Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold153
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: 443046
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:963 original size:3 final size:3
Alignment explanation
Indices: 955--1007 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
945 CCACTCATCT
* *
955 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1003 TAA TA
1 TAA TA
1008 CTTACCTCAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3208 original size:20 final size:20
Alignment explanation
Indices: 3185--3223 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
3175 ATTGGCATGC
3185 CATAGGATTTGTGGGCACTG
1 CATAGGATTTGTGGGCACTG
3205 CATAGGATTTGTGGGCACT
1 CATAGGATTTGTGGGCACT
3224 TACCTTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (20 bp):
CATAGGATTTGTGGGCACTG
Found at i:7863 original size:26 final size:25
Alignment explanation
Indices: 7816--7864 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
7806 ACGATTATCG
7816 TATTAATGTTATTTAAATTGAATTT
1 TATTAATGTTATTTAAATTGAATTT
*
7841 TATT-ATGTTACTTTTAATGTGAAT
1 TATTAATGTTA-TTTAAAT-TGAAT
7865 GGATTGATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 10 0.48
26 5 0.24
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (25 bp):
TATTAATGTTATTTAAATTGAATTT
Found at i:11368 original size:12 final size:12
Alignment explanation
Indices: 11351--11375 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11341 GCCCCCTGAC
11351 TCGTGTTAATTT
1 TCGTGTTAATTT
11363 TCGTGTTAATTT
1 TCGTGTTAATTT
11375 T
1 T
11376 AAACTAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCGTGTTAATTT
Found at i:16607 original size:22 final size:22
Alignment explanation
Indices: 16575--16632 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
16565 TACCGTTTCG
*
16575 CACTTCGGTGCTTATCATTCTA
1 CACTTCAGTGCTTATCATTCTA
* ** * *
16597 CACTTCAGTGCCTATTGTTTTG
1 CACTTCAGTGCTTATCATTCTA
16619 CACTTCAGTGCTTA
1 CACTTCAGTGCTTA
16633 GTGCCTACTG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.17, C:0.26, G:0.16, T:0.41
Consensus pattern (22 bp):
CACTTCAGTGCTTATCATTCTA
Found at i:16645 original size:29 final size:29
Alignment explanation
Indices: 16603--16664 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
16593 TCTACACTTC
*
16603 AGTGCCTATTGTTTTGCACTTCAGTGCTT
1 AGTGCCTACTGTTTTGCACTTCAGTGCTT
*
16632 AGTGCCTACTGTTTTGCACTTTAGTGCTT
1 AGTGCCTACTGTTTTGCACTTCAGTGCTT
16661 AGTG
1 AGTG
16665 ATTTGCATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.15, C:0.19, G:0.23, T:0.44
Consensus pattern (29 bp):
AGTGCCTACTGTTTTGCACTTCAGTGCTT
Found at i:16658 original size:22 final size:21
Alignment explanation
Indices: 16630--16685 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
16620 ACTTCAGTGC
*
16630 TTAGTGCCTACTGTTTTGCACT
1 TTAGTGCCTACTGATTTGCA-T
* *
16652 TTAGTGCTTAGTGATTTGCAT
1 TTAGTGCCTACTGATTTGCAT
*
16673 TTAGGTACCTACT
1 TTA-GTGCCTACT
16686 AGAACACCTC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.45
Consensus pattern (21 bp):
TTAGTGCCTACTGATTTGCAT
Found at i:20470 original size:23 final size:22
Alignment explanation
Indices: 20440--20484 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
20430 AAATTAAATC
20440 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
20463 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
20485 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:23425 original size:5 final size:5
Alignment explanation
Indices: 23417--23441 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
23407 ATGGGATGGG
23417 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
23442 GGATGGCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:23695 original size:9 final size:9
Alignment explanation
Indices: 23681--23713 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
23671 GTGTTTTTTA
23681 AAAAAAATC
1 AAAAAAATC
23690 -AAAAAATAC
1 AAAAAAAT-C
23699 AAAAAAATC
1 AAAAAAATC
23708 AAAAAA
1 AAAAAA
23714 TTACATTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 7 0.32
9 8 0.36
10 7 0.32
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAAATC
Found at i:23811 original size:29 final size:30
Alignment explanation
Indices: 23710--23805 Score: 167
Period size: 30 Copynumber: 3.2 Consensus size: 30
23700 AAAAAATCAA
23710 AAAATTACATTTTGACCCCTAAACTTTCTC
1 AAAATTACATTTTGACCCCTAAACTTTCTC
*
23740 AAAATTACATTTTAACCCCTAAACTTTCTC
1 AAAATTACATTTTGACCCCTAAACTTTCTC
*
23770 AAAATTACCTTTTGACCCCT-AACTTTCTC
1 AAAATTACATTTTGACCCCTAAACTTTCTC
23799 AAAATTA
1 AAAATTA
23806 TGTTTTAGCC
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
29 16 0.25
30 47 0.75
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.36
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCTAAACTTTCTC
Found at i:23812 original size:59 final size:60
Alignment explanation
Indices: 23710--23825 Score: 180
Period size: 59 Copynumber: 1.9 Consensus size: 60
23700 AAAAAATCAA
*
23710 AAAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTTAACCCCTAAACTTTCTC
1 AAAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTTAACCCCAAAACTTTCTC
* ** *
23770 AAAATTACCTTTTGACCCCT-AACTTTCTCAAAATTATGTTTTAGCCCCAAAACTTT
1 AAAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTTAACCCCAAAACTTT
23826 TGCTGCGTCT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
59 32 0.63
60 19 0.37
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (60 bp):
AAAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTTAACCCCAAAACTTTCTC
Found at i:23817 original size:29 final size:30
Alignment explanation
Indices: 23710--23825 Score: 148
Period size: 30 Copynumber: 3.9 Consensus size: 30
23700 AAAAAATCAA
23710 AAAATTACATTTT-GACCCCTAAACTTTCTC
1 AAAATTACATTTTAG-CCCCTAAACTTTCTC
*
23740 AAAATTACATTTTAACCCCTAAACTTTCTC
1 AAAATTACATTTTAGCCCCTAAACTTTCTC
*
23770 AAAATTACCTTTT-GACCCCT-AACTTTCTC
1 AAAATTACATTTTAG-CCCCTAAACTTTCTC
** *
23799 AAAATTATGTTTTAGCCCCAAAACTTT
1 AAAATTACATTTTAGCCCCTAAACTTT
23826 TGCTGCGTCT
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
29 24 0.32
30 52 0.68
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (30 bp):
AAAATTACATTTTAGCCCCTAAACTTTCTC
Found at i:24159 original size:3 final size:3
Alignment explanation
Indices: 24151--24198 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
24141 GGTGAAGACG
*
24151 GAA GAA GAA AAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
24199 AAATGAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:24166 original size:9 final size:9
Alignment explanation
Indices: 24152--24208 Score: 62
Period size: 9 Copynumber: 6.2 Consensus size: 9
24142 GTGAAGACGG
24152 AAGAAGAAA
1 AAGAAGAAA
*
24161 AAGAAGAAG
1 AAGAAGAAA
*
24170 AAGAAGAAG
1 AAGAAGAAA
*
24179 AAGAAGAAG
1 AAGAAGAAA
24188 AAGAAGAAGA
1 AAGAAGAA-A
24198 AA-AATGAAA
1 AAGAA-GAAA
24207 AA
1 AA
24209 ATGAAAAATG
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
9 39 0.89
10 5 0.11
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (9 bp):
AAGAAGAAA
Found at i:25127 original size:20 final size:22
Alignment explanation
Indices: 25088--25129 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
25078 TTCGTCTTTC
25088 AAAATTCTCATGTCTTCAAAAT
1 AAAATTCTCATGTCTTCAAAAT
*
25110 AAAATTC-CAT-TTTTCAAAAT
1 AAAATTCTCATGTCTTCAAAAT
25130 TTTTCGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 3 0.16
22 7 0.37
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAATTCTCATGTCTTCAAAAT
Found at i:25147 original size:19 final size:19
Alignment explanation
Indices: 25120--25442 Score: 207
Period size: 18 Copynumber: 17.6 Consensus size: 19
25110 AAAATTCCAT
*
25120 TTTTC-AAAATTTTTCGTG
1 TTTTCAAAAAATTTTCGTG
*
25138 TTTTCAAAAAAAAAATTTCG-G
1 TTTTC---AAAAAATTTTCGTG
*
25159 TGTTTC-AAAAATATTCGTG
1 T-TTTCAAAAAATTTTCGTG
* *
25178 TTTTCAAAAAATTTCCATG
1 TTTTCAAAAAATTTTCGTG
* *
25197 -TTTGAAAAACTTTTCGTG
1 TTTTCAAAAAATTTTCGTG
25215 TTTT-AAAAAATTTTCGTG
1 TTTTCAAAAAATTTTCGTG
*
25233 TTTTCAAAAAATTCTCGTG
1 TTTTCAAAAAATTTTCGTG
* **
25252 -CTTC-GCAAATTTTCGTG
1 TTTTCAAAAAATTTTCGTG
* *
25269 TTTT-TAAAAATTCTCGTG
1 TTTTCAAAAAATTTTCGTG
** *
25287 -TTTC-ACCAATTTTTGTG
1 TTTTCAAAAAATTTTCGTG
**
25304 TTTTCAAAAAAAATCCTCGTG
1 TTTTC--AAAAAATTTTCGTG
* *
25325 TTTTCAAAAAAATTCTCTTG
1 TTTTC-AAAAAATTTTCGTG
*
25345 -TTACAAAAAA-TTTCGTG
1 TTTTCAAAAAATTTTCGTG
25362 TTTTCAAAAAA-TTTCGTG
1 TTTTCAAAAAATTTTCGTG
* *
25380 TTTTAAAAAAAATTTCGTG
1 TTTTCAAAAAATTTTCGTG
*
25399 TTCTT---AAAATTCTCGT-
1 TT-TTCAAAAAATTTTCGTG
* *
25415 ATTTC-AAAAGTTTTCGTG
1 TTTTCAAAAAATTTTCGTG
25433 -TTTCAAAAAA
1 TTTTCAAAAAA
25443 AATTCTCATG
Statistics
Matches: 239, Mismatches: 43, Indels: 46
0.73 0.13 0.14
Matches are distributed among these distances:
15 2 0.01
16 1 0.00
17 49 0.21
18 104 0.44
19 40 0.17
20 15 0.06
21 15 0.06
22 13 0.05
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (19 bp):
TTTTCAAAAAATTTTCGTG
Found at i:25150 original size:77 final size:76
Alignment explanation
Indices: 25069--25224 Score: 176
Period size: 77 Copynumber: 2.1 Consensus size: 76
25059 AAATAAAAAT
* ** *
25069 AAAAAAGATTTC-GTCTTTC-AAAAT-TCTCATGTCTTCAAAATAAAATTCCAT-TTTTCAAAAT
1 AAAAAAAATTTCGGTCTTTCAAAAATAT-TCATGTCTTC-AAA-AAAATTCCATGTTTGAAAAAC
25130 TTTTCGTGTTTTCAA
63 TTTTCGTGTTTT-AA
* * * *
25145 AAAAAAAATTTCGGTGTTTCAAAAATATTCGTGTTTTCAAAAAATTTCCATGTTTGAAAAACTTT
1 AAAAAAAATTTCGGTCTTTCAAAAATATTCATGTCTTCAAAAAAATTCCATGTTTGAAAAACTTT
25210 TCGTGTTTTAA
66 TCGTGTTTTAA
25221 AAAA
1 AAAA
25225 TTTTCGTGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
76 26 0.38
77 28 0.41
78 13 0.19
79 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (76 bp):
AAAAAAAATTTCGGTCTTTCAAAAATATTCATGTCTTCAAAAAAATTCCATGTTTGAAAAACTTT
TCGTGTTTTAA
Found at i:25242 original size:37 final size:36
Alignment explanation
Indices: 25120--25442 Score: 178
Period size: 37 Copynumber: 8.8 Consensus size: 36
25110 AAAATTCCAT
* *
25120 TTTTCAAAATTTTTCGTGTTTTCAAAAAAAAAATTTCG-G
1 TTTTCAAAAATTTTCGTGTTTT----AAAAAATTTTCGTG
* * *
25159 TGTTTCAAAAATATTCGTGTTTTCAAAAAATTTCCATG
1 T-TTTCAAAAATTTTCGTGTTTT-AAAAAATTTTCGTG
*
25197 -TTTGAAAAACTTTTCGTGTTTTAAAAAATTTTCGTG
1 TTTTCAAAAA-TTTTCGTGTTTTAAAAAATTTTCGTG
* * ***
25233 TTTTCAAAAAATTCTCGTG-CTTCGCAAATTTTCGTG
1 TTTTC-AAAAATTTTCGTGTTTTAAAAAATTTTCGTG
* * * ** *
25269 TTTTTAAAAATTCTCGTG-TTTCACCAATTTTTGTG
1 TTTTCAAAAATTTTCGTGTTTTAAAAAATTTTCGTG
** * *
25304 TTTTCAAAAAAAATCCTCGTGTTTTCAAAAAAATTCTCTTG
1 TTTTC---AAAAATTTTCGTGTTTT--AAAAAATTTTCGTG
* *
25345 -TTACAAAAAATTTCGTGTTTTCAAAAAA-TTTCGTG
1 TTTTCAAAAATTTTCGTGTTTT-AAAAAATTTTCGTG
* * *
25380 TTTTAAAAAAAATTTCGTGTTCTT--AAAATTCTCGT-
1 TTTT-CAAAAATTTTCGTGTT-TTAAAAAATTTTCGTG
* * *
25415 ATTTCAAAAGTTTTCGTGTTTCAAAAAA
1 TTTTCAAAAATTTTCGTGTTTTAAAAAA
25443 AATTCTCATG
Statistics
Matches: 223, Mismatches: 44, Indels: 38
0.73 0.14 0.12
Matches are distributed among these distances:
33 1 0.00
34 13 0.06
35 46 0.21
36 50 0.22
37 59 0.26
38 20 0.09
39 4 0.02
40 22 0.10
41 8 0.04
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (36 bp):
TTTTCAAAAATTTTCGTGTTTTAAAAAATTTTCGTG
Found at i:25262 original size:36 final size:36
Alignment explanation
Indices: 25222--25314 Score: 134
Period size: 35 Copynumber: 2.6 Consensus size: 36
25212 GTGTTTTAAA
*
25222 AAATTTTCGTGTTTTCAAAAAATTCTCGTGCTTCGC
1 AAATTTTCGTGTTTTCAAAAAATTCTCGTGCTTCAC
* *
25258 AAATTTTCGTGTTTT-TAAAAATTCTCGTGTTTCAC
1 AAATTTTCGTGTTTTCAAAAAATTCTCGTGCTTCAC
* *
25293 CAATTTTTGTGTTTTCAAAAAA
1 AAATTTTCGTGTTTTCAAAAAA
25315 AATCCTCGTG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
35 30 0.60
36 20 0.40
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (36 bp):
AAATTTTCGTGTTTTCAAAAAATTCTCGTGCTTCAC
Found at i:32378 original size:77 final size:78
Alignment explanation
Indices: 32253--34279 Score: 2022
Period size: 77 Copynumber: 26.2 Consensus size: 78
32243 CAAGAAATAT
* * *
32253 TTTTCAATTTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCCAC
1 TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCAC
*
32316 ATCCCGAGGTA-C
66 ATGCCGAGGTATC
* * *
32328 TTTTCAATTTCTGTTTTTTTCAAAAATCAACTCATATTACGATAGGTGAGTTGAGCCTCGGGTCA
1 TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCA
* *
32393 CAT-ACGAGGTATTTT
65 CATGCCGAGGTA--TC
* * * *
32408 TTTTAAAATTC-CTATTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCCA
1 TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCA
*
32471 CATCCCGAGGTA-C
65 CATGCCGAGGTATC
* * *
32484 TTTTAAATTTCTATGTTTTTT--AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCATCGGTCA
1 TTTTAAATTTCTGT-TTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCA
32547 CATGCCGAGGTATTTC
65 CATGCCGAGGTA--TC
*
32563 TTTTATATTTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
1 TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCA
* *
32626 CATACCGAGGTATT
65 CATGCCGAGGTATC
* * * ** *
32640 TTTTAAAATTC-CTATTTTTC-AAAATCAACTCATATTGCGCTAGGTGAGTTGAGCCTCGGGCCA
1 TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCA
*
32703 CATCCCGAGGTA-C
65 CATGCCGAGGTATC
*
32716 TTTTAAATTTCTGTTTTTTT--AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGTCAC
1 TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCAC
*
32779 ATGCCGATGTATTTC
66 ATGCCGAGGTA--TC
* * *
32794 TTTTATATTTC--TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACAC
1 TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCAC
32857 ATGCCGAGGTATTTC
66 ATGCCGAGGTA--TC
* * *
32872 TTTTAAATTTTTGTTTTTTT--TAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCA
*
32935 C--GCTGAGGTAT-
65 CATGCCGAGGTATC
* *
32946 TTTTAAATTTCTGTTTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG
1 TTTTAAATTTCTG---TTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG
*
33011 TCAC--GCTGAGGTA--
62 TCACATGCCGAGGTATC
* *
33024 TTTT-AATTTCTGTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCA
*
33088 C--GCTGAGGTAT-
65 CATGCCGAGGTATC
* *
33099 TTTTAAATTTCTGTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTAAATTTCTG-TTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTC
*
33164 AC--GCTGAGGTAT-
64 ACATGCCGAGGTATC
* * * *
33176 TTTT-AATTTCTATTTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTTGGG
1 TTTTAAATTTC---TGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGG
*
33240 TCAC--GCTGAGGTATTTC
62 TCACATGCCGAGGTA--TC
* * * *
33257 TTTTAAATTTCTATTTTTTTTTCAAAAAACTCAACTCATATTGCGAGAGGTGATTTGAACCTCGA
1 TTTTAAATTTC--TGTTTTTTTC-AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
*
33322 AC-CATGCCGAGGTATTTC
62 TCACATGCCGAGGTA--TC
* *
33340 TTTTAAATTTATG--TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAC-
1 TTTTAAATTTCTGTTTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCA
33402 CATGCCGAGGTATTTC
65 CATGCCGAGGTA--TC
* * *
33418 TTTTAAATTTC--TATTTTTCGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAC-C
1 TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCAC
33480 ATGCCGAGGTATTTC
66 ATGCCGAGGTA--TC
* **
33495 TTTTAAATTTATG--TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAAC-
1 TTTTAAATTTCTGTTTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCA
*
33557 CATGCTGAGGTATTTC
65 CATGCCGAGGTA--TC
* * *
33573 TTTTAAATTTCTG--TTTTTCGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACAC
1 TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCAC
*
33636 ATGCCGAGGTCTTTC
66 ATGCCGAGG--TATC
*
33651 TTTTAAATTTCTG-TTTTTT--AAAATCAACTCATAATGC--GA-G-GAGTTGAGCCTCGGGT--
1 TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCA
33707 CATGCCGAGGTATTTC
65 CATGCCGAGGTA--TC
* *
33723 TTTTAAATTTCT-ATTTTTT--AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT--
1 TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCA
33783 CATGCCGAGGTATTTC
65 CATGCCGAGGTA--TC
* * * * *
33799 TTTCACATTTCTG--GTTTTCAAAAATCAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGT--
1 TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCA
33860 CATGCCGAGGTATTTC
65 CATGCCGAGGTA--TC
* * *
33876 TTTTATA-TT-TGTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGTCAC
1 TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCAC
33939 ATGCCGAGGTATTTC
66 ATGCCGAGGTA--TC
* * *
33954 TTTTATATTTCTGGTTTTTT--AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTCAC
1 TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCAC
*
34017 ATGCCGAGGTATT
66 ATGCCGAGGTATC
* * *
34030 TTTTCAAATTCCTG--TTTTTCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 TTTT-AAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTC
*
34093 ACATGCCGAGTTATTTC
64 ACATGCCGAGGTA--TC
* * **
34110 TTTTAAATTT-TG-TATTTTCAAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCGAG
1 TTTTAAATTTCTGTTTTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-G
*
34173 TCAC--GTCGAGGTAT-
62 TCACATGCCGAGGTATC
* * * * *
34187 TTTTCAATTTCTG--TTTTTCAAAAATCAATTCATATTGTGAGAGGTGAGTTGAGCCTTGGGCCA
1 TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGTCA
*
34250 CACGCCGAGGTA--
65 CATGCCGAGGTATC
*
34262 TTTTCAATTTCTGTTTTT
1 TTTTAAATTTCTGTTTTT
34280 CAAATAAAAA
Statistics
Matches: 1729, Mismatches: 134, Indels: 176
0.85 0.07 0.09
Matches are distributed among these distances:
70 1 0.00
72 48 0.03
73 12 0.01
74 113 0.07
75 61 0.04
76 154 0.09
77 529 0.31
78 528 0.31
79 129 0.07
80 36 0.02
81 17 0.01
82 52 0.03
83 49 0.03
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (78 bp):
TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCAC
ATGCCGAGGTATC
Found at i:32453 original size:78 final size:79
Alignment explanation
Indices: 32253--34283 Score: 2304
Period size: 78 Copynumber: 26.3 Consensus size: 79
32243 CAAGAAATAT
* * *
32253 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGCCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
*
32317 TCCCGAGGTA---C
66 TGCCGAGGTATTTC
* * *
32328 TTTTCAATTTCTGTTTTTTTCAAAAATCAACTCATATTACGATAGGTGAGTTGAGCCTCGGGTCA
1 TTTTAAATTTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
* *
32393 CAT-ACGAGGTATTTT
64 CATGCCGAGGTATTTC
* * *
32408 TTTTAAAATTCCTATTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCCAC
1 TTTT-AAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
*
32472 ATCCCGAGGTA---C
65 ATGCCGAGGTATTTC
* * *
32484 TTTTAAATTTCTATGTTTTT-TAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCATC-GGTCA
1 TTTTAAATTTC--TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
32547 CATGCCGAGGTATTTC
64 CATGCCGAGGTATTTC
* *
32563 TTTTATATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
*
32628 TACCGAGGTATTT-
66 TGCCGAGGTATTTC
* * * ** *
32641 TTTAAAATTCCTATTTTTC-AAAATCAACTCATATTGCGCTAGGTGAGTTGAGCCTCGGGCCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
*
32705 TCCCGAGGTA---C
66 TGCCGAGGTATTTC
** *
32716 TTTTAAATTTCTGTTTTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGTCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
*
32780 TGCCGATGTATTTC
66 TGCCGAGGTATTTC
* * *
32794 TTTTATATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
32858 TGCCGAGGTATTTC
66 TGCCGAGGTATTTC
* *** *
32872 TTTTAAATTTTTGTTTTTTTTAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCAC-
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
*
32936 -GCTGAGGTA--T-
66 TGCCGAGGTATTTC
* *
32946 TTTTAAATTTCTGTTTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG
1 TTTTAAATTTCTG-----TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
*
33011 TCAC--GCTGAGGTA----
61 TCACATGCCGAGGTATTTC
* *
33024 TTTT-AATTTCTGTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTAAATTTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
*
33088 C--GCTGAGGTA--T-
64 CATGCCGAGGTATTTC
* *
33099 TTTTAAATTTCTGTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTAAATTTCTG---TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
* *
33164 AC--GCTGAGGTATTTT
63 ACATGCCGAGGTATTTC
** * * * *
33179 TAATTTCTATTT-TTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTTGGGTCA
1 T--TTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
*
33243 C--GCTGAGGTATTTC
64 CATGCCGAGGTATTTC
* * *
33257 TTTTAAATTTCTATTTTTTTTTCAAAAAACTCAACTCATATTGCGAGAGGTGATTTGAACCTC-G
1 TTTTAAATTTC----TGTTTTTC-AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
**
33321 AAC-CATGCCGAGGTATTTC
60 GTCACATGCCGAGGTATTTC
* *
33340 TTTTAAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAC-C
1 TTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
33403 ATGCCGAGGTATTTC
65 ATGCCGAGGTATTTC
* * *
33418 TTTTAAATTTCTATTTTTCGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAC-CA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
33481 TGCCGAGGTATTTC
66 TGCCGAGGTATTTC
* **
33495 TTTTAAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAAC-C
1 TTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
*
33558 ATGCTGAGGTATTTC
65 ATGCCGAGGTATTTC
* * *
33573 TTTTAAATTTCTGTTTTTCGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
*
33637 TGCCGAGGTCTTTC
66 TGCCGAGGTATTTC
* *
33651 TTTTAAATTTCTGTTTTT-TAAAATCAACTCATAATGC--GA-G-GAGTTGAGCCTCGGGT--CA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
33709 TGCCGAGGTATTTC
66 TGCCGAGGTATTTC
* * *
33723 TTTTAAATTTCTATTTTT-TAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT--CA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
33785 TGCCGAGGTATTTC
66 TGCCGAGGTATTTC
* * * * *
33799 TTTCACATTTCTGGTTTTCAAAAATCAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGT--CA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
33862 TGCCGAGGTATTTC
66 TGCCGAGGTATTTC
* * *
33876 TTTTATATTTGTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGTCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
33940 TGCCGAGGTATTTC
66 TGCCGAGGTATTTC
* * *
33954 TTTTATATTTCTGGTTTTT-TAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGTCAC
1 TTTTAAATTTCT-GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
34017 ATGCCGAGGTATTT-
65 ATGCCGAGGTATTTC
* * * *
34031 TTTCAAATTCCTGTTTTTCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
*
34096 TGCCGAGTTATTTC
66 TGCCGAGGTATTTC
* ** *
34110 TTTTAAATTT-TGTATTTTCAAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCGAGT
1 TTTTAAATTTCTGT-TTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
*
34174 CAC--GTCGAGGTA--T-
62 CACATGCCGAGGTATTTC
* * * * *
34187 TTTTCAATTTCTGTTTTTCAAAAATCAATTCATATTGTGAGAGGTGAGTTGAGCCTTGGGCCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
*
34252 CGCCGAGGTA----
66 TGCCGAGGTATTTC
*
34262 TTTTCAATTTCTGTTTTTCAAA
1 TTTTAAATTTCTGTTTTTCAAA
34284 TAAAAATAAA
Statistics
Matches: 1742, Mismatches: 149, Indels: 130
0.86 0.07 0.06
Matches are distributed among these distances:
72 51 0.03
73 12 0.01
74 115 0.07
75 78 0.04
76 131 0.08
77 518 0.30
78 569 0.33
79 137 0.08
80 12 0.01
81 16 0.01
82 53 0.03
83 50 0.03
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (79 bp):
TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
TGCCGAGGTATTTC
Found at i:32534 original size:155 final size:156
Alignment explanation
Indices: 32253--34283 Score: 2179
Period size: 155 Copynumber: 13.1 Consensus size: 156
32243 CAAGAAATAT
* * *
32253 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGCCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
* * * * *
32317 TCCCGAGGTA-CTTTTCAATTTCTGTTTTTTTCAAAAATCAACTCATATTACGATAGGTGAGTTG
66 TGCCGAGGTATCTTTTAAATTTCTATTTTTTT--AAAATCAACTCATATTGCGAGAGGTGAGTTG
* *
32381 AGCCTCGGGTCACAT-ACGAGGTATTTT
129 AGCCTCGGGTCACATGCCGAGGTATTTC
* * *
32408 TTTTAAAATTCCTATTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCCAC
1 TTTT-AAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* *
32472 ATCCCGAGGTA-CTTTTAAATTTCTATGTTTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTG
65 ATGCCGAGGTATCTTTTAAATTTCTAT-TTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
32536 AGCATC-GGTCACATGCCGAGGTATTTC
129 AGCCTCGGGTCACATGCCGAGGTATTTC
* *
32563 TTTTATATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
* * * * **
32628 TACCGAGGTATTTTTTAAAATTCCTA-TTTTTCAAAATCAACTCATATTGCGCTAGGTGAGTTGA
66 TGCCGAGGTATCTTTT-AAATTTCTATTTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
32692 GCCTCGGGCCACATCCCGAGGTA---C
130 GCCTCGGGTCACATGCCGAGGTATTTC
** *
32716 TTTTAAATTTCTGTTTTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGTCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
* * **
32780 TGCCGATGTATTTCTTTTATATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
66 TGCCGAGGTA--TCTTTTAAATTTCTATTTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
32845 AGCCTC-GGACACATGCCGAGGTATTTC
129 AGCCTCGGGTCACATGCCGAGGTATTTC
* *** *
32872 TTTTAAATTTTTGTTTTTTTTAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCAC-
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
* * * *
32936 -GCTGAGGTAT-TTTTAAATTTCTGTTTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAG
66 TGCCGAGGTATCTTTTAAATTTC---TATTTTTTT--AAAATCAACTCATATTGCGAGAGGTGAG
*
32999 TTGAGCCTCGGGTCAC--GCTGAGGTA----
126 TTGAGCCTCGGGTCACATGCCGAGGTATTTC
* *
33024 TTTT-AATTTCTGTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTAAATTTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
* * * *
33088 C--GCTGAGGTAT-TTTTAAATTTCTGTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAG
64 CATGCCGAGGTATCTTTTAAATTTCT-ATTTTTTT--AAAATCAACTCATATTGCGAGAGGTGAG
* *
33150 TTGAGCCTCGGGTCAC--GCTGAGGTATTTT
126 TTGAGCCTCGGGTCACATGCCGAGGTATTTC
** * * * *
33179 TAATTTCTATTT-TTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTTGGGTCA
1 T--TTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
*
33243 C--GCTGAGGTATTTCTTTTAAATTTCTATTTTTTTTTCAAAAAACTCAACTCATATTGCGAGAG
64 CATGCCGAGGTA--TCTTTTAAATTTCTA--TTTTTTT---AAAA-TCAACTCATATTGCGAGAG
* * **
33306 GTGATTTGAACCTC-GAAC-CATGCCGAGGTATTTC
121 GTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTC
* *
33340 TTTTAAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAC-C
1 TTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
**
33403 ATGCCGAGGTATTTCTTTTAAATTTCTATTTTTCGAAAATCAACTCATATTGCGAGAGGTGAGTT
65 ATGCCGAGGTA--TCTTTTAAATTTCTATTTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTT
*
33468 GAGCCTC-GGAC-CATGCCGAGGTATTTC
128 GAGCCTCGGGTCACATGCCGAGGTATTTC
* **
33495 TTTTAAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAAC-C
1 TTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* * **
33558 ATGCTGAGGTATTTCTTTTAAATTTCTGTTTTTCGAAAATCAACTCATATTGCGAGAGGTGAGTT
65 ATGCCGAGGTA--TCTTTTAAATTTCTATTTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTT
* * *
33623 GAGCCTC-AGACACATGCCGAGGTCTTTC
128 GAGCCTCGGGTCACATGCCGAGGTATTTC
* *
33651 TTTTAAATTTCTGTTTTT-TAAAATCAACTCATAATGC--GA-G-GAGTTGAGCCTCGGGT--CA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
*
33709 TGCCGAGGTATTTCTTTTAAATTTCTA-TTTTTTAAAATCAACTCATAATGCGAGAGGTGAGTTG
66 TGCCGAGGTA--TCTTTTAAATTTCTATTTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTG
33773 AGCCTCGGGT--CATGCCGAGGTATTTC
129 AGCCTCGGGTCACATGCCGAGGTATTTC
* * * * *
33799 TTTCACATTTCTGGTTTTCAAAAATCAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGT--CA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
* * * ** *
33862 TGCCGAGGTATTTCTTTTATATTTGTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTG
66 TGCCGAGGTA--TCTTTTAAATTTCTATTTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTG
33927 AGCCTC-GGTCACATGCCGAGGTATTTC
129 AGCCTCGGGTCACATGCCGAGGTATTTC
* * *
33954 TTTTATATTTCTGGTTTTT-TAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGTCAC
1 TTTTAAATTTCT-GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* * * ** * *
34017 ATGCCGAGGTATTTTTTCAAATTCCTGTTTTTCAAAAACCAACTCATACTGCGAGAGGTGAGTTG
65 ATGCCGAGGTATCTTTT-AAATTTCTATTTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
34082 AGCCTCGGGTCACATGCCGAGTTATTTC
129 AGCCTCGGGTCACATGCCGAGGTATTTC
* ** *
34110 TTTTAAATTT-TGTATTTTCAAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCGAGT
1 TTTTAAATTTCTGT-TTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
* * * ** * *
34174 CAC--GTCGAGGTAT-TTTTCAATTTCTGTTTTTCAAAAATCAATTCATATTGTGAGAGGTGAGT
62 CACATGCCGAGGTATCTTTTAAATTTCTATTTTTTTAAAATCAACTCATATTGCGAGAGGTGAGT
* * *
34236 TGAGCCTTGGGCCACACGCCGAGGTA----
127 TGAGCCTCGGGTCACATGCCGAGGTATTTC
*
34262 TTTTCAATTTCTGTTTTTCAAA
1 TTTTAAATTTCTGTTTTTCAAA
34284 TAAAAATAAA
Statistics
Matches: 1660, Mismatches: 149, Indels: 140
0.85 0.08 0.07
Matches are distributed among these distances:
148 30 0.02
149 60 0.04
150 41 0.02
151 74 0.04
152 46 0.03
153 193 0.12
154 130 0.08
155 549 0.33
156 266 0.16
157 64 0.04
158 30 0.02
159 54 0.03
160 22 0.01
161 101 0.06
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (156 bp):
TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
TGCCGAGGTATCTTTTAAATTTCTATTTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCGGGTCACATGCCGAGGTATTTC
Found at i:34432 original size:10 final size:10
Alignment explanation
Indices: 34417--34442 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
34407 TCGTGTTTTT
34417 AAAAAAAATA
1 AAAAAAAATA
34427 AAAAAAAATA
1 AAAAAAAATA
34437 AAAAAA
1 AAAAAA
34443 TTAAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:34473 original size:30 final size:30
Alignment explanation
Indices: 34439--34615 Score: 221
Period size: 30 Copynumber: 5.9 Consensus size: 30
34429 AAAAAATAAA
*
34439 AAAATTAAATTTTAACCCCTAAACTTTCTC
1 AAAATTACATTTTAACCCCTAAACTTTCTC
* **
34469 AAAATTACATTTTGACTACTAAACTTTCTC
1 AAAATTACATTTTAACCCCTAAACTTTCTC
34499 AAAATTACATTTTAACCCCTAAACTTTCTC
1 AAAATTACATTTTAACCCCTAAACTTTCTC
* *
34529 GAAATTA-ACTTTTGACCCCTAAACTTTCTC
1 AAAATTACA-TTTTAACCCCTAAACTTTCTC
* * *
34559 AAACTTACATTTTGACCCCTGAACTTTCTC
1 AAAATTACATTTTAACCCCTAAACTTTCTC
** * *
34589 AAAATTATGTTTCAACCCCAAAACTTT
1 AAAATTACATTTTAACCCCTAAACTTT
34616 TGCTGCGTCT
Statistics
Matches: 126, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
29 1 0.01
30 124 0.98
31 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCTAAACTTTCTC
Found at i:34593 original size:90 final size:90
Alignment explanation
Indices: 34440--34615 Score: 262
Period size: 90 Copynumber: 2.0 Consensus size: 90
34430 AAAAATAAAA
*
34440 AAATTAAATTTTAACCCCTAAACTTTCTCAAAATTACATTTTGACTACTAAACTTTCTCAAAATT
1 AAATTAAATTTTAACCCCTAAACTTTCTCAAAATTACATTTTGACCACTAAACTTTCTCAAAATT
* *
34505 ACATTTTAACCCCTAAACTTTCTCG
66 ACATTTCAACCCCAAAACTTTCTCG
* * * * *
34530 AAATTAACTTTTGACCCCTAAACTTTCTCAAACTTACATTTTGACCCCTGAACTTTCTCAAAATT
1 AAATTAAATTTTAACCCCTAAACTTTCTCAAAATTACATTTTGACCACTAAACTTTCTCAAAATT
**
34595 ATGTTTCAACCCCAAAACTTT
66 ACATTTCAACCCCAAAACTTT
34616 TGCTGCGTCT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
90 76 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (90 bp):
AAATTAAATTTTAACCCCTAAACTTTCTCAAAATTACATTTTGACCACTAAACTTTCTCAAAATT
ACATTTCAACCCCAAAACTTTCTCG
Found at i:34963 original size:20 final size:20
Alignment explanation
Indices: 34935--34979 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
34925 AGCTAGGGTG
*
34935 AAGAGGGAAGAAGAAAAAAA
1 AAGAAGGAAGAAGAAAAAAA
* *
34955 AAGAAGGAAGAAGAAGAAGA
1 AAGAAGGAAGAAGAAAAAAA
34975 AAGAA
1 AAGAA
34980 AAAAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
AAGAAGGAAGAAGAAAAAAA
Found at i:34989 original size:7 final size:7
Alignment explanation
Indices: 34945--35019 Score: 71
Period size: 7 Copynumber: 10.1 Consensus size: 7
34935 AAGAGGGAAG
34945 AAGAAAA
1 AAGAAAA
34952 AA-AAAGA
1 AAGAAA-A
*
34959 AGGAAGAA
1 AAGAA-AA
*
34967 GAAGAAGA
1 -AAGAAAA
34975 AAGAAAAA
1 AAG-AAAA
*
34983 AATAAAA
1 AAGAAAA
34990 AATGAAAA
1 AA-GAAAA
34998 AAGAAAA
1 AAGAAAA
35005 AAGAAAA
1 AAGAAAA
35012 AAGAAAA
1 AAGAAAA
35019 A
1 A
35020 TTAATAGTCG
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
6 3 0.05
7 33 0.59
8 15 0.27
9 5 0.09
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (7 bp):
AAGAAAA
Found at i:34999 original size:15 final size:14
Alignment explanation
Indices: 34945--35019 Score: 71
Period size: 15 Copynumber: 5.1 Consensus size: 14
34935 AAGAGGGAAG
34945 AAGAAAAAA-AAAGA
1 AAGAAAAAAGAAA-A
* *
34959 AGGAAGAAGAAGAAGA
1 AAGAA-AA-AAGAAAA
*
34975 AAGAAAAAAATAAAA
1 AAG-AAAAAAGAAAA
34990 AATGAAAAAAGAAAA
1 AA-GAAAAAAGAAAA
35005 AAGAAAAAAGAAAA
1 AAGAAAAAAGAAAA
35019 A
1 A
35020 TTAATAGTCG
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
14 17 0.34
15 21 0.42
16 8 0.16
17 4 0.08
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (14 bp):
AAGAAAAAAGAAAA
Found at i:35041 original size:5 final size:5
Alignment explanation
Indices: 35033--35089 Score: 60
Period size: 5 Copynumber: 11.0 Consensus size: 5
35023 ATAGTCGGGT
* * * *
35033 CGACC CGACA CGACC CGACA CGACC CGACG CGACC CGACC GGTGACC CGACC
1 CGACC CGACC CGACC CGACC CGACC CGACC CGACC CGACC --CGACC CGACC
35085 CGACC
1 CGACC
35090 ACCCAGCAGC
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
5 38 0.90
7 4 0.10
ACGTcount: A:0.23, C:0.51, G:0.25, T:0.02
Consensus pattern (5 bp):
CGACC
Found at i:35089 original size:10 final size:10
Alignment explanation
Indices: 35033--35071 Score: 69
Period size: 10 Copynumber: 3.9 Consensus size: 10
35023 ATAGTCGGGT
35033 CGACCCGACA
1 CGACCCGACA
35043 CGACCCGACA
1 CGACCCGACA
*
35053 CGACCCGACG
1 CGACCCGACA
35063 CGACCCGAC
1 CGACCCGAC
35072 CGGTGACCCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.26, C:0.51, G:0.23, T:0.00
Consensus pattern (10 bp):
CGACCCGACA
Found at i:35215 original size:24 final size:25
Alignment explanation
Indices: 35168--35228 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
35158 AAGTAGCTAC
*
35168 CCAACAGGCCTAACAGCCTTGCAGG
1 CCAACAGGCCCAACAGCCTTGCAGG
35193 CCAACA-GCCCAACAG-CTTGGCAGG
1 CCAACAGGCCCAACAGCCTT-GCAGG
* *
35217 CTAGCAGGCCCA
1 CCAACAGGCCCA
35229 TCACTGCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 3 0.10
24 17 0.55
25 11 0.35
ACGTcount: A:0.28, C:0.38, G:0.25, T:0.10
Consensus pattern (25 bp):
CCAACAGGCCCAACAGCCTTGCAGG
Found at i:35635 original size:17 final size:17
Alignment explanation
Indices: 35615--35678 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
35605 ATCAAAAATA
35615 TTCAAAAAATTCGTGTT
1 TTCAAAAAATTCGTGTT
35632 TTCAAAAAAATTTCGTG-T
1 TTC-AAAAAA-TTCGTGTT
**
35650 TTCAAAATTTTCGT-TT
1 TTCAAAAAATTCGTGTT
35666 CTTCAAAATAATT
1 -TTCAAAA-AATT
35679 TTTCTCGTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
16 6 0.16
17 14 0.37
18 12 0.32
19 6 0.16
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (17 bp):
TTCAAAAAATTCGTGTT
Found at i:35639 original size:18 final size:18
Alignment explanation
Indices: 35618--35656 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
35608 AAAAATATTC
35618 AAAAAA-TTCGTGTTTTCA
1 AAAAAATTTCGTG-TTTCA
35636 AAAAAATTTCGTGTTTCA
1 AAAAAATTTCGTGTTTCA
35654 AAA
1 AAA
35657 TTTTCGTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (18 bp):
AAAAAATTTCGTGTTTCA
Found at i:35640 original size:19 final size:18
Alignment explanation
Indices: 35618--35656 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
35608 AAAAATATTC
35618 AAAAAATTCGTGTTTTCAA
1 AAAAAATTCGTG-TTTCAA
*
35637 AAAAATTTCGTGTTTCAA
1 AAAAAATTCGTGTTTCAA
35655 AA
1 AA
35657 TTTTCGTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (18 bp):
AAAAAATTCGTGTTTCAA
Found at i:35947 original size:20 final size:22
Alignment explanation
Indices: 35908--35949 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
35898 TTCGTCTTTC
35908 AAAATTCTCATGTCTTCAAAAT
1 AAAATTCTCATGTCTTCAAAAT
*
35930 AAAATTC-CAT-TTTTCAAAAT
1 AAAATTCTCATGTCTTCAAAAT
35950 TTTTCGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 3 0.16
22 7 0.37
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAATTCTCATGTCTTCAAAAT
Found at i:35963 original size:18 final size:18
Alignment explanation
Indices: 35940--36210 Score: 176
Period size: 18 Copynumber: 14.6 Consensus size: 18
35930 AAAATTCCAT
*
35940 TTTTCAAAATTTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
35958 TTTTCAAAAAAAAAATTTCG-G
1 TTTTC----AAAAATTTTCGTG
*
35979 TGTTTCAAAAATATTCGTG
1 T-TTTCAAAAATTTTCGTG
*
35998 TTTTCAAAAAATTTCCGTG
1 TTTTC-AAAAATTTTCGTG
36017 -TTTCAAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
36034 TTTTAAAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
36052 TTTTCAAAAAATTCTCGTG
1 TTTTC-AAAAATTTTCGTG
* **
36071 -CTTCGCAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
* * *
36088 TTTTTAAAAATTCTCGCG
1 TTTTCAAAAATTTTCGTG
* *
36106 TTGTCAAAAAAATTCTCGTG
1 TTTTC--AAAAATTTTCGTG
** *
36126 -TTTCACCAATTTTTGTG
1 TTTTCAAAAATTTTCGTG
**
36143 TTTTCAAAAAAAATCCTCGTG
1 TTTTC---AAAAATTTTCGTG
* *
36164 TTTTCAAAAAAATTCTCTTG
1 TTTTC--AAAAATTTTCGTG
*
36184 -TTACAAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
36201 TTTT-AAAAAT
1 TTTTCAAAAAT
36211 AAATTTCGTG
Statistics
Matches: 197, Mismatches: 39, Indels: 35
0.73 0.14 0.13
Matches are distributed among these distances:
17 48 0.24
18 65 0.33
19 31 0.16
20 25 0.13
21 15 0.08
22 13 0.07
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
TTTTCAAAAATTTTCGTG
Found at i:35969 original size:76 final size:75
Alignment explanation
Indices: 35889--36043 Score: 181
Period size: 76 Copynumber: 2.1 Consensus size: 75
35879 AAATAAAAAT
* * *
35889 AAAAAAGATTTC-GTCTTTC-AAAAT-TCTCATGTCTTCAAAATAAAATTCCATTTTTCAAAATT
1 AAAAAAAATTTCGGTCTTTCAAAAATAT-TCATGTCTTC-AAA-AAAATTCCATGTTTCAAAAAT
35951 TTTCGTGTTTTCAA
63 TTTCGTGTTTT-AA
* * * * *
35965 AAAAAAAATTTCGGTGTTTCAAAAATATTCGTGTTTTCAAAAAATTTCCGTGTTTCAAAAATTTT
1 AAAAAAAATTTCGGTCTTTCAAAAATATTCATGTCTTCAAAAAAATTCCATGTTTCAAAAATTTT
36030 CGTGTTTTAA
66 CGTGTTTTAA
36040 AAAA
1 AAAA
36044 TTTTCGTGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
75 6 0.09
76 39 0.57
77 9 0.13
78 13 0.19
79 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (75 bp):
AAAAAAAATTTCGGTCTTTCAAAAATATTCATGTCTTCAAAAAAATTCCATGTTTCAAAAATTTT
CGTGTTTTAA
Found at i:36050 original size:54 final size:55
Alignment explanation
Indices: 35967--36209 Score: 269
Period size: 54 Copynumber: 4.4 Consensus size: 55
35957 GTTTTCAAAA
* * *
35967 AAAAAATTTCG-GTGTTTCAAAAATAT-TCGTGTTTTCAAAAAATTTC-CGTGTTTC
1 AAAAATTTTCGTGT-TTTAAAAAAT-TCTCGTGTTTTCAAAAAAATTCTCGTGTTTC
* *
36021 AAAAATTTTCGTGTTTTAAAAAATTTTCGTGTTTTC-AAAAAATTCTCGTGCTTC
1 AAAAATTTTCGTGTTTTAAAAAATTCTCGTGTTTTCAAAAAAATTCTCGTGTTTC
** * * *
36075 GCAAATTTTCGTGTTTTTAAAAATTCTCGCGTTGTCAAAAAAATTCTCGTGTTTC
1 AAAAATTTTCGTGTTTTAAAAAATTCTCGTGTTTTCAAAAAAATTCTCGTGTTTC
** * * * *
36130 ACCAATTTTTGTGTTTTCAAAAAAAATCCTCGTGTTTTCAAAAAAATTCTCTTGTTAC
1 AAAAATTTTCGTGTTTT---AAAAAATTCTCGTGTTTTCAAAAAAATTCTCGTGTTTC
36188 AAAAATTTTCGTGTTTTAAAAA
1 AAAAATTTTCGTGTTTTAAAAA
36210 TAAATTTCGT
Statistics
Matches: 159, Mismatches: 23, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
53 9 0.06
54 66 0.42
55 38 0.24
58 46 0.29
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.42
Consensus pattern (55 bp):
AAAAATTTTCGTGTTTTAAAAAATTCTCGTGTTTTCAAAAAAATTCTCGTGTTTC
Found at i:37901 original size:32 final size:32
Alignment explanation
Indices: 37865--37925 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
37855 CAAAGAGGAA
*
37865 AATACTTACA-CATATTGCTAAAGCATAAATTG
1 AATACTTA-AGCACATTGCTAAAGCATAAATTG
37897 AATACTTAAGCACATTGCTAAAGCATAAA
1 AATACTTAAGCACATTGCTAAAGCATAAA
37926 CTTCATTGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.28
Consensus pattern (32 bp):
AATACTTAAGCACATTGCTAAAGCATAAATTG
Found at i:40723 original size:17 final size:16
Alignment explanation
Indices: 40697--41111 Score: 89
Period size: 17 Copynumber: 23.7 Consensus size: 16
40687 AATACGATTT
*
40697 TTTTTAAAACACAAAGA
1 TTTTTGAAACACAAA-A
*
40714 TTTTTGAAACA-AATATT
1 TTTTTGAAACACAA-A-A
* * *
40731 TTTTTAAAAAATGAAAA
1 TTTTTGAAACA-CAAAA
* **
40748 TTTATGAAACACGAGATT
1 TTTTTGAAACAC-A-AAA
40766 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACAC-AAAA
** *
40784 TTTTCAAAACACCGAAA
1 TTTTTGAAACA-CAAAA
**
40801 TTTTTGAAAACACGAGGA
1 TTTTTG-AAACAC-AAAA
*
40819 TTTTTGAAATACGAAAA
1 TTTTTGAAACAC-AAAA
*
40836 ATTTTGAAACCACAAAAA
1 TTTTTGAAA-CAC-AAAA
*
40854 TTTTTGAAAACACGGAAA
1 TTTTTG-AAACAC-AAAA
*
40872 TTTTAGAAACACACAAA
1 TTTTTGAAACACA-AAA
* ** *
40889 TTTTTAAAAGGCGATAAT
1 TTTTTGAAACAC-A-AAA
*
40907 TTTTTGAAACACGAGAATT
1 TTTTTGAAACAC-A-AA-A
* *
40926 TTTTTAAAACATAAAAA
1 TTTTTGAAACA-CAAAA
** * *
40943 AATTTAAAACATGAAAA
1 TTTTTGAAACA-CAAAA
* *
40960 TTTGTGAAACACGAGAA
1 TTTTTGAAACAC-AAAA
* *
40977 TTGTTGAAAATACAAAAAA
1 TTTTTG--AA-ACACAAAA
*
40996 ATTTTGAATACACGAAAA
1 TTTTTGAA-ACAC-AAAA
*
41014 TTTTTAAAACAC-AAA
1 TTTTTGAAACACAAAA
* **
41029 TTTTAGAAACATGGAAA
1 TTTTTGAAACA-CAAAA
41046 TTTTTAGAAAACACGGAAAA
1 TTTTT-G-AAACAC--AAAA
* * *
41066 -TTTTGAAAAATAGAA
1 TTTTTGAAACACAAAA
*
41081 TCTTTTGAAAACACGAATAT
1 T-TTTTG-AAACAC-AA-AA
41101 TTTTTGAAACA
1 TTTTTGAAACA
41112 TGAGAAAAAT
Statistics
Matches: 289, Mismatches: 78, Indels: 61
0.68 0.18 0.14
Matches are distributed among these distances:
15 15 0.05
16 2 0.01
17 129 0.45
18 86 0.30
19 49 0.17
20 8 0.03
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.31
Consensus pattern (16 bp):
TTTTTGAAACACAAAA
Found at i:40737 original size:34 final size:34
Alignment explanation
Indices: 40695--40787 Score: 98
Period size: 34 Copynumber: 2.6 Consensus size: 34
40685 ACAATACGAT
*
40695 TTTTTTTAAAACACAAAGATTTTTGAAACA-AATA
1 TTTTTTTAAAACACAAA-ATTTTTGAAACACAAGA
* * * *
40729 TTTTTTTAAAAAATGAAAATTTATGAAACACGAGA
1 TTTTTTTAAAACA-CAAAATTTTTGAAACACAAGA
40764 TTTTTTTGAAAACACGAAAATTTT
1 TTTTTTT-AAAACAC-AAAATTTT
40788 CAAAACACCG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
34 23 0.49
35 12 0.26
36 12 0.26
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.39
Consensus pattern (34 bp):
TTTTTTTAAAACACAAAATTTTTGAAACACAAGA
Found at i:40803 original size:53 final size:51
Alignment explanation
Indices: 40745--40975 Score: 150
Period size: 53 Copynumber: 4.4 Consensus size: 51
40735 TAAAAAATGA
*
40745 AAATTTATGAAACACGAGATTTTTTTGAAAACACGAAAATTTTCAAAACACCG
1 AAATTTTTGAAACACGAGATTTTTTTG-AAACACGAAAATTTT-AAAACACCG
* * **
40798 AAATTTTTGAAAACACGAGGA--TTTTTGAAATACGAAAAATTTTGAAACCACAA
1 AAATTTTTG-AAACACGA-GATTTTTTTGAAACACG-AAAATTTT-AAAACACCG
** * **
40851 AAATTTTTGAAAACACG-GAAATTTTAGAAACAC-ACAAATTTTTAAAA-GGCG
1 AAATTTTTG-AAACACGAGATTTTTTTGAAACACGA-AAA-TTTTAAAACACCG
* ** * *
40902 ATAATTTTTTGAAACACGAGAATTTTTTTAAAACATAAAAAAATTTAAAACA-TG
1 A-AA-TTTTTGAAACACGAG-ATTTTTTTGAAACA-CGAAAATTTTAAAACACCG
*
40956 AAAATTTGTGAAACACGAGA
1 -AAATTTTTGAAACACGAGA
40976 ATTGTTGAAA
Statistics
Matches: 141, Mismatches: 22, Indels: 31
0.73 0.11 0.16
Matches are distributed among these distances:
51 4 0.03
52 22 0.16
53 80 0.57
54 28 0.20
55 6 0.04
56 1 0.01
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (51 bp):
AAATTTTTGAAACACGAGATTTTTTTGAAACACGAAAATTTTAAAACACCG
Found at i:40995 original size:53 final size:54
Alignment explanation
Indices: 40911--41025 Score: 135
Period size: 53 Copynumber: 2.1 Consensus size: 54
40901 GATAATTTTT
* ** *
40911 TGAAACACGAGAATTTTTTTAAAACATAAAAAAATTT-AAAACATGAAAATTTG
1 TGAAACACGAGAATTGTTGAAAAACATAAAAAAATTTGAAAACACGAAAATTTG
* * *
40964 TGAAACACGAGAATTGTTGAAAATACA-AAAAAATTTTGAATACACGAAAATTTT
1 TGAAACACGAGAATTGTTGAAAA-ACATAAAAAAATTTGAAAACACGAAAATTTG
*
41018 TAAAACAC
1 TGAAACAC
41026 AAATTTTAGA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
53 29 0.56
54 23 0.44
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (54 bp):
TGAAACACGAGAATTGTTGAAAAACATAAAAAAATTTGAAAACACGAAAATTTG
Found at i:40997 original size:37 final size:36
Alignment explanation
Indices: 40956--41028 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
40946 TTAAAACATG
* *
40956 AAAATTTGTGAA-ACACGAGAATTGTTGAAAATACAAA
1 AAAATTT-TGAATACACGAAAATT-TTGAAAACACAAA
*
40993 AAAATTTTGAATACACGAAAATTTTTAAAACACAAA
1 AAAATTTTGAATACACGAAAATTTTGAAAACACAAA
41029 TTTTAGAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 15 0.47
37 17 0.53
ACGTcount: A:0.53, C:0.10, G:0.11, T:0.26
Consensus pattern (36 bp):
AAAATTTTGAATACACGAAAATTTTGAAAACACAAA
Found at i:41063 original size:19 final size:18
Alignment explanation
Indices: 40766--41185 Score: 153
Period size: 18 Copynumber: 23.4 Consensus size: 18
40756 ACACGAGATT
40766 TTTTTGAAAACAC-GAAA
1 TTTTTGAAAACACGGAAA
* * *
40783 ATTTTCAAAACACCGAAA
1 TTTTTGAAAACACGGAAA
*
40801 TTTTTGAAAACAC-GAGGA
1 TTTTTGAAAACACGGA-AA
* *
40819 TTTTTG-AAATACGAAAA
1 TTTTTGAAAACACGGAAA
* * **
40836 ATTTTGAAACCACAAAAA
1 TTTTTGAAAACACGGAAA
40854 TTTTTGAAAACACGGAAA
1 TTTTTGAAAACACGGAAA
*
40872 TTTTAGAAACACAC--AAA
1 TTTTTGAAA-ACACGGAAA
**
40889 TTTTT-AAAAGGC-GATAA
1 TTTTTGAAAACACGGA-AA
*
40906 TTTTTTG-AAACACGAGAAT
1 -TTTTTGAAAACACG-GAAA
* ***
40925 TTTTTTAAAACATAAAAA
1 TTTTTGAAAACACGGAAA
** * *
40943 AATTT-AAAACATGAAAA
1 TTTTTGAAAACACGGAAA
*
40960 TTTGTG-AAACAC-GAGAA
1 TTTTTGAAAACACGGA-AA
* * **
40977 TTGTTGAAAATACAAAAAA
1 TTTTTGAAAACAC-GGAAA
* * *
40996 ATTTTGAATACACGAAAA
1 TTTTTGAAAACACGGAAA
41014 TTTTT-AAAACAC--AAA
1 TTTTTGAAAACACGGAAA
* *
41029 TTTTAG-AAACATGGAAA
1 TTTTTGAAAACACGGAAA
41046 TTTTTAGAAAACACGGAAA
1 TTTTT-GAAAACACGGAAA
* **
41065 ATTTTGAAAA-ATAG-AA
1 TTTTTGAAAACACGGAAA
41081 TCTTTTGAAAACAC-GAATA
1 T-TTTTGAAAACACGGAA-A
*
41100 TTTTTTG-AAACATGAGAAAAA
1 -TTTTTGAAAACACG-G--AAA
**
41121 TTATTTTGAAGCCAC-GAAA
1 -T-TTTTGAAAACACGGAAA
* *
41140 ATTTCG-AAACACGGAAA
1 TTTTTGAAAACACGGAAA
*
41157 TTTTTTGTGAAAACACGAAAA
1 --TTTT-TGAAAACACGGAAA
41178 TTTTTGAA
1 TTTTTGAA
41186 TATTTACATT
Statistics
Matches: 298, Mismatches: 67, Indels: 75
0.68 0.15 0.17
Matches are distributed among these distances:
15 14 0.05
16 11 0.04
17 90 0.30
18 102 0.34
19 51 0.17
20 6 0.02
21 14 0.05
22 7 0.02
23 3 0.01
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.30
Consensus pattern (18 bp):
TTTTTGAAAACACGGAAA
Found at i:41069 original size:37 final size:35
Alignment explanation
Indices: 40695--41181 Score: 170
Period size: 36 Copynumber: 13.7 Consensus size: 35
40685 ACAATACGAT
*
40695 TTTTTTTAAAACAC-AAAGATTTTTGAAACA---AATA
1 TTTTTTGAAAACACGAAA-A-TTTTGAAACATGGAA-A
* * * * *
40729 TTTTTTTAAAAAATGAAAATTTATGAAACA-CGAGAT
1 TTTTTTGAAAACACGAAAATTT-TGAAACATGGA-AA
* **
40765 TTTTTTGAAAACACGAAAATTTTCAAAACACCGAAA
1 TTTTTTGAAAACACGAAAATTTT-GAAACATGGAAA
* * * *
40801 -TTTTTGAAAACACGAGGATTTTTGAAATA-CGAAA
1 TTTTTTGAAAACACGA-AAATTTTGAAACATGGAAA
** * * *
40835 AATTTTGAAACCACAAAAATTTTTGAAAACACGGAAA
1 TTTTTTGAAAACACGAAAA-TTTTG-AAACATGGAAA
* * *
40872 -TTTTAG-AAACAC-ACAAATTTTTAAA-AGGCGATAA
1 TTTTTTGAAAACACGA-AAATTTTGAAACATG-GA-AA
* * *
40906 TTTTTTG-AAACACGAGAATTTTTTTAAAACAT-AAAA
1 TTTTTTGAAAACACGA-AA--ATTTTGAAACATGGAAA
*** * *
40942 AAATTT-AAAACATGAAAATTTGTGAAACA-CGAGAA
1 TTTTTTGAAAACACGAAAATTT-TGAAACATGGA-AA
* ** *
40977 -TTGTTGAAAATACAAAAAAATTTTGAATACA-CGAAA
1 TTTTTTG-AAA-ACACGAAAATTTTGAA-ACATGGAAA
*
41013 ATTTTT-AAAACAC--AAATTTTAGAAACATGGAAA
1 TTTTTTGAAAACACGAAAATTTT-GAAACATGGAAA
* * *
41046 TTTTTAGAAAACACGGAAAATTTTGAAAAATAG-AA
1 TTTTTTGAAAACAC-GAAAATTTTGAAACATGGAAA
* *
41081 TCTTTTGAAAACACGAATATTTTTTGAAACATGAGAAAAA
1 TTTTTTGAAAACACGAA-A-ATTTTGAAACATG-G--AAA
** * *
41121 TTATTTTGAAGCCACGAAAATTTCGAAACACGGAAA
1 TT-TTTTGAAAACACGAAAATTTTGAAACATGGAAA
41157 TTTTTTGTGAAAACACGAAAATTTT
1 -TTTTT-TGAAAACACGAAAATTTT
41182 TGAATATTTA
Statistics
Matches: 346, Mismatches: 63, Indels: 85
0.70 0.13 0.17
Matches are distributed among these distances:
32 12 0.03
33 22 0.06
34 55 0.16
35 81 0.23
36 86 0.25
37 54 0.16
38 8 0.02
39 11 0.03
40 4 0.01
41 13 0.04
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (35 bp):
TTTTTTGAAAACACGAAAATTTTGAAACATGGAAA
Found at i:41527 original size:8 final size:8
Alignment explanation
Indices: 41510--41598 Score: 51
Period size: 8 Copynumber: 10.6 Consensus size: 8
41500 TTGAACCTCT
*
41510 TTTTTTTC
1 TTTTTCTC
41518 TTTTTCTC
1 TTTTTCTC
41526 TTTTTCTC
1 TTTTTCTC
41534 -TTTTCTTC
1 TTTTTC-TC
41542 TTTTT-TC
1 TTTTTCTC
41549 TTCTATT-T-
1 TT-T-TTCTC
*
41557 TTTCTTCTA
1 TTT-TTCTC
*
41566 TTTTTTTCC
1 TTTTTCT-C
41575 TTTTTTCTTC
1 -TTTTTC-TC
41585 TTTTTTCTC
1 -TTTTTCTC
41594 TTTTT
1 TTTTT
41599 TTTTCTACTT
Statistics
Matches: 67, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
7 12 0.18
8 29 0.43
9 12 0.18
10 13 0.19
11 1 0.01
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTCTC
Found at i:41559 original size:12 final size:11
Alignment explanation
Indices: 41509--41604 Score: 92
Period size: 10 Copynumber: 8.7 Consensus size: 11
41499 ATTGAACCTC
41509 TTTTTT-TTCT
1 TTTTTTCTTCT
* *
41519 TTTTCTCTTTT
1 TTTTTTCTTCT
41530 TCTCTTTTCTTC-
1 T-T-TTTTCTTCT
41542 TTTTTTCTTCT
1 TTTTTTCTTCT
41553 ATTTTTTCTTCT
1 -TTTTTTCTTCT
* *
41565 ATTTTT-TTCC
1 TTTTTTCTTCT
41575 TTTTTTCTTCT
1 TTTTTTCTTCT
41586 TTTTTCTCTT-T
1 TTTTT-TCTTCT
41597 TTTTTTCT
1 TTTTTTCT
41605 ACTTCTGGAT
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
10 24 0.34
11 24 0.34
12 17 0.24
13 6 0.08
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTCTTCT
Found at i:41581 original size:43 final size:39
Alignment explanation
Indices: 41526--41605 Score: 115
Period size: 43 Copynumber: 1.9 Consensus size: 39
41516 TCTTTTTCTC
41526 TTTTTCTCTTTTCTTCTTTTTTCTTCTATTTTTTCTTCTATT
1 TTTTTCTCTTTTCTTCTTTTTTC-TCT-TTTTTT-TTCTATT
*
41568 TTTTTCCTTTTTTCTTCTTTTTTCTCTTTTTTTTTCTA
1 TTTTT-CTCTTTTCTTCTTTTTTCTCTTTTTTTTTCTA
41606 CTTCTGGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
40 5 0.14
41 6 0.17
42 8 0.22
43 17 0.47
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.78
Consensus pattern (39 bp):
TTTTTCTCTTTTCTTCTTTTTTCTCTTTTTTTTTCTATT
Found at i:41583 original size:40 final size:42
Alignment explanation
Indices: 41526--41605 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 42
41516 TCTTTTTCTC
41526 TTTTTCTCTTTTCTTCTT-TTTTCTTCTATTTTTTCTTCTATT
1 TTTTTCTCTTTTCTTCTTCTTTT-TTCTATTTTTTCTTCTATT
* *
41568 TTTTTC-CTTTT-TTCTTCTTTTTTCTCTTTTTTTTTCTA
1 TTTTTCTCTTTTCTTCTTCTTTTTTCTATTTTTTCTTCTA
41606 CTTCTGGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 20 0.57
41 9 0.26
42 6 0.17
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.78
Consensus pattern (42 bp):
TTTTTCTCTTTTCTTCTTCTTTTTTCTATTTTTTCTTCTATT
Found at i:41836 original size:12 final size:12
Alignment explanation
Indices: 41801--41836 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
41791 CTGCTGGTGT
*
41801 TGGGTCGGGTCA
1 TGGGTCGGGTCG
*
41813 CGGGTCGGGTCG
1 TGGGTCGGGTCG
41825 TGGGTCGGGTCG
1 TGGGTCGGGTCG
41837 GTCTGACCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.03, C:0.19, G:0.56, T:0.22
Consensus pattern (12 bp):
TGGGTCGGGTCG
Found at i:42021 original size:9 final size:9
Alignment explanation
Indices: 41989--42045 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
41979 CTTCCCCTCT
41989 TTTCTCTTC
1 TTTCTCTTC
*
41998 TTCCT-TTC
1 TTTCTCTTC
*
42006 TTCCTCTTC
1 TTTCTCTTC
42015 TTTCTC-T-
1 TTTCTCTTC
42022 TTTCTC-TC
1 TTTCTCTTC
*
42030 ATTTCTCTTT
1 -TTTCTCTTC
42040 TTTCTC
1 TTTCTC
42046 CTATTTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
7 7 0.17
8 9 0.22
9 24 0.59
10 1 0.02
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTCTCTTC
Found at i:42034 original size:16 final size:16
Alignment explanation
Indices: 42015--42045 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42005 CTTCCTCTTC
42015 TTTCTCTTTTCTCTCA
1 TTTCTCTTTTCTCTCA
*
42031 TTTCTCTTTTTTCTC
1 TTTCTCTTTTCTCTC
42046 CTATTTCCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTCTCTTTTCTCTCA
Found at i:42044 original size:18 final size:18
Alignment explanation
Indices: 42021--42060 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
42011 CTTCTTTCTC
*
42021 TTTTCT-CTCATTTCTCTT
1 TTTTCTCCT-ATTTCCCTT
42039 TTTTCTCCTATTTCCCTT
1 TTTTCTCCTATTTCCCTT
42057 TTTT
1 TTTT
42061 TTCAAACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTCTCCTATTTCCCTT
Found at i:42332 original size:29 final size:29
Alignment explanation
Indices: 42289--42428 Score: 138
Period size: 30 Copynumber: 4.8 Consensus size: 29
42279 TTGAGAAAAC
* * *
42289 TTAGGGGTCATAATGTAATTTCAAAAATT
1 TTAGGGGTTAAAATGTAATTTTAAAAATT
* * *
42318 TTATGGGTTAAAATGTAGTTTAAAAAAATT
1 TTAGGGGTTAAAATGTAATTT-TAAAAATT
* *
42348 TTAAGGGTTAAAATATAATTTTAGGAAAA-T
1 TTAGGGGTTAAAATGTAATTTTA--AAAATT
* *
42378 TTAGGGGTTAAAATGCAATTTTAAAAAGT
1 TTAGGGGTTAAAATGTAATTTTAAAAATT
**
42407 TTAGGGGCCAAAATGTAATTTT
1 TTAGGGGTTAAAATGTAATTTT
42429 TTTTATTTTT
Statistics
Matches: 92, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
28 4 0.04
29 38 0.41
30 46 0.50
31 4 0.04
ACGTcount: A:0.41, C:0.04, G:0.19, T:0.37
Consensus pattern (29 bp):
TTAGGGGTTAAAATGTAATTTTAAAAATT
Found at i:42945 original size:76 final size:76
Alignment explanation
Indices: 42613--44247 Score: 1638
Period size: 78 Copynumber: 21.1 Consensus size: 76
42603 AGAAATCAAG
* * * * * *
42613 AATAGCTCAGCGTGCAACCCAAAGCTCAACTCACCTTTCGAATTATGAGTTGATTTTTTG-GAAA
1 AATACCTCAGCGTG--ACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGA-TTTTTGAAAAA
* *
42677 ACAGAAATTGAAAAG
62 ACAGAAATTTAAAAA
* * * * * * **** *
42692 AATACATCGGCATGCGATCCGAGGCTCCACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAGA
1 AATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCG-TATATGAGTTGATTTTTGAAAAAA
*
42757 -AGTAAAATTT-GAAA
63 CAG--AAATTTAAAAA
* * * *
42771 AATACCTC-GAC-TGGACTCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGCAAAAA
1 AATACCTCAG-CGT-GACCCGAGGCTCAACTCACCTCTCG-TATATGAGTTGATTTTTGAAAAAA
* *
42834 TAGATATTT---AA
63 CAGAAATTTAAAAA
* * *
42845 AATACCTCAGCATGCGACCCGAGGCTCAACTCATCTCTCGTA-ATAAGTTGATTTTTG-AAAAAC
1 AATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGTATATGAGTTGATTTTTGAAAAAAC
42908 AGAAATTTAAAAGA
64 AGAAATTTAAAA-A
* * * * **
42922 AATACCTC-GTCATGTG-TCGGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTAAAAAAA
1 AATACCTCAG-C--GTGACCCGAGGCTCAACTCACCTCTCG-TATATGAGTTGATTTTTGAAAAA
*
42985 ACAGAAATTAAAAAGA
62 ACAGAAATTTAAAA-A
* * ** *
43001 AATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAAC
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCG-TATATGAGTTGA-TTTTTGAAAAAAC
*
43065 ATAAATTTAAAAGA
64 AGAAATTTAAAA-A
* * ** *
43079 AATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAG
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCG-TATATGAGTTGA--TTTTT------G
*
43144 AAAAAAAAAAGAAATTTAAAAGA
57 --AAAAAACAGAAATTTAAAA-A
*
43167 AATACCTCAGCGTGACCCGATGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAC
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGATTTTTG-AAAAAAC
*
43232 AGAAATTAAAAAA
64 AGAAATTTAAAAA
43245 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-ATGAGTTGATTTTTG-AAAAACAG
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATATGAGTTGATTTTTGAAAAAACAG
43308 AAATTTAAAAGA
66 AAATTTAAAA-A
* * ** *
43320 AATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAAC
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCG-TATATGAGTTGA-TTTTTGAAAAAAC
*
43384 ATAAATTTAAAAGA
64 AGAAATTTAAAA-A
* * ** *
43398 AATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAG
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCG-TATATGAGTTGA--TTTTT------G
*
43463 AAAAAAAAAGAAATTTAAAAGA
57 -AAAAAACAGAAATTTAAAA-A
*
43485 AATACCTCAGCGTGACCCGATGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAC
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGATTTTTG-AAAAAAC
*
43550 AGAAATTAAAAAA
64 AGAAATTTAAAAA
43563 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGATTTTTG--AAAAAA
43628 CAGAAA-TT--AAA
63 CAGAAATTTAAAAA
43639 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGATTTTTGAAAAAACA
43704 GAAA-TT-AAAA
65 GAAATTTAAAAA
*
43714 AATACCTCAGCGTGACCCGAGGTTCAACTCACCTCTCGTACTATGAGTTGATTTTTGTAAAACAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGATTTTTG-AAAA-AA
43779 CAGAAA-TT--AAA
63 CAGAAATTTAAAAA
* *
43790 AATACCTCA----GACCCGAGGCTCAACTTACCTCTCATATTATGAGTTGATTTTTGAAAAAACA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGATTTTTGAAAAAACA
43851 GAAA-TT-AAAA
65 GAAATTTAAAAA
*
43861 AATACCTCAGCGTGACCCGAGGCGCAACTCACCTCTCGTACTATGAGTTGATTTTTGAAAAACAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGATTTTTG-AAAA-AA
43926 CAGAAA-TT--AAA
63 CAGAAATTTAAAAA
* * *
43937 AATACCTCAGTGTGTCCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAATA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGATTTTTGAAAAAACA
44002 GAAA-TTAAAAA
65 GAAATTTAAAAA
44013 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGATTTTTGAAAAACAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGATTTTTG-AAAA-AA
*
44078 TAGAAA-TT--AAA
63 CAGAAATTTAAAAA
*
44089 AATACCTCAGCGTGACTCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAA-A
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGATTTTTGAAAAAACA
***
44153 -AATAAAAAATAAA
65 GAA-ATTTAA-AAA
44166 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGGAAAAAAC
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGATTTTT-GAAAAAAC
*
44231 AGAAATTTTAAAA
64 AGAAATTTAAAAA
44244 AATA
1 AATA
44248 TTTCTTGAAA
Statistics
Matches: 1374, Mismatches: 110, Indels: 145
0.84 0.07 0.09
Matches are distributed among these distances:
70 10 0.01
71 16 0.01
72 42 0.03
73 14 0.01
74 67 0.05
75 143 0.10
76 316 0.23
77 149 0.11
78 322 0.23
79 146 0.11
80 11 0.01
81 2 0.00
85 7 0.01
86 6 0.00
87 62 0.05
88 61 0.04
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (76 bp):
AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATATGAGTTGATTTTTGAAAAAACAG
AAATTTAAAAA
Found at i:42975 original size:152 final size:150
Alignment explanation
Indices: 42613--44237 Score: 1671
Period size: 153 Copynumber: 10.5 Consensus size: 150
42603 AGAAATCAAG
* * * * *
42613 AATAGCTCAGCGTGCAACCCAAAGCTCAACTCACCTTTCG-AATTATGAGTTGATTTTTTG--GA
1 AATACCTCAGCGTG--ACCCGAGGCTCAACTCACCTCTCGTAA-TATGAGTTGA-TTTTTGAAAA
* * * * * *
42675 AAACAGAAATTGAAAAGAATACATCGGCATGCGATCCGAGGCTCCACTCACCTCTCGCAATATGA
62 AAACAGAAATT--AAA-AATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCG-TATATGA
**** * **
42740 GTTGATTTTTTTTTAGA-AGTAAAATTTGAAA
121 GTTGATTTTTGAAAAAACAG--AAATTAAAAA
* * * *
42771 AATACCTC-GAC-TGGACTCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTG-CAAAA
1 AATACCTCAG-CGT-GACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAAA
* * * * * *
42833 ATAGATATTTAAAATACCTCAGCATGCGACCCGAGGCTCAACTCATCTCTCGTA-ATAAGTTGAT
64 ACAGAAATTAAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGTATATGAGTTGAT
42897 TTTTG-AAAAACAGAAATTTAAAAGA
127 TTTTGAAAAAACAGAAA-TTAAAA-A
* * * * *
42922 AATACCTC-GTCATGTG-TCGGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTAAAAAA
1 AATACCTCAG-C--GTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAA
* * ** *
42984 AACAGAAATTAAAAAGAAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGT
63 AACAGAAATT---AA-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCG-TATATGAGT
*
43049 TGATTTTTTG-AAAAACATAAATTTAAAAGA
123 TGA-TTTTTGAAAAAACAGAAA-TTAAAA-A
* * ** *
43079 AATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAG
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA--TTTTT------G
* *
43144 AAAAAAAAAAGAAATTTAAAAGAAATACCTCAGCGTGACCCGATGCTCAACTCACCTCTCGTATT
58 -AAAAAAACAGAAA-TT--AA-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-T
43209 ATGAGTTGATTTTTGAAAAAAACAGAAATTAAAAAA
117 ATGAGTTGATTTTTG-AAAAAACAGAAATT-AAAAA
43245 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGT-A-ATGAGTTGATTTTTG--AAAAAC
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAAAAC
* * ** *
43306 AGAAATTTAAAAGAAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
66 AGAAA-TT--AA-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCG-TATATGAGTTGA
*
43371 TTTTTTG-AAAAACATAAATTTAAAAGA
126 -TTTTTGAAAAAACAGAAA-TTAAAA-A
* * ** *
43398 AATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAG
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA--TTTTT------G
* *
43463 AAAAAAAAAGAAATTTAAAAGAAATACCTCAGCGTGACCCGATGCTCAACTCACCTCTCGTATTA
58 AAAAAAACAGAAA-TT--AA-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-TA
43528 TGAGTTGATTTTTGAAAAAAACAGAAATTAAAAAA
118 TGAGTTGATTTTTG-AAAAAACAGAAATT-AAAAA
*
43563 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTG-AAAAAAA
43628 CAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTT
65 CAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGATTT
43693 TTGAAAAAACAGAAATT-AAAA
129 TTGAAAAAACAGAAATTAAAAA
* * *
43714 AATACCTCAGCGTGACCCGAGGTTCAACTCACCTCTCGTACTATGAGTTGATTTTTGTAAAACAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTG-AAAAAAA
* *
43779 CAGAAATTAAAAATACCTCA----GACCCGAGGCTCAACTTACCTCTCATATTATGAGTTGATTT
65 CAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGATTT
43840 TTGAAAAAACAGAAATT-AAAA
129 TTGAAAAAACAGAAATTAAAAA
* *
43861 AATACCTCAGCGTGACCCGAGGCGCAACTCACCTCTCGTACTATGAGTTGATTTTTGAAAAACAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAA-AA
* *
43926 CAGAAATTAAAAATACCTCAGTGTGTCCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTT
65 CAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGATTT
*
43991 TTGAAAAAATAGAAATTAAAAA
129 TTGAAAAAACAGAAATTAAAAA
*
44013 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGATTTTTGAAAAACAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAA-AA
* *
44078 TAGAAATTAAAAATACCTCAGCGTGACTCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTT
65 CAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGATTT
* **
44143 TTGAAAAAA-AAATAAAAAATAAA
129 TTGAAAAAACAGA-AATTAA-AAA
* *
44166 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGGAAAAAAC
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAAAAC
44231 AGAAATT
66 AGAAATT
44238 TTAAAAAATA
Statistics
Matches: 1290, Mismatches: 113, Indels: 134
0.84 0.07 0.09
Matches are distributed among these distances:
146 4 0.00
147 137 0.11
149 3 0.00
150 6 0.00
151 171 0.13
152 208 0.16
153 212 0.16
154 90 0.07
155 21 0.02
156 93 0.07
157 46 0.04
158 22 0.02
159 4 0.00
162 5 0.00
163 6 0.00
164 16 0.01
165 118 0.09
166 112 0.09
167 16 0.01
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (150 bp):
AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAAAAC
AGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATATGAGTTGATTTTT
GAAAAAACAGAAATTAAAAA
Found at i:43349 original size:319 final size:307
Alignment explanation
Indices: 42613--44247 Score: 1870
Period size: 319 Copynumber: 5.3 Consensus size: 307
42603 AGAAATCAAG
* * * * * *
42613 AATAGCTCAGCGTGCAACCCAAAGCTCAACTCACCTTTCGAATTATGAGTTGATTTTTTG-GAAA
1 AATACCTCAGCGTG--ACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGA-TTTTTGAAAAA
* * * *
42677 ACAGAAATTGAAAAGAATACATCGGCATGCGATCCGAGGCTCCACTCACCTCTCGCAATATGAGT
62 ACAGAAATTTAAAAAAATACCTCGGCATG-G-TCCGAGGCTCAACTCACCTCTCGCAATATGAGT
** * * * * *
42742 TGATTTTTTTTTAGAA-GTAAAATTT-GAAAAATACCTCGAC-TGGACTCGAGGCTCAACTCACC
125 TGA-TTTTTTGAAAAACAT-AAATTTAAAAAAATACCTCGGCATGG-CCCGAGGCTCAACTCACC
* * * * *
42804 TCTTGCAATATGAGTTGATTTTTG-CAAAAATAGATATTT-AAAATACCTCAGCATGCGACCCGA
187 TCTCGCAATATGAGTTGATTTTTGAAAAAAAAAGAAATTTAAAAATACCTCAGC--GTGACCCGA
* * *
42867 GGCTCAACTCATCTCTCGTA--ATAAGTTGATTTTTG--AAAAACAGAAATTTAAAAGA
250 GGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAACAGAAA-TTAAAAAA
* * * * **
42922 AATACCTC-GTCATGTG-TCGGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTAAAAAAA
1 AATACCTCAG-C--GTGACCCGAGGCTCAACTCACCTCTCG-TATATGAGTTGATTTTTGAAAAA
*
42985 ACAGAAATTAAAAAGAAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
62 ACAGAAATTTAAAA-AAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
43050 GATTTTTTGAAAAACATAAATTTAAAAGAAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCT
126 GATTTTTTGAAAAACATAAATTTAAAA-AAATACCTCGGCATGGCCCGAGGCTCAACTCACCTCT
43115 CGCAATATGAGTTGATTTTTTTGAAAAAGAAAAAAAAAAGAAATTTAAAAGAAATACCTCAGCGT
190 CGCAATATGAGTTGA--TTTTT------G-AAAAAAAAAGAAATTT--AA-AAATACCTCAGCGT
*
43180 GACCCGATGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAACAGAAATTAAAAAA
243 GACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAACAGAAATTAAAAAA
43245 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-ATGAGTTGATTTTTG-AAAAACAG
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATATGAGTTGATTTTTGAAAAAACAG
43308 AAATTTAAAAGAAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
66 AAATTTAAAA-AAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
43373 TTTTGAAAAACATAAATTTAAAAGAAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCA
130 TTTTGAAAAACATAAATTTAAAA-AAATACCTCGGCATGGCCCGAGGCTCAACTCACCTCTCGCA
43438 ATATGAGTTGATTTTTTTGAAAAAGAAAAAAAAAGAAATTTAAAAGAAATACCTCAGCGTGACCC
194 ATATGAGTTGA--TTTTT------GAAAAAAAAAGAAATTT--AA-AAATACCTCAGCGTGACCC
*
43503 GATGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAACAGAAATTAAAAAA
248 GAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAACAGAAATTAAAAAA
43563 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGATTTTTG--AAAAAA
* * ** * *
43628 CAGAAA-TT--AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA
63 CAGAAATTTAAAAAAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * * *
43690 -TTTTTGAAAAAACAGAAA-TT-AAAAAATACCTCAGCGTGACCCGAGGTTCAACTCACCTCTCG
128 TTTTTTG-AAAAACATAAATTTAAAAAAATACCTCGGCATGGCCCGAGGCTCAACTCACCTCTCG
* * * *
43752 TACTATGAGTTGATTTTTGTAAAACAACAGAAA-TTAAAAATACCTCA----GACCCGAGGCTCA
192 CAATATGAGTTGATTTTTG-AAAAAAAAAGAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCA
* *
43812 ACTTACCTCTCATATTATGAGTTGATTTTTG-AAAAAACAGAAATT--AAAA
256 ACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAACAGAAATTAAAAAA
*
43861 AATACCTCAGCGTGACCCGAGGCGCAACTCACCTCTCGTACTATGAGTTGATTTTTGAAAAACAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGATTTTTG-AAAA-AA
* * *
43926 CAGAAA-TT--AAAAATACCTCAG--TGTGTCCCGAGGCTCAACTCACCTCTCGTATTATGAGTT
63 CAGAAATTTAAAAAAATACCTCGGCATG-GT-CCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * *
43986 GA-TTTTTGAAAAA-ATAGAAATTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT
126 GATTTTTTGAAAAACATA-AATTTAAAAAAATACCTCGGCATGGCCCGAGGCTCAACTCACCTCT
* * * *
44049 CGTACTATGAGTTGATTTTTGAAAAACAATAGAAA-TTAAAAATACCTCAGCGTGACTCGAGGCT
190 CGCAATATGAGTTGATTTTTGAAAAA-AAAAGAAATTTAAAAATACCTCAGCGTGACCCGAGGCT
* *
44113 CAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAAATAAA--AAATAAA
254 CAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAACAGAAATTAAA-AAA
44166 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGGAAAAAAC
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA-TATGAGTTGATTTTT-GAAAAAAC
*
44231 AGAAATTTTAAAAAATA
64 AGAAATTTAAAAAAATA
44248 TTTCTTGAAA
Statistics
Matches: 1198, Mismatches: 72, Indels: 114
0.87 0.05 0.08
Matches are distributed among these distances:
296 4 0.00
297 12 0.01
298 129 0.11
299 81 0.07
300 14 0.01
301 41 0.03
303 41 0.03
304 19 0.02
305 73 0.06
306 18 0.02
307 49 0.04
308 92 0.08
309 37 0.03
310 5 0.00
311 3 0.00
314 5 0.00
316 46 0.04
317 3 0.00
318 160 0.13
319 218 0.18
320 55 0.05
321 5 0.00
322 49 0.04
323 27 0.02
324 12 0.01
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (307 bp):
AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATATGAGTTGATTTTTGAAAAAACAG
AAATTTAAAAAAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTGAAAAACATAAATTTAAAAAAATACCTCGGCATGGCCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTTGAAAAAAAAAGAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCA
CCTCTCGTATTATGAGTTGATTTTTGAAAAAAACAGAAATTAAAAAA
Found at i:43478 original size:87 final size:80
Alignment explanation
Indices: 42613--44237 Score: 1562
Period size: 76 Copynumber: 20.9 Consensus size: 80
42603 AGAAATCAAG
* * * * *
42613 AATAGCTCAGCGTGCAACCCAAAGCTCAACTCACCTTTCGAATTATGAGTTGATTTTTTG-G---
1 AATACCTCAGCGTG--ACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA-TTTTTGAGAAA
42674 AAAACAGAAATTGAAAAG-
63 AAAACAGAAATT-AAAAGA
* * * * * * * **** *
42692 AATACATCGGCATGCGATCCGAGGCTCCACTCACCTCTCGCAATATGAGTTGATTTTT-TTTTAG
1 AATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAGAAAA
** **
42756 AAGTA-AAATTTGAA-A
64 AAACAGAAATTAAAAGA
* * * * *
42771 AATACCTC-GAC-TGGACTCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT--G-CAA
1 AATACCTCAG-CGT-GACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAGAAAA
* * *
42831 AAATAGATATT--TA-A
64 AAACAGAAATTAAAAGA
* * *
42845 AATACCTCAGCATGCGACCCGAGGCTCAACTCATCTCTCGTA--ATAAGTTGATTTTT--G--AA
1 AATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAGAAAA
42904 AAACAGAAATTTAAAAGA
64 AAACAGAAA-TTAAAAGA
* * * * *
42922 AATACCTC-GTCATGTG-TCGGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTT-A-AAA
1 AATACCTCAG-C--GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAGAAA
42982 AAAACAGAAATTAAAAAGA
63 AAAACAGAAATT-AAAAGA
* * ** * * *
43001 AATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TG--AAAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAGAAAAAA
*
43063 ACATAAATTTAAAAGA
66 ACAGAAA-TTAAAAGA
* * ** * *
43079 AATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAG
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA--TTTTTG----AG
*
43144 AAAAAAAAAAGAAATTTAAAAGA
60 -AAAAAAACAGAAA-TTAAAAGA
*
43167 AATACCTCAGCGTGACCCGATGCTCAACTCACCTCTCGTATTATGAGTTGATTTTT--GAAAAAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAGAAAAAA
*
43230 ACAGAAATTAAAAAA
66 ACAGAAATTAAAAGA
43245 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTA--ATGAGTTGATTTTT--G--AAAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAGAAAAAA
43304 ACAGAAATTTAAAAGA
66 ACAGAAA-TTAAAAGA
* * ** * * *
43320 AATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TG--AAAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAGAAAAAA
*
43382 ACATAAATTTAAAAGA
66 ACAGAAA-TTAAAAGA
* * ** * *
43398 AATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAG
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA--TTTTTG----AG
*
43463 AAAAAAAAAGAAATTTAAAAGA
60 AAAAAAACAGAAA-TTAAAAGA
*
43485 AATACCTCAGCGTGACCCGATGCTCAACTCACCTCTCGTATTATGAGTTGATTTTT--GAAAAAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAGAAAAAA
*
43548 ACAGAAATTAAAAAA
66 ACAGAAATTAAAAGA
43563 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGA-AAAAAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAGAAAAAA
43627 ACAGAAATT--AA-A
66 ACAGAAATTAAAAGA
43639 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTT--G-AAAAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAGAAAAAA
43701 ACAGAAATT-AAA-A
66 ACAGAAATTAAAAGA
* * * *
43714 AATACCTCAGCGTGACCCGAGGTTCAACTCACCTCTCGTACTATGAGTTGATTTTTG-TAAAACA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAGAAAAAA
43778 ACAGAAATT--AA-A
66 ACAGAAATTAAAAGA
* *
43790 AATACCTCA----GACCCGAGGCTCAACTTACCTCTCATATTATGAGTTGATTTTT--G-AAAAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAGAAAAAA
43848 ACAGAAATT-AAA-A
66 ACAGAAATTAAAAGA
* * *
43861 AATACCTCAGCGTGACCCGAGGCGCAACTCACCTCTCGTACTATGAGTTGATTTTTGA-AAAACA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAGAAAAAA
43925 ACAGAAATT--AA-A
66 ACAGAAATTAAAAGA
* *
43937 AATACCTCAGTGTGTCCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTT--G-AAAAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAGAAAAAA
*
43999 ATAGAAATTAAAA-A
66 ACAGAAATTAAAAGA
* *
44013 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGATTTTTGA-AAAACA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAGAAAAAA
*
44077 ATAGAAATT--AA-A
66 ACAGAAATTAAAAGA
*
44089 AATACCTCAGCGTGACTCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGA-AAAAAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAGAAAAAA
* *
44153 A-ATAAA--AAATAAA
66 ACAGAAATTAAA-AGA
44166 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTG-G-AAAAA
1 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAGAAAAAA
44229 ACAGAAATT
66 ACAGAAATT
44238 TTAAAAAATA
Statistics
Matches: 1351, Mismatches: 114, Indels: 162
0.83 0.07 0.10
Matches are distributed among these distances:
70 13 0.01
71 12 0.01
72 39 0.03
73 9 0.01
74 64 0.05
75 149 0.11
76 317 0.23
77 162 0.12
78 308 0.23
79 120 0.09
80 17 0.01
81 5 0.00
85 7 0.01
86 5 0.00
87 62 0.05
88 62 0.05
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (80 bp):
AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAGAAAAAA
ACAGAAATTAAAAGA
Found at i:43882 original size:147 final size:148
Alignment explanation
Indices: 43484--44237 Score: 1170
Period size: 147 Copynumber: 5.0 Consensus size: 148
43474 AATTTAAAAG
*
43484 AAATACCTCAGCGTGACCCGATGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAA
1 AAATACCTCA--G-GACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTG-AAAAAA
*
43549 CAGAAATTAAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA
62 CAGAAATT--AAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGA
*
43614 TTTTTGAAAAAAAACAGAAATTAA
125 TTTTTGAAAAACAACAGAAATTAA
43638 AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAC
1 AAATACCTCA--G-GACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAC
*
43703 AGAAATTAAAAAATACCTCAGCGTGACCCGAGGTTCAACTCACCTCTCGTACTATGAGTTGATTT
63 AGAAATTAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGATTT
*
43768 TTGTAAAACAACAGAAATTAA
128 TTGAAAAACAACAGAAATTAA
* *
43789 AAATACCTCA-GACCCGAGGCTCAACTTACCTCTCATATTATGAGTTGATTTTTGAAAAAACAGA
1 AAATACCTCAGGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACAGA
*
43853 AATTAAAAAATACCTCAGCGTGACCCGAGGCGCAACTCACCTCTCGTACTATGAGTTGATTTTTG
66 AATTAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGATTTTTG
43918 AAAAACAACAGAAATTAA
131 AAAAACAACAGAAATTAA
* *
43936 AAATACCTCAGTGTGTCCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAT
1 AAATACCTCA--G-GACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAC
44001 AGAAATTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGATT
63 AGAAATT-AAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGATT
*
44066 TTTGAAAAACAATAGAAATTAA
127 TTTGAAAAACAACAGAAATTAA
*
44088 AAATACCTCAGCGTGACTCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAA
1 AAATACCTCA--G-GACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTG-AAAAAA
* * ** *
44153 AATAAAAAATAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGAT
62 CAGAAATTA-AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGAT
*
44218 TTTTGGAAAA-AACAGAAATT
126 TTTTGAAAAACAACAGAAATT
44238 TTAAAAAATA
Statistics
Matches: 567, Mismatches: 26, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
147 142 0.25
151 139 0.25
152 142 0.25
153 87 0.15
154 57 0.10
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (148 bp):
AAATACCTCAGGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACAGA
AATTAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGATTTTTG
AAAAACAACAGAAATTAA
Found at i:55722 original size:33 final size:34
Alignment explanation
Indices: 55676--55741 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
55666 TCAAAAAACG
* * * *
55676 AATT-TTTTTTTAAAACACGAAGATTTTTGAAAT
1 AATTATTTTTTAAAAAAACGAAAATTTATGAAAT
55709 AATTATTTTTTAAAAAAACGAAAATTTATGAAA
1 AATTATTTTTTAAAAAAACGAAAATTTATGAAA
55742 CACGAGATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.41
Consensus pattern (34 bp):
AATTATTTTTTAAAAAAACGAAAATTTATGAAAT
Found at i:55772 original size:18 final size:18
Alignment explanation
Indices: 55715--56241 Score: 283
Period size: 18 Copynumber: 29.4 Consensus size: 18
55705 AAATAATTAT
* *
55715 TTTTTAAAAAAACGAAAA
1 TTTTTGAAAACACGAAAA
* **
55733 TTTATG-AAACACGAGATT
1 TTTTTGAAAACACGA-AAA
55751 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
55769 -TTTTCAACACACTG-GAA
1 TTTTTGAAAACAC-GAAAA
* **
55786 TTTTTGAAAACATGAGGA
1 TTTTTGAAAACACGAAAA
55804 TTTTTGAAATACA--AAAA
1 TTTTTGAAA-ACACGAAAA
* *
55821 ATTTTGAAACCACGAAAA
1 TTTTTGAAAACACGAAAA
*
55839 TTTTTGAAAACACGGAAA
1 TTTTTGAAAACACGAAAA
* *
55857 TTTTT-AAAACACGGGAAT
1 TTTTTGAAAACAC-GAAAA
*
55875 TTTTTG-AAACACCG-GAA
1 TTTTTGAAAACA-CGAAAA
55892 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
55910 TTTTTG-AAATACGAAAA
1 TTTTTGAAAACACGAAAA
* *
55927 TTTTAG-AAACACAAAAA
1 TTTTTGAAAACACGAAAA
* *
55944 TTTTT-AAAAGACGACAAT
1 TTTTTGAAAACACGA-AAA
*
55962 TTTTTG-AAACACGAGAATT
1 TTTTTGAAAACACGA-AA-A
* **
55981 TTTTTTAAAACATAAAAA
1 TTTTTGAAAACACGAAAA
**
55999 AATTT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
56016 TTTGTG-AAACACGAGAA
1 TTTTTGAAAACACGAAAA
* * * *
56033 TTGTTCAAAATACAAAAAA
1 TTTTTGAAAACAC-GAAAA
*
56052 TTTTTGAATACACGAAAA
1 TTTTTGAAAACACGAAAA
56070 TTTTTG-AAACAC--AAA
1 TTTTTGAAAACACGAAAA
* * *
56085 TTTTAG-AAACATGGAAA
1 TTTTTGAAAACACGAAAA
56102 TTTTTAGAAAACACGGAAAA
1 TTTTT-GAAAACAC-GAAAA
* *
56122 -TTTTGAAAA-ATG-GAA
1 TTTTTGAAAACACGAAAA
*
56137 TCTTTTGAAAACACGAATAT
1 T-TTTTGAAAACACGAA-AA
56157 TTTTTG-AAACACGAGAAAAA
1 TTTTTGAAAACAC--G-AAAA
**
56177 TTATTTTGAAGCCACGAAAA
1 -T-TTTTGAAAACACGAAAA
* *
56197 -TTTCG-AAACACGGAAATT
1 TTTTTGAAAACAC-GAAA-A
*
56215 TTTTGTGAAAACACGAAAT
1 TTTT-TGAAAACACGAAAA
56234 TTTTTGAA
1 TTTTTGAA
56242 TATTTACAAT
Statistics
Matches: 389, Mismatches: 78, Indels: 84
0.71 0.14 0.15
Matches are distributed among these distances:
15 15 0.04
16 7 0.02
17 135 0.35
18 136 0.35
19 54 0.14
20 23 0.06
21 10 0.03
22 5 0.01
23 4 0.01
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:56065 original size:54 final size:51
Alignment explanation
Indices: 55682--56129 Score: 242
Period size: 53 Copynumber: 8.5 Consensus size: 51
55672 AACGAATTTT
* * * * * *
55682 TTTTTAAAACACGAAGATTTTTGAAATA--ATTATTTTTTAAAAAAACGAAAA
1 TTTTTAAAACACGAAAATTTTTGAAACACGA-GA-ATTTTAAAAACACAAAAA
* * ** * * * ***
55733 TTTATGAAACACGAGATTTTTTTGAAAACACGAAAATTTTCAACACACTGGAA
1 TTTTTAAAACACGA-AAATTTTTG-AAACACGAGAATTTTAAAAACACAAAAA
* ** * * * * * *
55786 TTTTTGAAAACATGAGGATTTTTGAAATACAAAAAATTTTGAAACCACGAAAA
1 TTTTT-AAAACACGAAAATTTTTGAAACAC-GAGAATTTTAAAAACACAAAAA
* * * ** ***
55839 TTTTTGAAAACACGGAAATTTTTAAAACACGGGAATTTTTTGAAACACCGGAA
1 TTTTT-AAAACACGAAAATTTTTGAAACACGAGAA-TTTTAAAAACACAAAAA
* * *
55892 TTTTTGAAAACACGAAAATTTTTGAAATACGAAAATTTTAGAAACACAAAAA
1 TTTTT-AAAACACGAAAATTTTTGAAACACGAGAATTTTAAAAACACAAAAA
* * * *
55944 TTTTTAAAAGACGACAATTTTTTGAAACACGAGAATTTTTTTTAAAACATAAAAA
1 TTTTTAAAACACGA-AAATTTTTGAAACACGAGAA---TTTTAAAAACACAAAAA
** *
55999 AATTTAAAACACGAAAATTTGTGAAACACGAGAATTGTTCAAAATACA-AAAAA
1 TTTTTAAAACACGAAAATTTTTGAAACACGAGAATT-TT-AAAA-ACACAAAAA
* * ***
56052 TTTTTGAATACACGAAAATTTTTGAAACAC-A-AATTTTAGAAACATGGAAA
1 TTTTT-AAAACACGAAAATTTTTGAAACACGAGAATTTTAAAAACACAAAAA
56102 TTTTTAGAAAACACGGAAAA-TTTTGAAA
1 TTTTT--AAAACAC-GAAAATTTTTGAAA
56130 AATGGAATCT
Statistics
Matches: 307, Mismatches: 72, Indels: 36
0.74 0.17 0.09
Matches are distributed among these distances:
49 3 0.01
50 11 0.04
51 39 0.13
52 60 0.20
53 117 0.38
54 51 0.17
55 26 0.08
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (51 bp):
TTTTTAAAACACGAAAATTTTTGAAACACGAGAATTTTAAAAACACAAAAA
Found at i:56087 original size:15 final size:16
Alignment explanation
Indices: 55803--56095 Score: 120
Period size: 17 Copynumber: 16.8 Consensus size: 16
55793 AAACATGAGG
*
55803 ATTTTTGAAATACAAAA
1 ATTTTTGAAACAC-AAA
*
55820 AATTTTGAAACCACGAAA
1 ATTTTTGAAA-CAC-AAA
*
55838 ATTTTTGAAAACACGGAA
1 ATTTTTG-AAACAC-AAA
* *
55856 ATTTTTAAAACACGGGAA
1 ATTTTTGAAACAC--AAA
* **
55874 TTTTTTGAAACACCGGA
1 ATTTTTGAAACA-CAAA
55891 ATTTTTGAAAACACGAAA
1 ATTTTTG-AAACAC-AAA
*
55909 ATTTTTGAAATACGAAA
1 ATTTTTGAAACAC-AAA
*
55926 ATTTTAGAAACACAAAA
1 ATTTTTGAAACAC-AAA
* *
55943 ATTTTTAAAAGACGACAA
1 ATTTTTGAAACAC-A-AA
*
55961 TTTTTTGAAACACGAGAA
1 ATTTTTGAAACAC-A-AA
* * *
55979 TTTTTTTTAAAACATAAAA
1 --ATTTTTGAAACA-CAAA
** *
55998 AAATTTAAAACACGAAA
1 ATTTTTGAAACAC-AAA
* *
56015 ATTTGTGAAACACGAGA
1 ATTTTTGAAACAC-AAA
** *
56032 ATTGTTCAAAATACAAAAA
1 ATT-TT-TGAA-ACACAAA
56051 ATTTTTGAATACACGAAA
1 ATTTTTGAA-ACAC-AAA
56069 ATTTTTGAAACAC-AA
1 ATTTTTGAAACACAAA
*
56084 ATTTTAGAAACA
1 ATTTTTGAAACA
56096 TGGAAATTTT
Statistics
Matches: 217, Mismatches: 44, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
15 13 0.06
17 95 0.44
18 81 0.37
19 13 0.06
20 15 0.07
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (16 bp):
ATTTTTGAAACACAAA
Found at i:56602 original size:22 final size:22
Alignment explanation
Indices: 56566--56671 Score: 110
Period size: 22 Copynumber: 4.8 Consensus size: 22
56556 ATTGAACCAC
56566 TTTTTTTTTCTTTTTCTCTT-TT
1 TTTTTTTTTCTTTTT-TCTTCTT
*
56588 TTCTTTTTTTCTTTTTTCTTCTA
1 TT-TTTTTTTCTTTTTTCTTCTT
* *
56611 TTTTCTTCTCTTTTTTCTTC-T
1 TTTTTTTTTCTTTTTTCTTCTT
*
56632 TTTTTTTTCCTTTTTTCTTCATT
1 TTTTTTTTTCTTTTTTCTTC-TT
* *
56655 TTCTCTTTT-TTTTTTCT
1 TTTTTTTTTCTTTTTTCT
56672 GCTGGGCTGC
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
21 17 0.24
22 30 0.43
23 23 0.33
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTTTTTCTTTTTTCTTCTT
Found at i:56605 original size:30 final size:29
Alignment explanation
Indices: 56569--56671 Score: 104
Period size: 30 Copynumber: 3.4 Consensus size: 29
56559 GAACCACTTT
56569 TTTTTTCTTTTTCTCTTTTTTCTTTTTTTC
1 TTTTTT-TTTTTCTCTTTTTTCTTTTTTTC
* *
56599 --TTTTTTCTTCTATTTTCTTCTCTTTTTTC
1 TTTTTTTTTTTCTCTTTT-TTCT-TTTTTTC
*
56628 TTCTTTTTTTTTC-CTTTTTTCTTCATTTTC
1 TT-TTTTTTTTTCTCTTTTTTCTT-TTTTTC
56658 TCTTTTTTTTTTCT
1 T-TTTTTTTTTTCT
56672 GCTGGGCTGC
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
27 10 0.17
28 8 0.13
29 8 0.13
30 20 0.33
31 5 0.08
32 9 0.15
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (29 bp):
TTTTTTTTTTTCTCTTTTTTCTTTTTTTC
Found at i:56651 original size:43 final size:42
Alignment explanation
Indices: 56574--56671 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 42
56564 ACTTTTTTTT
* *
56574 TCTTTTTCTCTTTTTTCTTTTTTTCTTTTTTCTTCTATTTTCTTC
1 TCTTTTT-TCTTCTTTCTTTTTTCCTTTTTTCTTC-ATTTTC-TC
56619 TCTTTTTTCTTCTTT-TTTTTTCCTTTTTTCTTCATTTTCTC
1 TCTTTTTTCTTCTTTCTTTTTTCCTTTTTTCTTCATTTTCTC
*
56660 T-TTTTTTTTTCT
1 TCTTTTTTCTTCT
56672 GCTGGGCTGC
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
40 10 0.20
41 3 0.06
42 6 0.12
43 17 0.34
44 7 0.14
45 7 0.14
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (42 bp):
TCTTTTTTCTTCTTTCTTTTTTCCTTTTTTCTTCATTTTCTC
Found at i:57029 original size:16 final size:16
Alignment explanation
Indices: 57005--57053 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
56995 TCCTTTCTTC
*
57005 CTCTTCTTTCTCTTTT
1 CTCTCCTTTCTCTTTT
57021 CTCTCCTTTCTCTTTT
1 CTCTCCTTTCTCTTTT
*
57037 CTCTCCTATTTTCTTTT
1 CTCTCCT-TTCTCTTTT
57054 TTTTTTTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 22 0.73
17 8 0.27
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (16 bp):
CTCTCCTTTCTCTTTT
Found at i:57410 original size:29 final size:28
Alignment explanation
Indices: 57260--57418 Score: 111
Period size: 30 Copynumber: 5.4 Consensus size: 28
57250 CAAAACCTCT
* * *
57260 GGGGCCAAAACATAATTTCGAGAAAACTTA
1 GGGGTCAAAATATAATTTC-A-AAAATTTA
* *
57290 GGGGTCATAATGTAATTTCAAAACATTTA
1 GGGGTCAAAATATAATTTCAAAA-ATTTA
** * * *
57319 TAGGTTAAAATCTATTTTCAAAATATTTTA
1 GGGGTCAAAATATAATTTCAAAA-A-TTTA
* ** *
57349 GAGGTTTAAATATAATTTTAGAAAAATTTA
1 GGGGTCAAAATATAA-TTT-CAAAAATTTA
57379 GGGGTCAAAATATAATTTCAAAAAGTTTA
1 GGGGTCAAAATATAATTTCAAAAA-TTTA
*
57408 GGGGCCAAAAT
1 GGGGTCAAAAT
57419 GGAATTTTTT
Statistics
Matches: 102, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
28 8 0.08
29 40 0.39
30 46 0.45
31 4 0.04
32 4 0.04
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (28 bp):
GGGGTCAAAATATAATTTCAAAAATTTA
Found at i:57424 original size:29 final size:28
Alignment explanation
Indices: 57370--57425 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
57360 ATAATTTTAG
* *
57370 AAAAATTTAGGGGTCAAAATATAATTTC
1 AAAAATTTAGGGGCCAAAATAGAATTTC
*
57398 AAAAAGTTTAGGGGCCAAAATGGAATTT
1 AAAAA-TTTAGGGGCCAAAATAGAATTT
57426 TTTTATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.29
Consensus pattern (28 bp):
AAAAATTTAGGGGCCAAAATAGAATTTC
Found at i:78097 original size:18 final size:19
Alignment explanation
Indices: 78062--78109 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
78052 TTATTATAAC
78062 TATT-TATATATATCATCT
1 TATTATATATATATCATCT
*
78080 TATTATATATTTAT-ATCT
1 TATTATATATATATCATCT
78098 TATTATATATAT
1 TATTATATATAT
78110 CTATATATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTATATATATATCATCT
Found at i:81713 original size:10 final size:9
Alignment explanation
Indices: 81699--81772 Score: 116
Period size: 9 Copynumber: 8.3 Consensus size: 9
81689 TCGGGCTCAA
81699 AAAAAAATC
1 AAAAAAATC
81708 AAAAAAATC
1 AAAAAAATC
81717 AAAAAAATC
1 AAAAAAATC
*
81726 AAAAAAATG
1 AAAAAAATC
81735 AAAAAAATC
1 AAAAAAATC
81744 AAAAAAAATC
1 -AAAAAAATC
81754 --AAAAATC
1 AAAAAAATC
81761 AAAAAAATC
1 AAAAAAATC
81770 AAA
1 AAA
81773 GTCAAAATAG
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
7 7 0.12
9 44 0.73
10 9 0.15
ACGTcount: A:0.78, C:0.09, G:0.01, T:0.11
Consensus pattern (9 bp):
AAAAAAATC
Found at i:81794 original size:6 final size:6
Alignment explanation
Indices: 81785--81838 Score: 83
Period size: 6 Copynumber: 9.0 Consensus size: 6
81775 CAAAATAGGA
*
81785 AAAAAG AAAAAG AAAAA- AAGAAG AAAAAG AAAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG
81833 AAAAAG
1 AAAAAG
81839 GAGAGGTCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 4 0.09
6 34 0.77
7 6 0.14
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:82658 original size:16 final size:18
Alignment explanation
Indices: 82636--82682 Score: 80
Period size: 16 Copynumber: 2.7 Consensus size: 18
82626 GAGTCAAGAA
82636 AAAAATGAAAAAAAA-TG
1 AAAAATGAAAAAAAATTG
82653 -AAAATGAAAAAAAATTG
1 AAAAATGAAAAAAAATTG
82670 AAAAATGAAAAAA
1 AAAAATGAAAAAA
82683 TAAAAAAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.50
17 2 0.07
18 12 0.43
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.13
Consensus pattern (18 bp):
AAAAATGAAAAAAAATTG
Found at i:82664 original size:18 final size:18
Alignment explanation
Indices: 82636--82682 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
82626 GAGTCAAGAA
82636 AAAAATG-AAAAAAAATG
1 AAAAATGAAAAAAAAATG
*
82653 -AAAATGAAAAAAAATTG
1 AAAAATGAAAAAAAAATG
82670 AAAAATGAAAAAA
1 AAAAATGAAAAAA
82683 TAAAAAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 6 0.22
17 9 0.33
18 12 0.44
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.13
Consensus pattern (18 bp):
AAAAATGAAAAAAAAATG
Found at i:82683 original size:16 final size:17
Alignment explanation
Indices: 82636--82682 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
82626 GAGTCAAGAA
*
82636 AAAAATGAAAAAAAATG
1 AAAAATGAAAAAAATTG
82653 -AAAATGAAAAAAAATTG
1 AAAAATG-AAAAAAATTG
82670 AAAAATGAAAAAA
1 AAAAATGAAAAAA
82683 TAAAAAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 6 0.22
17 15 0.56
18 6 0.22
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.13
Consensus pattern (17 bp):
AAAAATGAAAAAAATTG
Found at i:82696 original size:16 final size:16
Alignment explanation
Indices: 82644--82696 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
82634 AAAAAAATGA
* *
82644 AAAAAAATGAAAATGA
1 AAAAAAATGAAAAAGT
82660 AAAAAAATTGAAAAA-T
1 AAAAAAA-TGAAAAAGT
* *
82676 GAAAAAATAAAAAAGT
1 AAAAAAATGAAAAAGT
82692 AAAAA
1 AAAAA
82697 TGGAGAGGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 6 0.20
16 18 0.60
17 6 0.20
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.13
Consensus pattern (16 bp):
AAAAAAATGAAAAAGT
Found at i:82808 original size:21 final size:21
Alignment explanation
Indices: 82782--82826 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
82772 CTAAATATTA
82782 ATCAGAATGGGGCATGAAGTG
1 ATCAGAATGGGGCATGAAGTG
* *
82803 ATCAGATTGGGGCATGCAGTG
1 ATCAGAATGGGGCATGAAGTG
82824 ATC
1 ATC
82827 TTGCTATACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.29, C:0.13, G:0.36, T:0.22
Consensus pattern (21 bp):
ATCAGAATGGGGCATGAAGTG
Found at i:84800 original size:88 final size:88
Alignment explanation
Indices: 83879--84791 Score: 1477
Period size: 88 Copynumber: 10.4 Consensus size: 88
83869 AATGAAGTTG
83879 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
*
83944 GAGATGGAGCTGGTTGAAGACAA
66 GTGATGGAGCTGGTTGAAGACAA
* * *
83967 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGCCACCAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
84032 GTGATGGAGCTGGTTGAAGACAA
66 GTGATGGAGCTGGTTGAAGACAA
* * *
84055 AAGATATTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
84120 GTGATGGAGCTGGTTGAAGACAA
66 GTGATGGAGCTGGTTGAAGACAA
*
84143 AAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
*
84208 GTGATAGAGCTGGTTGAAGACAA
66 GTGATGGAGCTGGTTGAAGACAA
**
84231 CAGATCTTGCCTTCCTATATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
*
84296 ATGATGGAGCTGGTTGAAGACAA
66 GTGATGGAGCTGGTTGAAGACAA
84319 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
* *
84384 ATGATGGAGCTGGTTGAAGAGAA
66 GTGATGGAGCTGGTTGAAGACAA
*
84407 TAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
84472 GTGATGGAGCTGGTTGAAGACAA
66 GTGATGGAGCTGGTTGAAGACAA
* * * *
84495 AAGTTCTTACCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
84560 GTGATGGAGCTGGTTGAAGACAA
66 GTGATGGAGCTGGTTGAAGACAA
84583 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
* * *
84648 ATGATGGAGCTGGTTAAAGATAA
66 GTGATGGAGCTGGTTGAAGACAA
* * * * * *
84671 CAGATCTTGTCTTCCTGCATTGATAGTGAAGCAGATCGAAGACACAAACCTTGCCTCCCTTGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
* * ** * * *
84736 GT-AGGGGAGCAGGTAAAAAATAG
66 GTGA-TGGAGCTGGTTGAAGACAA
* *
84759 CAGATCTTGCCTTCCTGTATTGACAGCGGAGCA
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCA
84792 AACTGAAGAT
Statistics
Matches: 772, Mismatches: 52, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
87 1 0.00
88 771 1.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.25
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
GTGATGGAGCTGGTTGAAGACAA
Found at i:84975 original size:133 final size:132
Alignment explanation
Indices: 84829--85084 Score: 345
Period size: 132 Copynumber: 1.9 Consensus size: 132
84819 TAAGCAGTAA
* * * *
84829 TGGAATAGGTTGAAGATT-TCAGATCATGTCTCCCTAAGCAGTAGTGGAGCAAATCGAGTAATGG
1 TGGAATAGATTGAAGATTAT-AGATCATATCTCCCTAAGCAGTAGTGGAGCAAATCGAAT-ATGA
** * * *
84893 C-AGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAATCCAGTAATTTTATCTCCCTTGTG
64 CGA-ATTTTACCTCCCTAAGATTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCTTGTG
84957 GGCAG
128 GGCAG
* * *
84962 TGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAATATGACG
1 TGGAATAGATTGAAGATTATAGATCATATCTCCCTAAGCAGTAGTGGAGCAAATCGAATATGACG
* *
85027 AATTTTACCTCCCTAAGGTTACAATGGAGTACTTTGAAGCCAGTAATTCTATCTCCCT
66 AATTTTACCTCCCTAAGATTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
85085 GACGTTGCGG
Statistics
Matches: 107, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
132 54 0.50
133 52 0.49
134 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (132 bp):
TGGAATAGATTGAAGATTATAGATCATATCTCCCTAAGCAGTAGTGGAGCAAATCGAATATGACG
AATTTTACCTCCCTAAGATTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCTTGTGGGC
AG
Found at i:86805 original size:18 final size:18
Alignment explanation
Indices: 86784--86832 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
86774 TTATTATAAC
86784 TATTTATATATATCATCT
1 TATTTATATATATCATCT
*
86802 TATTATATATTTAT-ATCT
1 TATT-TATATATATCATCT
86820 TA-TTATATATATC
1 TATTTATATATATC
86833 TATATATCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.30
17 1 0.04
18 10 0.37
19 8 0.30
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTTATATATATCATCT
Found at i:89825 original size:18 final size:18
Alignment explanation
Indices: 89796--89886 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
89786 TACGACCGTT
*
89796 TACGGTACTATTCACGTA
1 TACGGCACTATTCACGTA
*
89814 TACAGCACTATTCACGTA
1 TACGGCACTATTCACGTA
*
89832 TACGGTACTATTCACGTA
1 TACGGCACTATTCACGTA
89850 TACGGCACTATTCAC--A
1 TACGGCACTATTCACGTA
* *
89866 TACGGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
89884 TAC
1 TAC
89887 AGTAGTTGGG
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
16 14 0.22
18 50 0.78
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:89843 original size:36 final size:34
Alignment explanation
Indices: 89796--89888 Score: 150
Period size: 36 Copynumber: 2.7 Consensus size: 34
89786 TACGACCGTT
89796 TACGGTACTATTCACGTATACAGCACTATTCACGTA
1 TACGGTACTATTCACGTATACAGCACTATTCAC--A
*
89832 TACGGTACTATTCACGTATACGGCACTATTCACA
1 TACGGTACTATTCACGTATACAGCACTATTCACA
*
89866 TACGGTACTGTTCACGTATACAG
1 TACGGTACTATTCACGTATACAG
89889 TAGTTGGGAT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
34 22 0.41
36 32 0.59
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (34 bp):
TACGGTACTATTCACGTATACAGCACTATTCACA
Found at i:106970 original size:17 final size:17
Alignment explanation
Indices: 106948--107034 Score: 120
Period size: 18 Copynumber: 5.0 Consensus size: 17
106938 CCCAACTACT
*
106948 GTATACGTGAACAGTAC
1 GTATACGTGAATAGTAC
*
106965 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGT-AC
106983 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
* *
107000 GTATATGTGAATAGTGCC
1 GTATACGTGAATAGT-AC
107018 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
107035 CGTAAACGGT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
17 30 0.49
18 31 0.51
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (17 bp):
GTATACGTGAATAGTAC
Found at i:106999 original size:35 final size:35
Alignment explanation
Indices: 106948--107034 Score: 156
Period size: 35 Copynumber: 2.5 Consensus size: 35
106938 CCCAACTACT
*
106948 GTATACGTGAACAGTACGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACGTATACGTGAATAGTGCC
*
106983 GTATACGTGAATAGTACGTATATGTGAATAGTGCC
1 GTATACGTGAATAGTACGTATACGTGAATAGTGCC
107018 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
107035 CGTAAACGGT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (35 bp):
GTATACGTGAATAGTACGTATACGTGAATAGTGCC
Found at i:116197 original size:45 final size:46
Alignment explanation
Indices: 116117--116408 Score: 459
Period size: 46 Copynumber: 6.5 Consensus size: 46
116107 TATGTATGAT
* * *
116117 CACTTATCAC-TTGTC-CCTGATCAGATAAGTATAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
116160 CACTTATCACTTTGTCACTTGATCAGATAACTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
116205 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
116251 TACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
116296 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
116342 CACTTATCACTTTGTCACTGGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
116388 CACTTATCACTTTATCACTTG
1 CACTTATCACTTTGTCACTTG
116409 TCACTGATTA
Statistics
Matches: 231, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
43 10 0.04
44 5 0.02
45 104 0.45
46 112 0.48
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:116264 original size:91 final size:91
Alignment explanation
Indices: 116117--116408 Score: 466
Period size: 91 Copynumber: 3.2 Consensus size: 91
116107 TATGTATGAT
* *
116117 CACTTATCAC-TTGTC-CCTGATCAGATAAGTA-TAGCT-AGGCTACCACTTATCACTTTGTCAC
1 CACTTATCACTTTGTCACTTGATCAGATAAG-AGTAGCTAAAGCTACCACTTATCACTTTGTCAC
*
116178 TTGATCAGATAACTGTAGCTAGGCTAC
65 TTGATCAGATAAGTGTAGCTAGGCTAC
*
116205 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAAGCTACTACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAAGCTACCACTTATCACTTTGTCACT
116270 TGATCAGATAAGTGTAGCTAGGCTAC
66 TGATCAGATAAGTGTAGCTAGGCTAC
*
116296 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAAGCTACCACTTATCACTTTGTCACT
* *
116361 GGATCAGATAAGTGTAGCTAAAGCTAC
66 TGATCAGATAAGTGTAGCT-AGGCTAC
*
116388 CACTTATCACTTTATCACTTG
1 CACTTATCACTTTGTCACTTG
116409 TCACTGATTA
Statistics
Matches: 190, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
88 10 0.05
89 6 0.03
90 18 0.09
91 130 0.68
92 26 0.14
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (91 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTGTAGCTAGGCTAC
Found at i:118471 original size:21 final size:21
Alignment explanation
Indices: 118447--118488 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
118437 CTTTTTGTTC
*
118447 AATTAATTATCGAAACTTTAA
1 AATTAATTAACGAAACTTTAA
**
118468 AATTTCTTAACGAAACTTTAA
1 AATTAATTAACGAAACTTTAA
118489 TACTAACTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (21 bp):
AATTAATTAACGAAACTTTAA
Found at i:119104 original size:9 final size:9
Alignment explanation
Indices: 119092--119118 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
119082 TTATATGTAC
119092 ATAATTATT
1 ATAATTATT
119101 ATAATTATT
1 ATAATTATT
119110 ATAATTATT
1 ATAATTATT
119119 TATTCAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATAATTATT
Found at i:119469 original size:15 final size:17
Alignment explanation
Indices: 119451--119482 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
119441 CAGAATAGAA
119451 AGAA-CAAA-GAAACAG
1 AGAAGCAAACGAAACAG
119466 AGAAGCAAACGAAACAG
1 AGAAGCAAACGAAACAG
119483 GGGAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.62, C:0.16, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAGCAAACGAAACAG
Found at i:120133 original size:45 final size:45
Alignment explanation
Indices: 120060--120209 Score: 194
Period size: 45 Copynumber: 3.3 Consensus size: 45
120050 ATGTGCCGAC
* *
120060 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGACTCGGCACTTTGTGTGTCGAATACTGT
* * *
120105 TACTATTATTGTTATC-GACTCGGCACTTTGTGTGTCAAATACTGT
1 TACTGTTACTGTTA-CAGACTCGGCACTTTGTGTGTCGAATACTGT
* ** * *
120150 TACCGTTACTGTTACAGGTTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGACTCGGCACTTTGTGTGTCGAATACTGT
120195 TACTGTTACTGTTAC
1 TACTGTTACTGTTAC
120210 TGCTACCGTT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
44 1 0.01
45 88 0.98
46 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACAGACTCGGCACTTTGTGTGTCGAATACTGT
Found at i:120200 original size:6 final size:6
Alignment explanation
Indices: 120189--120237 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
120179 GTGTGTTGAA
* *
120189 TACTGT TACTGT TACTGT TACTGC TACCGT TACTGAT TACTGTT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG-T TACTG
120238 GTGTGTTTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
6 25 0.68
7 12 0.32
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:124965 original size:24 final size:25
Alignment explanation
Indices: 124931--125026 Score: 103
Period size: 24 Copynumber: 4.0 Consensus size: 25
124921 TTCTCGATAT
*
124931 ATGGCTATTCA-GAGCTTCCCATTA
1 ATGGCTCTTCATGAGCTTCCCATTA
* *
124955 ATGGCTCTTCA-GAGCTACCCGTTA
1 ATGGCTCTTCATGAGCTTCCCATTA
* *
124979 TTGGCTC-GCATGAGCTTCCCAATT-
1 ATGGCTCTTCATGAGCTTCCC-ATTA
125003 ATGGCTCTT-ATGAGCTTCCCATTA
1 ATGGCTCTTCATGAGCTTCCCATTA
125027 TACAGCCTGG
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
23 5 0.08
24 52 0.88
25 2 0.03
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (25 bp):
ATGGCTCTTCATGAGCTTCCCATTA
Found at i:126669 original size:35 final size:35
Alignment explanation
Indices: 126623--126692 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
126613 GATTAAGAAA
*
126623 AAGAGGTATCGAGACCTTGATTTTATAAACCGAGC
1 AAGAGGCATCGAGACCTTGATTTTATAAACCGAGC
126658 AAGAGGCATCGAGACCTTGATTTTATAAACCGAGC
1 AAGAGGCATCGAGACCTTGATTTTATAAACCGAGC
126693 CATAAATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (35 bp):
AAGAGGCATCGAGACCTTGATTTTATAAACCGAGC
Found at i:127756 original size:19 final size:19
Alignment explanation
Indices: 127728--127764 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
127718 TTTTGGAGAA
127728 TAAAAGTTT-GAGGGAAAG
1 TAAAAGTTTGGAGGGAAAG
127746 TAAATAGTTTGGAGGGAAA
1 TAAA-AGTTTGGAGGGAAA
127765 ATATTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.24
Consensus pattern (19 bp):
TAAAAGTTTGGAGGGAAAG
Found at i:128103 original size:9 final size:9
Alignment explanation
Indices: 128089--128125 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
128079 TATAGTTTGA
128089 TATTCGAAT
1 TATTCGAAT
128098 TATTCGAAT
1 TATTCGAAT
*
128107 TATTCGAGT
1 TATTCGAAT
128116 TATTCGAAT
1 TATTCGAAT
128125 T
1 T
128126 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:129321 original size:24 final size:24
Alignment explanation
Indices: 129199--129333 Score: 77
Period size: 24 Copynumber: 5.5 Consensus size: 24
129189 CTGTTTATAA
* *
129199 GCTCTTTGTGAGCTTCCCGTTAAAG-
1 GCTCTTCG-GAGCTTCTCGTT-AAGT
129224 GCTCTTCGGAGCTT-TCTGTT-AGT
1 GCTCTTCGGAGCTTCTC-GTTAAGT
*
129247 GCTCGCTT--GAACTTCTCGTTATA-T
1 GCT--CTTCGGAGCTTCTCGTTA-AGT
* * *
129271 GGCTATCCGGTGC-TCTCTGTTAAAGT
1 -GCTCTTCGGAGCTTCTC-GTT-AAGT
129297 GCTCTTCGGAGCTTCTCGTTAAGT
1 GCTCTTCGGAGCTTCTCGTTAAGT
*
129321 GCTCTTCAGAGCT
1 GCTCTTCGGAGCT
129334 ACCCGATATA
Statistics
Matches: 85, Mismatches: 11, Indels: 29
0.68 0.09 0.23
Matches are distributed among these distances:
22 2 0.02
23 13 0.15
24 32 0.38
25 32 0.38
26 6 0.07
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.38
Consensus pattern (24 bp):
GCTCTTCGGAGCTTCTCGTTAAGT
Found at i:129589 original size:13 final size:13
Alignment explanation
Indices: 129571--129601 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
129561 TGAAGACAAG
129571 TGAAATCAATATC
1 TGAAATCAATATC
*
129584 TGAAATCAATATT
1 TGAAATCAATATC
129597 TGAAA
1 TGAAA
129602 AATACATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (13 bp):
TGAAATCAATATC
Found at i:131028 original size:42 final size:42
Alignment explanation
Indices: 130888--131028 Score: 174
Period size: 42 Copynumber: 3.4 Consensus size: 42
130878 GGCTAAACAA
* * * *
130888 AAGCTCATGAGAGCTAAACGGAAACCCATAAGGGTTGAACGG
1 AAGCTCATAAGAGTTGAACGGAAACCCATAAGGGTTAAACGG
* *
130930 AAGCTCGTAAGAGTTGAACGGAAACCCATAAGGGTTAAACTG
1 AAGCTCATAAGAGTTGAACGGAAACCCATAAGGGTTAAACGG
* * * *
130972 AAGCTCAAAAGAGTTGAATGGAAACTCATAGGGGTTAAACGG
1 AAGCTCATAAGAGTTGAACGGAAACCCATAAGGGTTAAACGG
* *
131014 AAACTCATATGAGTT
1 AAGCTCATAAGAGTT
131029 AACTAAAGCT
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.19
Consensus pattern (42 bp):
AAGCTCATAAGAGTTGAACGGAAACCCATAAGGGTTAAACGG
Found at i:131029 original size:21 final size:21
Alignment explanation
Indices: 130891--131057 Score: 124
Period size: 21 Copynumber: 8.0 Consensus size: 21
130881 TAAACAAAAG
* *
130891 CTCATGAGAGCTAAACGGAAA
1 CTCATAAGAGTTAAACGGAAA
* * * *
130912 CCCATAAGGGTTGAACGGAAG
1 CTCATAAGAGTTAAACGGAAA
* *
130933 CTCGTAAGAGTTGAACGGAAA
1 CTCATAAGAGTTAAACGGAAA
* * * *
130954 CCCATAAGGGTTAAACTGAAG
1 CTCATAAGAGTTAAACGGAAA
* * *
130975 CTCAAAAGAGTTGAATGGAAA
1 CTCATAAGAGTTAAACGGAAA
* *
130996 CTCATAGGGGTTAAACGGAAA
1 CTCATAAGAGTTAAACGGAAA
* *
131017 CTCATATGAGTT-AAC-TAAA
1 CTCATAAGAGTTAAACGGAAA
131036 GCTCATAAGA-TCTAAACGGAAA
1 -CTCATAAGAGT-TAAACGGAAA
131058 GTAAACATGA
Statistics
Matches: 109, Mismatches: 33, Indels: 7
0.73 0.22 0.05
Matches are distributed among these distances:
19 4 0.04
20 12 0.11
21 90 0.83
22 3 0.03
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (21 bp):
CTCATAAGAGTTAAACGGAAA
Found at i:136763 original size:21 final size:20
Alignment explanation
Indices: 136720--136769 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
136710 TTTAGCTCTC
* *
136720 ATGAGCTTCATTTAACTCAT
1 ATGAGTTTCATTTAACCCAT
*
136740 ATGAGTTTCAGTTTAACCCTT
1 ATGAGTTTCA-TTTAACCCAT
*
136761 ATGGGTTTC
1 ATGAGTTTC
136770 CGTTCAGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (20 bp):
ATGAGTTTCATTTAACCCAT
Found at i:140732 original size:22 final size:22
Alignment explanation
Indices: 140704--140746 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
140694 TTTTGTCTAG
140704 TTAGTTTTCATGTATAATTCCC
1 TTAGTTTTCATGTATAATTCCC
*
140726 TTAGTTTTTATGTATAATTCC
1 TTAGTTTTCATGTATAATTCC
140747 TAGGTACTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.53
Consensus pattern (22 bp):
TTAGTTTTCATGTATAATTCCC
Found at i:141909 original size:50 final size:50
Alignment explanation
Indices: 141831--141946 Score: 207
Period size: 50 Copynumber: 2.3 Consensus size: 50
141821 TTTATTCCCT
141831 ATCTTGTA-TATAATCACAACTTGTTTGAAATAATTGATATTTTTATTTAGA
1 ATCTTGTACT-TAAT-ACAACTTGTTTGAAATAATTGATATTTTTATTTAGA
141882 ATCTTGTACTTAATACAACTTGTTTGAAATAATTGATATTTTTATTTAGA
1 ATCTTGTACTTAATACAACTTGTTTGAAATAATTGATATTTTTATTTAGA
141932 ATCTTGTACTTAATA
1 ATCTTGTACTTAATA
141947 GATATTTTAT
Statistics
Matches: 64, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
50 51 0.80
51 12 0.19
52 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.47
Consensus pattern (50 bp):
ATCTTGTACTTAATACAACTTGTTTGAAATAATTGATATTTTTATTTAGA
Found at i:143629 original size:24 final size:23
Alignment explanation
Indices: 143519--143652 Score: 91
Period size: 22 Copynumber: 5.9 Consensus size: 23
143509 ATGTTCAAGC
* *
143519 TTAATATTTTTTTAAATTTATTA
1 TTAATATTTATTTAAATTTATCA
* * * *
143542 TCAATA-TTATTTTAATTTTTAA
1 TTAATATTTATTTAAATTTATCA
** * *
143564 TATGTTA-TTATTTTAAACTCATCA
1 T-TAATATTTA-TTTAAATTTATCA
*
143588 TTAACA-TTATTTAAATTTATCA
1 TTAATATTTATTTAAATTTATCA
143610 TGT-ATATTTATTTCAAATTTATCA
1 T-TAATATTTATTT-AAATTTATCA
143634 TTAATA-TT-TTTAAATTTAT
1 TTAATATTTATTTAAATTTAT
143653 TATATATTAA
Statistics
Matches: 86, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
21 8 0.09
22 30 0.35
23 25 0.29
24 23 0.27
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (23 bp):
TTAATATTTATTTAAATTTATCA
Found at i:143655 original size:24 final size:24
Alignment explanation
Indices: 143628--143676 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
143618 TATTTCAAAT
143628 TTAT-CATTAATATTTTTAAATTTA
1 TTATACATTAATA-TTTTAAATTTA
* *
143652 TTATATATTAATATTTTGAATTTA
1 TTATACATTAATATTTTAAATTTA
143676 T
1 T
143677 CACGTATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
TTATACATTAATATTTTAAATTTA
Found at i:143667 original size:45 final size:45
Alignment explanation
Indices: 143528--143678 Score: 146
Period size: 46 Copynumber: 3.3 Consensus size: 45
143518 CTTAATATTT
* * * *
143528 TTTTAAATTTATTATCAATATTATTTTAATTT-TTAATATGTTATTA
1 TTTTAAATTTATCATTAATATTATTTAAATTTATT-ATATATTA-TA
* * * *
143574 TTTTAAACTCATCATTAACATTATTTAAATTTATCATGTATATT-TA
1 TTTTAAATTTATCATTAATATTATTTAAATTTAT--TATATATTATA
*
143620 TTTCAAATTTATCATTAATATT-TTTAAATTTATTATATATTAATA
1 TTTTAAATTTATCATTAATATTATTTAAATTTATTATATATT-ATA
*
143665 TTTTGAATTTATCA
1 TTTTAAATTTATCA
143679 CGTATGATTA
Statistics
Matches: 85, Mismatches: 15, Indels: 11
0.77 0.14 0.10
Matches are distributed among these distances:
43 7 0.08
45 25 0.29
46 46 0.54
47 1 0.01
48 5 0.06
49 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (45 bp):
TTTTAAATTTATCATTAATATTATTTAAATTTATTATATATTATA
Found at i:143743 original size:69 final size:68
Alignment explanation
Indices: 143593--143743 Score: 157
Period size: 69 Copynumber: 2.2 Consensus size: 68
143583 CATCATTAAC
* * *
143593 ATTATTTAAATTTATCATGTATATTTATTTCAAATTTATCATTAATATTTTTAAATTTATTATAT
1 ATTATTTAAATTTATCACGTATATTTATTTCAAATTTATCATCAAAATTTTTAAATTTATTATAT
143658 ATT
66 ATT
* *
143661 AATATTTTGAATTTATCACGTATGA-TTA-TTCTAGAA-TTATCATCAAAATTTTTAAATTT-TA
1 ATTA-TTTAAATTTATCACGTAT-ATTTATTTC-A-AATTTATCATCAAAATTTTTAAATTTAT-
*
143722 TATGTATT
61 TATATATT
*
143730 GTTATTTCAAATTT
1 ATTATTT-AAATTT
143744 TTTTATACTA
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
68 10 0.15
69 55 0.81
70 3 0.04
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.54
Consensus pattern (68 bp):
ATTATTTAAATTTATCACGTATATTTATTTCAAATTTATCATCAAAATTTTTAAATTTATTATAT
ATT
Found at i:148691 original size:22 final size:23
Alignment explanation
Indices: 148663--148707 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
148653 ATGCAATGTT
148663 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
148685 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
148708 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:150247 original size:6 final size:6
Alignment explanation
Indices: 150233--150263 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
150223 AAGTGTACTA
*
150233 AATTGG AATTTG AATTGG AATTGG AATTGG A
1 AATTGG AATTGG AATTGG AATTGG AATTGG A
150264 TTTTGATACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (6 bp):
AATTGG
Found at i:150250 original size:12 final size:12
Alignment explanation
Indices: 150233--150269 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
150223 AAGTGTACTA
150233 AATTGGAATTTG
1 AATTGGAATTTG
*
150245 AATTGGAATTGG
1 AATTGGAATTTG
*
150257 AATTGGATTTTG
1 AATTGGAATTTG
150269 A
1 A
150270 TACCCTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.27, T:0.41
Consensus pattern (12 bp):
AATTGGAATTTG
Found at i:150372 original size:19 final size:19
Alignment explanation
Indices: 150348--150412 Score: 87
Period size: 19 Copynumber: 3.4 Consensus size: 19
150338 TTATGAGCTT
150348 ATGTGCCAGTATGCACTTC
1 ATGTGCCAGTATGCACTTC
* *
150367 ATGTGCCAAATATGCGCTT-
1 ATGTGCC-AGTATGCACTTC
*
150386 ATGCGCCAGTATGCACTTC
1 ATGTGCCAGTATGCACTTC
150405 ATGTGCCA
1 ATGTGCCA
150413 AGTTTTTGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
18 9 0.24
19 20 0.53
20 9 0.24
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (19 bp):
ATGTGCCAGTATGCACTTC
Found at i:150386 original size:38 final size:38
Alignment explanation
Indices: 150339--150413 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
150329 AGTACAATAT
*
150339 TATGAGCTTATGTGCCAGTATGCACTTCATGTGCCAAA
1 TATGAGCTTATGCGCCAGTATGCACTTCATGTGCCAAA
*
150377 TATGCGCTTATGCGCCAGTATGCACTTCATGTGCCAA
1 TATGAGCTTATGCGCCAGTATGCACTTCATGTGCCAA
150414 GTTTTTGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (38 bp):
TATGAGCTTATGCGCCAGTATGCACTTCATGTGCCAAA
Found at i:152165 original size:18 final size:18
Alignment explanation
Indices: 152142--152177 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
152132 AATTTTGTGA
152142 AAAATTCGTTTGAAAATT
1 AAAATTCGTTTGAAAATT
152160 AAAATTCGTTTGAAAATT
1 AAAATTCGTTTGAAAATT
152178 TTGACGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (18 bp):
AAAATTCGTTTGAAAATT
Found at i:153394 original size:23 final size:23
Alignment explanation
Indices: 153366--153461 Score: 113
Period size: 23 Copynumber: 4.2 Consensus size: 23
153356 GTTATTGATC
* *
153366 AGTGGTAGCTACGGCTACACATT
1 AGTGGTAGCTACAGCTACATATT
*
153389 AGTGGTAGCTTCAGCTACAT-TT
1 AGTGGTAGCTACAGCTACATATT
* *
153411 CAGTGGTAGCTACAGCTACTTATC
1 -AGTGGTAGCTACAGCTACATATT
* *
153435 AGTGGTAGCTTCGGCTACATATT
1 AGTGGTAGCTACAGCTACATATT
153458 AGTG
1 AGTG
153462 TGGCATTTAT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
22 2 0.03
23 58 0.95
24 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (23 bp):
AGTGGTAGCTACAGCTACATATT
Found at i:153417 original size:46 final size:46
Alignment explanation
Indices: 153364--153454 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
153354 GTGTTATTGA
* *
153364 TCAGTGGTAGCTACGGCTACACATTAGTGGTAGCTTCAGCTACATT
1 TCAGTGGTAGCTACAGCTACACATCAGTGGTAGCTTCAGCTACATT
** *
153410 TCAGTGGTAGCTACAGCTACTTATCAGTGGTAGCTTCGGCTACAT
1 TCAGTGGTAGCTACAGCTACACATCAGTGGTAGCTTCAGCTACAT
153455 ATTAGTGTGG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (46 bp):
TCAGTGGTAGCTACAGCTACACATCAGTGGTAGCTTCAGCTACATT
Found at i:154933 original size:21 final size:21
Alignment explanation
Indices: 154907--154946 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
154897 CATATTTATG
* *
154907 AAATGATATATGAAGTTAAGT
1 AAATGATACATGAAATTAAGT
154928 AAATGATACATGAAATTAA
1 AAATGATACATGAAATTAA
154947 TATGAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.30
Consensus pattern (21 bp):
AAATGATACATGAAATTAAGT
Found at i:157209 original size:25 final size:25
Alignment explanation
Indices: 157181--157315 Score: 133
Period size: 25 Copynumber: 5.6 Consensus size: 25
157171 ACTTTAGCGC
*
157181 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGTTAGT
157206 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
* *
157231 GCTCTCTGATTACTAGCACGTCAGT
1 GCTCTCTGATTATTAGCACGTTAGT
* *
157256 ACTCTCTG--T-TTAGCACATCT-GT
1 GCTCTCTGATTATTAGCACGT-TAGT
* *
157278 GCTCTCTG--T-CTAGCACTTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
157300 GCTCTCTG-TTCATTAG
1 GCTCTCTGATT-ATTAG
157316 TGCATAACAG
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
21 1 0.01
22 34 0.36
23 2 0.02
25 57 0.61
ACGTcount: A:0.17, C:0.24, G:0.19, T:0.39
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTTAGT
Found at i:157282 original size:22 final size:21
Alignment explanation
Indices: 157229--157309 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 21
157219 TAGCACGTTA
*
157229 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTG-TT--TAGCAC-TCT
*
157254 GTACTCTCTGTTTAGCACATCT
1 GTGCTCTCTGTTTAGCAC-TCT
* *
157276 GTGCTCTCTGTCTAGCACTTT
1 GTGCTCTCTGTTTAGCACTCT
157297 AGTGCTCTCTGTT
1 -GTGCTCTCTGTT
157310 CATTAGTGCA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
21 2 0.04
22 35 0.73
24 2 0.04
25 9 0.19
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.40
Consensus pattern (21 bp):
GTGCTCTCTGTTTAGCACTCT
Found at i:157434 original size:31 final size:31
Alignment explanation
Indices: 157399--157457 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
157389 AAGAATATGA
* *
157399 GATAGTGAATTGAAAATAGAATGTGAAAAAC
1 GATAGTGAATTGAAAACAGAATATGAAAAAC
157430 GATAGTGAATTGAAAACAGAATATGAAA
1 GATAGTGAATTGAAAACAGAATATGAAA
157458 TATGTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.53, C:0.03, G:0.22, T:0.22
Consensus pattern (31 bp):
GATAGTGAATTGAAAACAGAATATGAAAAAC
Done.