTATATTATA
167766 ATATATTTTATTATATTATA
1 ATATA-TTTATTATATTATA
167786 ATCATATTTA
1 AT-ATATTTA
167796 AAATATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 5 0.20
20 17 0.68
21 3 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
ATATATTTATTATATTATA
Found at i:167829 original size:16 final size:15
Alignment explanation
Indices: 167808--167862 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
167798 ATATTTTATA
167808 AATATATATAAATTTT
1 AATATAT-TAAATTTT
*
167824 AATATATTAATAATTT
1 AATATATTAA-ATTTT
167840 -ATATTATCTAAATTTT
1 AATA-TAT-TAAATTTT
167856 AA-ATATT
1 AATATATT
167863 TATATATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 1 0.03
15 9 0.27
16 19 0.58
17 4 0.12
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
AATATATTAAATTTT
Found at i:167857 original size:32 final size:32
Alignment explanation
Indices: 167816--167878 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
167806 TAAATATATA
167816 TAAATTTTAATATATTAATA-ATTTATATTATC
1 TAAATTTTAA-ATATTAATATATTTATATTATC
*
167848 TAAATTTTAAATATTTATATATTTATATTAT
1 TAAATTTTAAATATTAATATATTTATATTAT
167879 ATTATATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 8 0.28
32 21 0.72
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (32 bp):
TAAATTTTAAATATTAATATATTTATATTATC
Found at i:167872 original size:16 final size:18
Alignment explanation
Indices: 167763--167886 Score: 61
Period size: 17 Copynumber: 7.0 Consensus size: 18
167753 TTATTTTATT
*
167763 TTTAT-ATATTTTAT-TA
1 TTTATAATATATTATATA
*
167779 TATTATAATCATATTTAAAATA
1 T-TTATAAT-ATA-TT-ATATA
*
167801 TTTTATAA-ATATATATAAA
1 -TTTATAATATAT-TATATA
167820 TTT-TAATATATTA-ATAA
1 TTTATAATATATTATAT-A
*
167837 TTTAT-AT-TATCTAAAT-
1 TTTATAATATAT-TATATA
167853 TTTA-AATAT-TTATATA
1 TTTATAATATATTATATA
*
167869 TTTATATTATATTATATA
1 TTTATAATATATTATATA
167887 ATAATTATTT
Statistics
Matches: 83, Mismatches: 7, Indels: 34
0.67 0.06 0.27
Matches are distributed among these distances:
15 4 0.05
16 16 0.19
17 22 0.27
18 19 0.23
19 6 0.07
20 6 0.07
21 1 0.01
22 8 0.10
23 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTATAATATATTATATA
Found at i:168244 original size:33 final size:34
Alignment explanation
Indices: 168201--168268 Score: 113
Period size: 33 Copynumber: 2.0 Consensus size: 34
168191 ATTATTTTAC
168201 TTTAACTTTAATGA-TATTAAAAATAAATATTATT
1 TTTAACTTTAAT-ATTATTAAAAATAAATATTATT
168235 TTTAA-TTTAATATTATTAAAAATAAATATTATT
1 TTTAACTTTAATATTATTAAAAATAAATATTATT
168268 T
1 T
168269 ATGATTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 1 0.03
33 27 0.82
34 5 0.15
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (34 bp):
TTTAACTTTAATATTATTAAAAATAAATATTATT
Found at i:168264 original size:16 final size:16
Alignment explanation
Indices: 168215--168267 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
168205 ACTTTAATGA
168215 TATTAAAAATAAATAT
1 TATTAAAAATAAATAT
** * *
168231 TATTTTTAATTTAATAT
1 TA-TTAAAAATAAATAT
168248 TATTAAAAATAAATAT
1 TATTAAAAATAAATAT
168264 TATT
1 TATT
168268 TATGATTTTT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
16 16 0.57
17 12 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTAAAAATAAATAT
Found at i:168299 original size:13 final size:13
Alignment explanation
Indices: 168276--168319 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
168266 TTTATGATTT
168276 TTTTGAAAATATAA
1 TTTT-AAAATATAA
168290 TTTTAAAATATAA
1 TTTTAAAATATAA
*
168303 TTAGTAAAA-ATAA
1 TT-TTAAAATATAA
168316 TTTT
1 TTTT
168320 TTATTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 9 0.33
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (13 bp):
TTTTAAAATATAA
Found at i:168344 original size:29 final size:30
Alignment explanation
Indices: 168307--168363 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
168297 ATATAATTAG
*
168307 TAAAAATAATTTTTTAT-TTTTAAAAATTT
1 TAAAAATAATTTTTTATATATTAAAAATTT
168336 TAAAAATAATTTTTTATATATTAAAAAT
1 TAAAAATAATTTTTTATATATTAAAAAT
168364 AATTATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
TAAAAATAATTTTTTATATATTAAAAATTT
Found at i:168348 original size:21 final size:21
Alignment explanation
Indices: 168324--168372 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
168314 AATTTTTTAT
*
168324 TTTTAAAAATTTTAAAAATAA
1 TTTTAAAAATATTAAAAATAA
** *
168345 TTTTTTATATATTAAAAATAA
1 TTTTAAAAATATTAAAAATAA
168366 TTATTAA
1 TT-TTAA
168373 TCTTCTTTTA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTAAAAATATTAAAAATAA
Found at i:168533 original size:2 final size:2
Alignment explanation
Indices: 168520--168574 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
168510 AACTATGTTT
*
168520 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
168562 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
168575 CATAAAGAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:169202 original size:18 final size:18
Alignment explanation
Indices: 169172--169220 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
169162 GTATTTAAAA
*
169172 AAAATATA-AAATAAGAT
1 AAAATATATAAATAACAT
*
169189 AAAATATATCAATAACAT
1 AAAATATATAAATAACAT
169207 AAAA-ATATGAAATA
1 AAAATATAT-AAATA
169221 TTAAAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (18 bp):
AAAATATATAAATAACAT
Found at i:169662 original size:33 final size:33
Alignment explanation
Indices: 169617--169716 Score: 137
Period size: 33 Copynumber: 3.0 Consensus size: 33
169607 GTAAAGTGCA
*
169617 TGACTTTTTAAGTGCCTTATTTTCATATCTTCCG
1 TGAC-TTTTAAGTGCATTATTTTCATATCTTCCG
* *
169651 TGACTTTTAAGTGCATTATTTCCATATCTTCCA
1 TGACTTTTAAGTGCATTATTTTCATATCTTCCG
* * *
169684 TGACTTTTACGTGCATTATTCTCATTTCTTCCG
1 TGACTTTTAAGTGCATTATTTTCATATCTTCCG
169717 GTGCTTTCTG
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
33 54 0.93
34 4 0.07
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.48
Consensus pattern (33 bp):
TGACTTTTAAGTGCATTATTTTCATATCTTCCG
Found at i:171926 original size:3 final size:3
Alignment explanation
Indices: 171916--171950 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
171906 AAGAAGAGCA
171916 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
171951 AAAATTAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:173157 original size:2 final size:2
Alignment explanation
Indices: 173150--173201 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
173140 CCTTTTTAGC
173150 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
173192 AT AT AT AT AT
1 AT AT AT AT AT
173202 CAAGCAAGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.