Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015359.1 Kokia drynarioides strain JFW-HI SEQ_130406, whole genome shotgun sequence
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: 556503
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 929 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:3533 original size:17 final size:18
Alignment explanation
Indices: 3496--3532 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
3486 GTTTCTCAAC
3496 TTCCTTTTTTAAAGCCTT
1 TTCCTTTTTTAAAGCCTT
3514 TTCCTTTTTTAAAGCCTT
1 TTCCTTTTTTAAAGCCTT
3532 T
1 T
3533 CTCTCTTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.22, G:0.05, T:0.57
Consensus pattern (18 bp):
TTCCTTTTTTAAAGCCTT
Found at i:5872 original size:46 final size:46
Alignment explanation
Indices: 5820--5907 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
5810 CTTATATGTG
*
5820 TAATTGAATTAAATTAAAATTTACATACCATAATTTGATATTTACA
1 TAATTGAATTAAATTAAAATTTAAATACCATAATTTGATATTTACA
*
5866 TAATTGAATTAAATTAAAGTTTAAATACCATAATTTGATATT
1 TAATTGAATTAAATTAAAATTTAAATACCATAATTTGATATT
5908 CACTTCTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (46 bp):
TAATTGAATTAAATTAAAATTTAAATACCATAATTTGATATTTACA
Found at i:15131 original size:23 final size:22
Alignment explanation
Indices: 15105--15164 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
15095 TATGTTTTAT
15105 ATTTATTTATTTAAATTAAATGA
1 ATTTATTTATTTAAATTAAAT-A
* * *
15128 ATTTATTCATATACATTAAATA
1 ATTTATTTATTTAAATTAAATA
* *
15150 A-ATATTTGTTTAAAT
1 ATTTATTTATTTAAAT
15165 ATTATTATAA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 9 0.31
22 2 0.07
23 18 0.62
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (22 bp):
ATTTATTTATTTAAATTAAATA
Found at i:15175 original size:12 final size:12
Alignment explanation
Indices: 15147--15213 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
15137 TATACATTAA
15147 ATAAATATT-TGT
1 ATAAATATTAT-T
*
15159 TTAAATATTATT
1 ATAAATATTATT
15171 ATAAAATATT-TT
1 AT-AAATATTATT
15183 -TAAAT-TTATT
1 ATAAATATTATT
* * *
15193 TTAAGTTTTATT
1 ATAAATATTATT
15205 ATAAATATT
1 ATAAATATT
15214 TTTTATTGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
9 2 0.05
10 6 0.14
11 5 0.11
12 23 0.52
13 8 0.18
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (12 bp):
ATAAATATTATT
Found at i:15264 original size:6 final size:6
Alignment explanation
Indices: 15253--15285 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
15243 TTATTTGTGA
15253 TTATAT TTATAT TTATAT TTATAT TTATGAT TT
1 TTATAT TTATAT TTATAT TTATAT TTAT-AT TT
15286 CTTTTAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 22 0.85
7 4 0.15
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (6 bp):
TTATAT
Found at i:15265 original size:18 final size:18
Alignment explanation
Indices: 15233--15285 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
15223 AATATATATC
*
15233 GATT-TATTTATTATTTGT
1 GATTATATTTA-TATTTAT
15251 GATTATATTTATATTTAT
1 GATTATATTTATATTTAT
15269 -ATTTATATTTATGATTT
1 GA-TTATATTTAT-ATTT
15286 CTTTTAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 1 0.03
18 20 0.65
19 10 0.32
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (18 bp):
GATTATATTTATATTTAT
Found at i:17027 original size:31 final size:32
Alignment explanation
Indices: 16985--17045 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
16975 TTATAAAATG
16985 ATCATTAAAATTATTCA-AAAGTTTTCATTTGA
1 ATCATTAAAATTATT-AGAAAGTTTTCATTTGA
*
17017 ATCATT-AAATTATTAGAAAGTTTTTATTT
1 ATCATTAAAATTATTAGAAAGTTTTCATTT
17046 AAATTACTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 1 0.04
31 20 0.74
32 6 0.22
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.48
Consensus pattern (32 bp):
ATCATTAAAATTATTAGAAAGTTTTCATTTGA
Found at i:20396 original size:25 final size:25
Alignment explanation
Indices: 20338--20397 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
20328 ACAAACCCAA
20338 ACATT-AAACCCTAAACCCAAACAC
1 ACATTCAAACCCTAAACCCAAACAC
*
20362 A-AATCTAAACCCTAAACCCAAACAC
1 ACATTC-AAACCCTAAACCCAAACAC
20387 ACATTCAAACC
1 ACATTCAAACC
20398 TTGAATCCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 2 0.06
24 1 0.03
25 25 0.81
26 3 0.10
ACGTcount: A:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (25 bp):
ACATTCAAACCCTAAACCCAAACAC
Found at i:34355 original size:23 final size:23
Alignment explanation
Indices: 34295--34443 Score: 109
Period size: 23 Copynumber: 6.5 Consensus size: 23
34285 AGTACTATTG
34295 AAACAGTAAGCACACACAGTGCA
1 AAACAGTAAGCACACACAGTGCA
* * * *
34318 AATCAGTAGGTACACACTGTGCA
1 AAACAGTAAGCACACACAGTGCA
* * * *
34341 AAACAATAAGCACACATAATGTA
1 AAACAGTAAGCACACACAGTGCA
* * * *
34364 AATCAGTAAGCACATATAGTGCG
1 AAACAGTAAGCACACACAGTGCA
* * * **
34387 AATCAGTAAACACACAAAGTGTT
1 AAACAGTAAGCACACACAGTGCA
* * *
34410 GAACAGTAAGCACACACAATGCT
1 AAACAGTAAGCACACACAGTGCA
*
34433 GAACAGTAAGC
1 AAACAGTAAGC
34444 GCACTAATGT
Statistics
Matches: 97, Mismatches: 29, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 97 1.00
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (23 bp):
AAACAGTAAGCACACACAGTGCA
Found at i:44533 original size:2 final size:2
Alignment explanation
Indices: 44520--44558 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
44510 TTACGTACAC
*
44520 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44559 ACATGTGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:46770 original size:24 final size:22
Alignment explanation
Indices: 46681--46780 Score: 62
Period size: 23 Copynumber: 4.5 Consensus size: 22
46671 AATACTACTC
* *
46681 TAATATAAATATTAAAATAGTGT
1 TAATATAAATATTAAAATAAT-A
* * * *
46704 TAAGATGACTATATAAAA-AATT
1 TAATATAAATAT-TAAAATAATA
* * *
46726 TCA-ATAAATA-AAAAATTATA
1 TAATATAAATATTAAAATAATA
46746 TAATTATTAAATATTAAAATAATA
1 TAA-TA-TAAATATTAAAATAATA
46770 TAATATAAATA
1 TAATATAAATA
46781 ATTTTTTAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 13
0.69 0.15 0.15
Matches are distributed among these distances:
19 4 0.07
20 4 0.07
21 5 0.09
22 10 0.17
23 19 0.33
24 16 0.28
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (22 bp):
TAATATAAATATTAAAATAATA
Found at i:47953 original size:8 final size:8
Alignment explanation
Indices: 47940--47971 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
47930 CAATGCTATT
47940 ATTATTTA
1 ATTATTTA
47948 ATTATTTA
1 ATTATTTA
47956 ATTATTTA
1 ATTATTTA
47964 ATTATTTA
1 ATTATTTA
47972 TTTTACCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATTATTTA
Found at i:49198 original size:28 final size:30
Alignment explanation
Indices: 49153--49208 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
49143 GAAAATTAAT
49153 AAATAAAACCCACTATTA-TGAAATGAACA
1 AAATAAAACCCACTATTATTGAAATGAACA
* *
49182 AAATAAAA-CCATTATTATTGTAATGAA
1 AAATAAAACCCACTATTATTGAAATGAA
49209 ATAATATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (30 bp):
AAATAAAACCCACTATTATTGAAATGAACA
Found at i:52962 original size:31 final size:32
Alignment explanation
Indices: 52918--52980 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
52908 AAAATGGAAT
* *
52918 TTTATGTTCCTTAAAAGTTGG-AAAAAAAAAA
1 TTTAGGTTCCTTAAAAGTGGGTAAAAAAAAAA
*
52949 TTTAGGTTTCTTAAAAGTGGGTAAAAAAAAAA
1 TTTAGGTTCCTTAAAAGTGGGTAAAAAAAAAA
52981 ATGGGCCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 18 0.64
32 10 0.36
ACGTcount: A:0.48, C:0.05, G:0.16, T:0.32
Consensus pattern (32 bp):
TTTAGGTTCCTTAAAAGTGGGTAAAAAAAAAA
Found at i:57376 original size:35 final size:33
Alignment explanation
Indices: 57300--57377 Score: 102
Period size: 35 Copynumber: 2.3 Consensus size: 33
57290 TTTTTTTCCG
*
57300 CTATTATTTTGTTGTCATTTTGATATTATATTA
1 CTATTATTTTGTTGTCATTTTGATATTATATAA
* *
57333 CTAGTATTTTGTTGTTATTTTTGGATATTATATAA
1 CTATTATTTTGTTGTCA-TTTT-GATATTATATAA
*
57368 CTCTTATTTT
1 CTATTATTTT
57378 ATTATTAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
33 15 0.39
34 4 0.11
35 19 0.50
ACGTcount: A:0.23, C:0.06, G:0.10, T:0.60
Consensus pattern (33 bp):
CTATTATTTTGTTGTCATTTTGATATTATATAA
Found at i:57919 original size:17 final size:16
Alignment explanation
Indices: 57883--57932 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 16
57873 ATCTTGCTTC
57883 TTTTT-TTTTTTAGAAA
1 TTTTTATTTTTTA-AAA
57899 -TTTTATTTTTTAAATA
1 TTTTTATTTTTTAAA-A
57915 TTTTTATAATTTTTAAAA
1 TTTTTAT--TTTTTAAAA
57933 ATCATTAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 6 0.21
16 8 0.28
17 6 0.21
18 1 0.03
19 8 0.28
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (16 bp):
TTTTTATTTTTTAAAA
Found at i:60277 original size:62 final size:61
Alignment explanation
Indices: 60175--60338 Score: 156
Period size: 61 Copynumber: 2.7 Consensus size: 61
60165 GTTTGGTCCC
* *
60175 TCAAATTTTTTAGAAAATTTTGATTTTACCTTAAATTTTTTTAAAAAACTTTAATTAGGTCA
1 TCAAATTTTTTAGAAAATTTTCATTTTACCTTAAA-ATTTTTAAAAAACTTTAATTAGGTCA
* * * ** *
60237 TCAATTTTTTTAGAAAA-TTTCATTTCT-CTCTTAAAATTTTTAGAAAATTTTAATTAAGCCCC
1 TCAAATTTTTTAGAAAATTTTCATTT-TAC-CTTAAAATTTTTAAAAAACTTTAATT-AGGTCA
* **
60299 TCAAAATTTTTT--AAAATTATCATTTTACCTTTTAATTTTT
1 TC-AAATTTTTTAGAAAATTTTCATTTTACCTTAAAATTTTT
60339 TTAAAAAAAT
Statistics
Matches: 84, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
61 40 0.48
62 36 0.43
63 8 0.10
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.50
Consensus pattern (61 bp):
TCAAATTTTTTAGAAAATTTTCATTTTACCTTAAAATTTTTAAAAAACTTTAATTAGGTCA
Found at i:60387 original size:32 final size:31
Alignment explanation
Indices: 60264--60387 Score: 86
Period size: 32 Copynumber: 3.9 Consensus size: 31
60254 TTTCATTTCT
*
60264 CTCTTAAAATTTTTAGAAAATTTTAATTAAGC
1 CTCTTAAAATTTTT-GAAAATTTTAATTAAAC
* * * * * **
60296 CCCTCAAAATTTTTTAAAATTATCATTTTAC
1 CTCTTAAAATTTTTGAAAATTTTAATTAAAC
* ** * ** *
60327 CTTTTAATTTTTTTAAAAAAATTAATTAAAAT
1 CTCTTAAAATTTTTGAAAATTTTAATT-AAAC
*
60359 CTCTTAAAATTTTTGAAAATTTTCATTAA
1 CTCTTAAAATTTTTGAAAATTTTAATTAA
60388 TCGTACAAAA
Statistics
Matches: 63, Mismatches: 28, Indels: 3
0.67 0.30 0.03
Matches are distributed among these distances:
31 30 0.48
32 33 0.52
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.47
Consensus pattern (31 bp):
CTCTTAAAATTTTTGAAAATTTTAATTAAAC
Found at i:73655 original size:328 final size:326
Alignment explanation
Indices: 72625--74607 Score: 2461
Period size: 328 Copynumber: 6.0 Consensus size: 326
72615 ACTAAAACAC
* * **
72625 TTGCAATACATAATTGCATGCGGTGAAACACTTCCAAATTTCTCTTATCAAATTTACTTGTGAGA
1 TTGCAATACATAGTTGCATGCAGTGAAACACTTTGAAATTTCTCTTATCAAATTTACTTGTGAGA
* * * *
72690 TTAAAAAAATTAATT-TTAAATTAAATAATTTATCTTTTAAAGAATATTTTATATTTATTTACTG
66 TTAAAAAAGTTAATTGTAAAATGAGATAATTTATCTTTTAAAGAATATTTTATATTTATTTACTG
* * * * *
72754 ACAGAACGGACGATACTTTCTATAAAATCGATCAATC-TTACTTGTAAAATTCAAAAATTTAATG
131 ACGGGACGGACGATACTTTCTATAAAACCGACCAA-CATTACTTGTAAAATTCAAAAATCTAATG
* *
72818 ATATTAAGTGGGATAAA-T-TCTCTCTCTCTCTC--TTTAAAGAGTTCATATAAACGGCGTTATT
195 ATATTAAGTGGGATAAATTCTCTCTCTCTCTCTCTTTTTAAAGAGTTCATACAAACGGCGATATT
* * ** * *
72879 TTCTATAAAATTGATGAATCTACTTTTAAAGACATTAGATTTTTCTTTTGAAATTTTTTTTATCA
260 TTTTATAAAATCGGCGAATCTGCTTTTAAAGACATTAGATTTTTCTTTTGGAA----TTTT-T--
72944 CTTCGCAAAAGTAAAACACT
318 CTT------A-T----CACT
* ** * *
72964 TTGCAATACATAATTGCATGCAGAAAAACACTTTTAAATTTCTCTTATAAAATTTACTTGTGAGA
1 TTGCAATACATAGTTGCATGCAGTGAAACACTTTGAAATTTCTCTTATCAAATTTACTTGTGAGA
* * *
73029 TTAAAAAAGTTAATTGTAAAATGAGATAATTTATATTTTAAAGAATATCTAATATTTATTTACTG
66 TTAAAAAAGTTAATTGTAAAATGAGATAATTTATCTTTTAAAGAATATTTTATATTTATTTACTG
* * * * * * *
73094 ACGGGGCGGACAATACTTCCTATAAAATCGATCAACTTTACTTGTAAAATTCAAAAATCTAATAA
131 ACGGGACGGACGATACTTTCTATAAAACCGACCAACATTACTTGTAAAATTCAAAAATCTAATGA
* *
73159 TATTAAGTAGGATAAA-T-TCTCTCTCTCTCTCTTTTTAAAGAGCTCATACAAACGGCGATATTT
196 TATTAAGTGGGATAAATTCTCTCTCTCTCTCTCTTTTTAAAGAGTTCATACAAACGGCGATATTT
* * *
73222 TTTATAAAATTGGCGAATCTACTTTTAAAGACATTAGATTTTTCTTTTGGAATTTCTCTTATCAC
261 TTTATAAAATCGGCGAATCTGCTTTTAAAGACATTAGATTTTTCTTTTGGAATTTTTCTTATCAC
73287 T
326 T
* * *
73288 TTGCAATATATAGTTGCATGCAGTGAAACACTTTGAAATTTCTCATATCAAATTTACTTATGAGA
1 TTGCAATACATAGTTGCATGCAGTGAAACACTTTGAAATTTCTCTTATCAAATTTACTTGTGAGA
* * *
73353 TTAAAAACGTTAATTGTAAAATGAGATAAATTATCTTTTAAATAATATTTTATATTTATTTACTG
66 TTAAAAAAGTTAATTGTAAAATGAGATAATTTATCTTTTAAAGAATATTTTATATTTATTTACTG
* * *
73418 ACAGGACGGACGATACTTTCTATAAAACCGGCCAACATTACTTGTAAAATTTAAAAATCTAATGA
131 ACGGGACGGACGATACTTTCTATAAAACCGACCAACATTACTTGTAAAATTCAAAAATCTAATGA
73483 TATTAAGTGGGATAAATTCTCTCTCTCTCTCTCTCTCTTTAAAGA-TATCATACAAACGGCGATA
196 TATTAAGTGGGATAAATTCTCTCTCTCTCTCTCT-T-TTTAAAGAGT-TCATACAAACGGCGATA
* *
73547 TTTTTTATAAAATCAGCAAATCTGCTTTTAAAGACATTAGATTTTTCTTTTGGAATTTTTCTTAT
258 TTTTTTATAAAATCGGCGAATCTGCTTTTAAAGACATTAGATTTTTCTTTTGGAATTTTTCTTAT
73612 CACT
323 CACT
*
73616 TTGCAATACATAGTTGCATGCAGTGAAACACTATGAAATTTCTCTTATCAAATTTACTTGTGAGA
1 TTGCAATACATAGTTGCATGCAGTGAAACACTTTGAAATTTCTCTTATCAAATTTACTTGTGAGA
** * *
73681 TTAAAAAAGTTAATCATAAAATGAGATAATTTATCATTTAAAGAATATTTTATATTTATTTACTA
66 TTAAAAAAGTTAATTGTAAAATGAGATAATTTATCTTTTAAAGAATATTTTATATTTATTTACTG
* * * *
73746 ACGAGACTGACGATACTTTCTATAAAACCGACCAACCTTACTTGTAAAATTCAAAACTCTAATGA
131 ACGGGACGGACGATACTTTCTATAAAACCGACCAACATTACTTGTAAAATTCAAAAATCTAATGA
** * * **
73811 TATTAAACGGGATAAATTCTCTCTCTCTCTATCTTTTTAAAGAGTTCACACAAACGATGATATTT
196 TATTAAGTGGGATAAATTCTCTCTCTCTCTCTCTTTTTAAAGAGTTCATACAAACGGCGATATTT
* * * *
73876 TCTATAAAATCGGCGAATATGCTTTTAAAAACATTAGATTTTTCTTTTGAAATTTTTCTTATCAC
261 TTTATAAAATCGGCGAATCTGCTTTTAAAGACATTAGATTTTTCTTTTGGAATTTTTCTTATCAC
73941 T
326 T
* * * *
73942 TTGCAATACATAGTTGCATGTAGTGAAACACTTCGAAATTTATCTTATCAAATTTACTTGTAAGA
1 TTGCAATACATAGTTGCATGCAGTGAAACACTTTGAAATTTCTCTTATCAAATTTACTTGTGAGA
*
74007 TTAAAAAAATTAATTGTAAAATGAGATAATTTATCTTTTAAAGAATATTTTATATTTATTTACTG
66 TTAAAAAAGTTAATTGTAAAATGAGATAATTTATCTTTTAAAGAATATTTTATATTTATTTACTG
* * *
74072 ACGGGACGGACGATACTATCTATAAAACCAACCAACCA-AACTTGTAAAATTCAAAAATCTAATG
131 ACGGGACGGACGATACTTTCTATAAAACCGACCAA-CATTACTTGTAAAATTCAAAAATCTAATG
* * *
74136 ATATCAAGTGAGATAAA-T-TCTCTCTCTCTCTCTTTTTAAAGAGTTCATACAAACAGCGATATT
195 ATATTAAGTGGGATAAATTCTCTCTCTCTCTCTCTTTTTAAAGAGTTCATACAAACGGCGATATT
* * * *
74199 ATCTATAAAATCGGCGAATTTGTTTTTAAAGACATTAGATTTTTCTTTTGGAATTTTTCTTATCA
260 TTTTATAAAATCGGCGAATCTGCTTTTAAAGACATTAGATTTTTCTTTTGGAATTTTTCTTATCA
74264 CTT
325 C-T
* * * **
74267 TGCAAAAGTGAAACACTTTGTAATACATAATTACATGCAGTGAAACACTTTGGAATTTCAATTAT
1 T-------TG-----C-----AATACATAGTTGCATGCAGTGAAACACTTTGAAATTTCTCTTAT
* *
74332 CAAATTTACTTGTGATATTAAAAAAGTTAATTGTAAAATGAGATAATTTATCTTTTAAATAATAT
49 CAAATTTACTTGTGAGATTAAAAAAGTTAATTGTAAAATGAGATAATTTATCTTTTAAAGAATAT
* *
74397 TTTATATTTATTTATTGACGGGACGGACCATACTTTCTAT--------------TTACTTGTAAA
114 TTTATATTTATTTACTGACGGGACGGACGATACTTTCTATAAAACCGACCAACATTACTTGTAAA
* *
74448 ATTAAAAAATCTAATGATATTAAGTGAGATAAATTCTCTCTCTCTCTCTCTCTGTCTTTAAAGAG
179 ATTCAAAAATCTAATGATATTAAGTGGGATAAA-T-TCTCTCTCTCTCTCTCT-T-TTTAAAGAG
* *
74513 TTCATACAAACTGCGATATTTTTTATAAAATCGGCAAATCTGCTTTTAAAGACATTAGATTTTTC
240 TTCATACAAACGGCGATATTTTTTATAAAATCGGCGAATCTGCTTTTAAAGACATTAGATTTTTC
* * *
74578 TTTTGGAATTTCTCTTATTAAT
305 TTTTGGAATTTTTCTTATCACT
74600 TTGCAATA
1 TTGCAATA
74608 TGAGATTAAA
Statistics
Matches: 1460, Mismatches: 148, Indels: 95
0.86 0.09 0.06
Matches are distributed among these distances:
316 4 0.00
321 1 0.00
324 291 0.20
325 4 0.00
326 290 0.20
327 4 0.00
328 338 0.23
329 1 0.00
331 1 0.00
332 17 0.01
333 3 0.00
334 86 0.06
335 3 0.00
337 2 0.00
338 3 0.00
339 74 0.05
340 129 0.09
342 209 0.14
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (326 bp):
TTGCAATACATAGTTGCATGCAGTGAAACACTTTGAAATTTCTCTTATCAAATTTACTTGTGAGA
TTAAAAAAGTTAATTGTAAAATGAGATAATTTATCTTTTAAAGAATATTTTATATTTATTTACTG
ACGGGACGGACGATACTTTCTATAAAACCGACCAACATTACTTGTAAAATTCAAAAATCTAATGA
TATTAAGTGGGATAAATTCTCTCTCTCTCTCTCTTTTTAAAGAGTTCATACAAACGGCGATATTT
TTTATAAAATCGGCGAATCTGCTTTTAAAGACATTAGATTTTTCTTTTGGAATTTTTCTTATCAC
T
Found at i:74043 original size:654 final size:643
Alignment explanation
Indices: 72297--74607 Score: 2697
Period size: 654 Copynumber: 3.5 Consensus size: 643
72287 AAACACTCTA
* * * * *
72297 CAATATATAGTTGCATGTAGTGAAACACTTTGAAATTTCTCTTATCAAATTTATTTATGAGATTA
1 CAATACATAATTGCATGCAGTGAAACACTTTGAAATTTCTCTTATCAAATTTACTTGTGAGATTA
* * *
72362 AAAAAATTAATTATAAAATGAGATAATTTATATTTTAAATAATACTTTATATTTATTTACTGACG
66 AAAAAGTTAATTATAAAATGAGATAATTTATATTTTAAAGAATATTTTATATTTATTTACTGACG
* * ** * *
72427 GAACGAACGATACGCTCTATCCAACCTTCCTTGTAAAATTAAAAAATCTAATGATATTAAGTGTG
131 GGACGGACGATACTTTCTATCCAACCTTACTTGTAAAATTAAAAAATCTAATGATATTAAGTGGG
* * * *
72492 ATAAA-T-TCTCTCTCTCTCTTTTTAAAAAGTTCATACAAACGACGATATTTTTTAAAAAATTGA
196 ATAAATTCTCTCTCTCTCTCTTTTTAAAGAGTTCATACAAACGACGATATTTTTTATAAAATCGG
* *
72555 CGAATCTATTTTTAAAGACATTAGATTTTTCTTTTGGAATTTTTCTTATCACTTTGCAAAACTAA
261 CGAATCTACTTTTAAAGACATTAGATTTTTCTTTTGGAATTTCTC-T-T-A---T-C---ACT--
* * *
72620 AACACTTGCAATACATAATTGCATGCGGTGAAACACTTCCAAATTTCTCTTATCAAATTTACTTG
314 -----TTGCAATACATAGTTGCATGCAGTGAAACACTTCGAAATTTCTCTTATCAAATTTACTTG
* * *
72685 TGAGATTAAAAAAATTAATT-TTAAATTAAATAATTTATCTTTTAAAGAATATTTTATATTTATT
374 TGAGATTAAAAAAATTAATTGTAAAATGAGATAATTTATCTTTTAAAGAATATTTTATATTTATT
* * * * *
72749 TACTGACAGAACGGACGATACTTTCTATAAAATCGATCAATC-TTACTTGTAAAATTCAAAAATT
439 TACTGACAGGACGGACGATACTTTCTATAAAACCGACCAACCATTACTTGTAAAATTCAAAAATC
*
72813 TAATGATATTAAGTGGGATAAA---T-TCTCTCTCTCTCTCTTTAAAGAGTTCATATAAACGGCG
504 TAATGATATTAAGTGGGATAAATTCTCTCTCTCTCTCTCTCTTTAAAGAGTTCATACAAACGGCG
* * * *
72874 TTATTTTCTATAAAAT-TG-ATGAATCTACTTTTAAAGACATTAGATTTTTCTTTTGAAATTTTT
569 ATATTTTCTATAAAATCAGCA--AATCTGCTTTTAAAGACATTAGATTTTTCTTTTGGAA----T
72937 TTTATCACTTCGCAAAAGTAAAACACTTTG
628 TTT-T--CTT------A-T----CACTTTG
** * *
72967 CAATACATAATTGCATGCAGAAAAACACTTTTAAATTTCTCTTATAAAATTTACTTGTGAGATTA
1 CAATACATAATTGCATGCAGTGAAACACTTTGAAATTTCTCTTATCAAATTTACTTGTGAGATTA
* * *
73032 AAAAAGTTAATTGTAAAATGAGATAATTTATATTTTAAAGAATATCTAATATTTATTTACTGACG
66 AAAAAGTTAATTATAAAATGAGATAATTTATATTTTAAAGAATATTTTATATTTATTTACTGACG
* * * * * *
73097 GGGCGGACAATACTTCCTATAAAATCGATCAACTTTACTTGTAAAATTCAAAAATCTAATAATAT
131 GGACGGACGATACTT--TCT---ATC---CAACCTTACTTGTAAAATTAAAAAATCTAATGATAT
* * *
73162 TAAGTAGGATAAATTCTCTCTCTCTCTCTTTTTAAAGAGCTCATACAAACGGCGATATTTTTTAT
188 TAAGTGGGATAAATTCTCTCTCTCTCTCTTTTTAAAGAGTTCATACAAACGACGATATTTTTTAT
*
73227 AAAATTGGCGAATCTACTTTTAAAGACATTAGATTTTTCTTTTGGAATTTCTCTTATCACTTTGC
253 AAAATCGGCGAATCTACTTTTAAAGACATTAGATTTTTCTTTTGGAATTTCTCTTATCACTTTGC
* * * *
73292 AATATATAGTTGCATGCAGTGAAACACTTTGAAATTTCTCATATCAAATTTACTTATGAGATTAA
318 AATACATAGTTGCATGCAGTGAAACACTTCGAAATTTCTCTTATCAAATTTACTTGTGAGATTAA
** * *
73357 AAACGTTAATTGTAAAATGAGATAAATTATCTTTTAAATAATATTTTATATTTATTTACTGACAG
383 AAAAATTAATTGTAAAATGAGATAATTTATCTTTTAAAGAATATTTTATATTTATTTACTGACAG
* *
73422 GACGGACGATACTTTCTATAAAACCGGCCAA-CATTACTTGTAAAATTTAAAAATCTAATGATAT
448 GACGGACGATACTTTCTATAAAACCGACCAACCATTACTTGTAAAATTCAAAAATCTAATGATAT
73486 TAAGTGGGATAAATTCTCTCTCTCTCTCTCTCTCTTTAAAGA-TATCATACAAACGGCGATATTT
513 TAAGTGGGATAAA-T-TCTCTCTCTCTCTCTCTCTTTAAAGAGT-TCATACAAACGGCGATATTT
*
73550 TTTATAAAATCAGCAAATCTGCTTTTAAAGACATTAGATTTTTCTTTTGGAATTTTTCTTATCAC
575 TCTATAAAATCAGCAAATCTGCTTTTAAAGACATTAGATTTTTCTTTTGGAATTTTTCTTATCAC
73615 TTTG
640 TTTG
* *
73619 CAATACATAGTTGCATGCAGTGAAACACTATGAAATTTCTCTTATCAAATTTACTTGTGAGATTA
1 CAATACATAATTGCATGCAGTGAAACACTTTGAAATTTCTCTTATCAAATTTACTTGTGAGATTA
* *
73684 AAAAAGTTAATCATAAAATGAGATAATTTATCA-TTTAAAGAATATTTTATATTTATTTACTAAC
66 AAAAAGTTAATTATAAAATGAGATAATTTAT-ATTTTAAAGAATATTTTATATTTATTTACTGAC
* * * *
73748 GAGACTGACGATACTTTCTATAAAACCGACCAACCTTACTTGTAAAATTCAAAACTCTAATGATA
130 GGGACGGACGATACTTTCTAT--------CCAACCTTACTTGTAAAATTAAAAAATCTAATGATA
** * * *
73813 TTAAACGGGATAAATTCTCTCTCTCTCTATCTTTTTAAAGAGTTCACACAAACGATGATATTTTC
187 TTAAGTGGGATAAATTCTCTCTCTCTC--TCTTTTTAAAGAGTTCATACAAACGACGATATTTTT
* * * * *
73878 TATAAAATCGGCGAATATGCTTTTAAAAACATTAGATTTTTCTTTTGAAATTTTTCTTATCACTT
250 TATAAAATCGGCGAATCTACTTTTAAAGACATTAGATTTTTCTTTTGGAATTTCTCTTATCACTT
* * *
73943 TGCAATACATAGTTGCATGTAGTGAAACACTTCGAAATTTATCTTATCAAATTTACTTGTAAGAT
315 TGCAATACATAGTTGCATGCAGTGAAACACTTCGAAATTTCTCTTATCAAATTTACTTGTGAGAT
74008 TAAAAAAATTAATTGTAAAATGAGATAATTTATCTTTTAAAGAATATTTTATATTTATTTACTGA
380 TAAAAAAATTAATTGTAAAATGAGATAATTTATCTTTTAAAGAATATTTTATATTTATTTACTGA
* * * *
74073 CGGGACGGACGATACTATCTATAAAACCAACCAACCA-AACTTGTAAAATTCAAAAATCTAATGA
445 CAGGACGGACGATACTTTCTATAAAACCGACCAACCATTACTTGTAAAATTCAAAAATCTAATGA
* * * *
74137 TATCAAGTGAGATAAATTCTCTCTCTCTCTCT-T-TTTAAAGAGTTCATACAAACAGCGATATTA
510 TATTAAGTGGGATAAATTCTCTCTCTCTCTCTCTCTTTAAAGAGTTCATACAAACGGCGATATTT
* * * *
74200 TCTATAAAATCGGCGAATTTGTTTTTAAAGACATTAGATTTTTCTTTTGGAATTTTTCTTATCAC
575 TCTATAAAATCAGCAAATCTGCTTTTAAAGACATTAGATTTTTCTTTTGGAATTTTTCTTATCAC
74265 TTTGCAAAAGTG
640 -TT-------TG
* * **
74277 AAACACTTTGTAATACATAATTACATGCAGTGAAACACTTTGGAATTTCAATTATCAAATTTACT
1 -----C-----AATACATAATTGCATGCAGTGAAACACTTTGAAATTTCTCTTATCAAATTTACT
* * * *
74342 TGTGATATTAAAAAAGTTAATTGTAAAATGAGATAATTTATCTTTTAAATAATATTTTATATTTA
56 TGTGAGATTAAAAAAGTTAATTATAAAATGAGATAATTTATATTTTAAAGAATATTTTATATTTA
* *
74407 TTTATTGACGGGACGGACCATACTTTCTAT------TTACTTGTAAAATTAAAAAATCTAATGAT
121 TTTACTGACGGGACGGACGATACTTTCTATCCAACCTTACTTGTAAAATTAAAAAATCTAATGAT
*
74466 ATTAAGTGAGATAAATTCTCTCTCTCTCTCTCTCTGTCTTTAAAGAGTTCATACAAACTG-CGAT
186 ATTAAGTGGGATAAA---T-TCTCTCTCTCTCTCT-T-TTTAAAGAGTTCATACAAAC-GACGAT
* *
74530 ATTTTTTATAAAATCGGCAAATCTGCTTTTAAAGACATTAGATTTTTCTTTTGGAATTTCTCTTA
244 ATTTTTTATAAAATCGGCGAATCTACTTTTAAAGACATTAGATTTTTCTTTTGGAATTTCTCTTA
* *
74595 TTAATTTGCAATA
309 TCACTTTGCAATA
74608 TGAGATTAAA
Statistics
Matches: 1430, Mismatches: 151, Indels: 132
0.83 0.09 0.08
Matches are distributed among these distances:
647 2 0.00
650 88 0.06
651 4 0.00
652 206 0.14
653 2 0.00
654 317 0.22
655 3 0.00
656 4 0.00
657 3 0.00
658 106 0.07
659 1 0.00
663 76 0.05
664 117 0.08
665 1 0.00
666 4 0.00
668 132 0.09
669 2 0.00
670 211 0.15
671 1 0.00
672 3 0.00
673 1 0.00
674 1 0.00
675 3 0.00
677 1 0.00
678 44 0.03
679 2 0.00
680 95 0.07
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.39
Consensus pattern (643 bp):
CAATACATAATTGCATGCAGTGAAACACTTTGAAATTTCTCTTATCAAATTTACTTGTGAGATTA
AAAAAGTTAATTATAAAATGAGATAATTTATATTTTAAAGAATATTTTATATTTATTTACTGACG
GGACGGACGATACTTTCTATCCAACCTTACTTGTAAAATTAAAAAATCTAATGATATTAAGTGGG
ATAAATTCTCTCTCTCTCTCTTTTTAAAGAGTTCATACAAACGACGATATTTTTTATAAAATCGG
CGAATCTACTTTTAAAGACATTAGATTTTTCTTTTGGAATTTCTCTTATCACTTTGCAATACATA
GTTGCATGCAGTGAAACACTTCGAAATTTCTCTTATCAAATTTACTTGTGAGATTAAAAAAATTA
ATTGTAAAATGAGATAATTTATCTTTTAAAGAATATTTTATATTTATTTACTGACAGGACGGACG
ATACTTTCTATAAAACCGACCAACCATTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGG
ATAAATTCTCTCTCTCTCTCTCTCTTTAAAGAGTTCATACAAACGGCGATATTTTCTATAAAATC
AGCAAATCTGCTTTTAAAGACATTAGATTTTTCTTTTGGAATTTTTCTTATCACTTTG
Found at i:77434 original size:2 final size:2
Alignment explanation
Indices: 77427--77459 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
77417 TGGGATAAAT
*
77427 TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
77460 TTAAAGAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:77674 original size:22 final size:19
Alignment explanation
Indices: 77649--77691 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 19
77639 TAAAAAAAAT
77649 TATTGTAAAATGAGATAATTTA
1 TATT-TAAAA-GA-ATAATTTA
*
77671 TATTTTAAAGAATAATTTA
1 TATTTAAAAGAATAATTTA
77690 TA
1 TA
77692 CTGACTGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 10 0.50
20 2 0.10
21 4 0.20
22 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (19 bp):
TATTTAAAAGAATAATTTA
Found at i:80228 original size:320 final size:327
Alignment explanation
Indices: 74579--80213 Score: 5732
Period size: 340 Copynumber: 16.9 Consensus size: 327
74569 AGATTTTTCT
* * * * *
74579 TTTGGAATTTCTCTTAT-TAATTTGCAATATGAGATTAAAAAAAATTAATTGTAAAATGAGATAA
1 TTTGGAATTTCTCTTATCAAATTTAC-TTGTGAGATT-AAAAAAGTTAATTGTAAAATGAGATAA
* * *
74643 TTTATCTTTTAAATAATATTTTATATTTATTTAGTGACGGGACGGTCGATACTTTCTATAAAACC
64 TTTATCTTTTAAAGAATATTTTATATTTATTTACTGACGGGACGGACGATACTTTCTATAAAACC
* * * * * *
74708 CGTCAACCTTTCTTGTAAAATTTAAAAATCTAATGATATTAAGTGGAATAAATTCTCTCTATCTC
129 GGCCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGGATAAATTCTCTCTCTCTC
** * *
74773 TTTTTAAAGAGTTCATACAAACAACGATATTTTCA-ATAAAATCAACGAATCGGCTTTTAAAGAC
194 TTTTTAAAGAGTTCATACAAACGGCGATATTTT-ATATAAAATCGACGAATCTGCTTTTAAAGAC
*
74837 ATTAGATTTTTCTTTTGGAATTTTTCTTAACACTTTACAAAAGTGAAACACTTTGCAATACATAG
258 ATTAGATTTCTCTTTTGGAA-TTTT-TT----CTTT----AAGT---ACACTTTGCAATACATAG
*
74902 TTGCATGCAGTGAAATAC
310 TTGCATGCAGTGAAACAC
* * *
74920 TTTGGAATTTTTCTTATCAAATTTACTTGTGAAATTAAAAAAGTTGATTGTAAAATGAGATAATT
1 TTTGGAATTTCTCTTATCAAATTTACTTGTGAGATTAAAAAAGTTAATTGTAAAATGAGATAATT
* * * ** *
74985 TATCTTTTAAATAATATTTTATATTTATTTACTAATGGGATAGACGATACTTTCTATAAAACTGG
66 TATCTTTTAAAGAATATTTTATATTTATTTACTGACGGGACGGACGATACTTTCTATAAAACCGG
* * * * *
75050 GCAACTTTACTTGTAAAATTCAAAAATTTTATGATATTAAGTGGAATAAA-T-T-T-TCTCTCTT
131 CCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGGATAAATTCTCTCTCTCTCTT
* * * * * *
75111 TTTAAAGAGTTTATACAAATGGCGATA-TTTCTATAAAATCGGCGAATCTACTTTTAAAGATATT
196 TTTAAAGAGTTCATACAAACGGCGATATTTTATATAAAATCGACGAATCTGCTTTTAAAGACATT
* * * *
75175 AGATATT-TCTTTTAGAA-TTTCTC-TT-A-T-CACTTTGCAATACATAGTTGCATGAAGGGAAA
261 AGAT-TTCTCTTTTGGAATTTTTTCTTTAAGTACACTTTGCAATACATAGTTGCATGCAGTGAAA
75234 CAC
325 CAC
* * * * *
75237 TCTGTAATTTCTCTTATCAAATTTACTTGTAAGATTAAAAAAGTTAATTGCAAAAAGAGATAATT
1 TTTGGAATTTCTCTTATCAAATTTACTTGTGAGATTAAAAAAGTTAATTGTAAAATGAGATAATT
* *
75302 TATCTTTTAAATAATATTTTATATTTATTTACTGACGGGACGGACGATGCTTTCTATAAAACCGG
66 TATCTTTTAAAGAATATTTTATATTTATTTACTGACGGGACGGACGATACTTTCTATAAAACCGG
* *
75367 CCAACCTTACTTGTAAAATTAAAAAATCTAATGATATTAAGTGGGATAAATTCTCTC-C-ATCTT
131 CCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGGATAAATTCTCTCTCTCTCTT
* * * * * *
75430 TTTAAAGAGTTCATATAAACGGTGATATTTTCTATAAAATCGATGAATCTACTTTTAAAGACAAT
196 TTTAAAGAGTTCATACAAACGGCGATATTTTATATAAAATCGACGAATCTGCTTTTAAAGACATT
* *
75495 AGATTT-TTTTTTGGAATTTCTCTTATTACTTTGTAAAAGTGAAACATTTTGCAATACATAGTTG
261 AGATTTCTCTTTTGGAA--T-T-TT-TT-C-TT-T--AAGT---ACACTTTGCAATACATAGTTG
*
75559 CATGCAGTGAAACAA
313 CATGCAGTGAAACAC
* * *
75574 TTTGGAATTTCTCTTATCAAATTTACTTATGAGATTAAAAAAGTTAATCGTAAAATGAGATCATT
1 TTTGGAATTTCTCTTATCAAATTTACTTGTGAGATTAAAAAAGTTAATTGTAAAATGAGATAATT
* * * * *
75639 TATCATTTAAAGAATATTTTATATTTATTTACTAACGGGATGAACGATACTTTCTATAAAACCGA
66 TATCTTTTAAAGAATATTTTATATTTATTTACTGACGGGACGGACGATACTTTCTATAAAACCGG
* *
75704 TCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGGAAAAATTCTCTCTCTCTCTT
131 CCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGGATAAATTCTCTCTCTCTCTT
* * * * *
75769 TTTAAAGAGTTCATACTAACGGCGATATTTTTTCTAAAATCGGCGAACCTGCTTTTGAAA-ACAT
196 TTTAAAGAGTTCATACAAACGGCGATATTTTATATAAAATCGACGAATCTGCTTTT-AAAGACAT
** * *
75833 TAGAATTT-TCTTTT-GAA--AATTCTTTTA-T-CACTTTACAATACATAGTTGCATGCAGTGAA
260 TAG-ATTTCTCTTTTGGAATTTTTTCTTTAAGTACACTTTGCAATACATAGTTGCATGCAGTGAA
75892 ACAC
324 ACAC
* *
75896 TTTGAAATTTCTCTTATCAAATTTACTTGTGAGATTAATAAAGTTAATTGTAAAATGAGATAATT
1 TTTGGAATTTCTCTTATCAAATTTACTTGTGAGATTAAAAAAGTTAATTGTAAAATGAGATAATT
* * * *
75961 TATCTTTTAAAGAGTATTTTATATTTATTTACTGACGGAACAGACGATGCTTTCTATAAAACCGG
66 TATCTTTTAAAGAATATTTTATATTTATTTACTGACGGGACGGACGATACTTTCTATAAAACCGG
* *
76026 CCAACATTACTTGTAAAATTTAAAAATCTAATGATATTAAGTGGGATAAATTCTTTCTCTCTCTC
131 CCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGGATAAATTC--TCTCTCTCTC
* * * **
76091 TTTTTAAAGAGTTCATACAAACGGAGATATTTTTTATAAAATCGGCGAATCAACTTTTAAAGACA
194 TTTTTAAAGAGTTCATACAAACGGCGATATTTTATATAAAATCGACGAATCTGCTTTTAAAGACA
* * * * * * **
76156 TTAGATTTTTCTTTTGGAA-TTTCTC-TT-A-T-CACTTTGAAAAAGTGAAAAAG-TGAAACACA
259 TTAGATTTCTCTTTTGGAATTTTTTCTTTAAGTACACTTTG--CAA-T-ACATAGTTG-CATGCA
*
76215 TTGCAATACA-
319 GTG-AA-ACAC
*** * * * * * * * *** * **
76225 TAGTTGCAAGGAACGAAACACTT-TGAAATTTTTCTTATCAAATT-TATTTGTGAGATTAAAAAA
1 T--TT----GGAA--TTTCTCTTATCAAA-TTTACTTGTGAGATTAAAAAAGTTA-ATT-GTAAA
* * ** * * * * *
76288 ATTAATTATAAAATGAGATAATTTATCTTTTAAAGAATATTTTATACTTATTTACTAAGGGGATG
55 A-TGA-GAT--AAT-TTAT-CTTT------TAAAGAATATTTTATATTTATTTACTGACGGGACG
* * * *
76353 GATGATACTTTCTATAAAACTGGCCAACCTTACTTGTAAAACTCAAAAATCTGATGATATTAAGT
108 GACGATACTTTCTATAAAACCGGCCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTAAGT
* * * * * *
76418 GGAAAAAATTCTCTCTCTCTCTCTTCTTAAAGAGTTCACACAAAAGGCGGTATTTTCTATAAAAT
173 GGGATAAATTCTCTCTCTCTCT-TT-TTAAAGAGTTCATACAAACGGCGATATTTTATATAAAAT
* **
76483 CGACGAATCTACTTTTAAAGACATTAGATTTCTCTTTCAGAATTTCTCTTATCACTTTGTAAAAA
236 CGACGAATCTGCTTTTAAAGACATTAGATTTCTCTTTTGGAA-TT-T-TT-T--C-TT-T---AA
* * *
76548 CGAAACACTTTGCAATA-AGTAGTTGCATACAATGAAACAC
290 -G-TACACTTTGCAATACA-TAGTTGCATGCAGTGAAACAC
*
76588 TTTGAAATTTCTCTTA-CTAAATTTACTTGTGAGATTAAAAAAGTTAATTGTAAAATGAGATAAT
1 TTTGGAATTTCTCTTATC-AAATTTACTTGTGAGATTAAAAAAGTTAATTGTAAAATGAGATAAT
* * * *
76652 TTATCTTTTAAATAATATTTTATATTTATTTATTGACGAGACGGACGATACTTTCTATAAAATCG
65 TTATCTTTTAAAGAATATTTTATATTTATTTACTGACGGGACGGACGATACTTTCTATAAAACCG
* * *
76717 GTCAACCTTATTTGTAAAATTAAAAAATCTAATGATATTAAGTGGGATAAA-T-TCTCTCTCTC-
130 GCCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGGATAAATTCTCTCTCTCTCT
* * * *
76779 -TTTAAAGAGTTCATACAAACGACAATATTTTTTATAAAATCGACGAATCTGTTTTTAAAGACAT
195 TTTTAAAGAGTTCATACAAACGGCGATATTTTATATAAAATCGACGAATCTGCTTTTAAAGACAT
* *
76843 TAGATTTTTCTTTTGGAATTTCTCTTATTACTTTGCAAAAGTGAAACACTTTGCAATAAATAGTT
260 TAGATTTCTCTTTTGGAA--T-T-TT-TT-CTTT----AAGT---ACACTTTGCAATACATAGTT
*
76908 GCATGCAGTTAAACAC
312 GCATGCAGTGAAACAC
* * *
76924 TTCGGAATTTCTCTTATCAAATTTACTTGTGAGATTAAAAGAGTTAATTGTAAAATGAGATAAAT
1 TTTGGAATTTCTCTTATCAAATTTACTTGTGAGATTAAAAAAGTTAATTGTAAAATGAGATAATT
* * * *
76989 TATCTTTTAAAGAATATTTTACATTTATTTTCTGACGGGACGGATGATACTTTCTATAAAACCGA
66 TATCTTTTAAAGAATATTTTATATTTATTTACTGACGGGACGGACGATACTTTCTATAAAACCGG
* * * * * *
77054 TCAACTTTACTTATAAAATTAAAAAATCTAATGATATTACGTGGGATAAATTCTCTCTCTCTCTC
131 CCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGGATAAATTCTCTCTCTCTCTT
* * * * *
77119 TTTAAAGAGTTCATATAAACGGCAATATTTTCTATAAAATTGGCGAATCTGCTTTTAAAGACAGT
196 TTTAAAGAGTTCATACAAACGGCGATATTTTATATAAAATCGACGAATCTGCTTTTAAAGACA-T
* * * * **
77184 AAAATTT-TCTTTTGGAA-TTTCTC-TT-A-T-CACTTTGCAATACATAGTTGAATAAAGTGAAA
260 TAGATTTCTCTTTTGGAATTTTTTCTTTAAGTACACTTTGCAATACATAGTTGCATGCAGTGAAA
* *
77243 TAT
325 CAC
*
77246 TTTGGAATTTCTCTTATCAAATTTACTAT-TGAGATTAAAAAAGTTAATTGTAAAATGTGATAAT
1 TTTGGAATTTCTCTTATCAAATTTACT-TGTGAGATTAAAAAAGTTAATTGTAAAATGAGATAAT
* * *
77310 TTATCTTTTAAAAAATATTTTATATTTATTTATTGACGGGACGGAC-AGTACTTTTTATAAAACC
65 TTATCTTTTAAAGAATATTTTATATTTATTTACTGACGGGACGGACGA-TACTTTCTATAAAACC
*
77374 GACCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGGATAAATTCTCTCTCTCTC
129 GGCCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGGATAAA-------------
** * *
77439 TCTCTCTCTTTCTCTCTCTCTTTAAAGAGTTCATACAAACAACAATATTTTTTATAAAATCGACG
181 T-TCTCTC--TCTCTCT-T-TTTAAAGAGTTCATACAAACGGCGATATTTTATATAAAATCGACG
* *
77504 AATCTGCTTTTAAAAACATTAGATTTTTCTTTTGGAATTTCTTTTATCACTTTGCAAAAGTGAAA
241 AATCTGCTTTTAAAGACATTAGATTTCTCTTTTGGAA--T-TTTT-T--CTTT----AAGT---A
* *
77569 CACTTTGCAATACATAATTGCATGCAGTGGAACAC
293 CACTTTGCAATACATAGTTGCATGCAGTGAAACAC
* * *
77604 TTTGAAATTTCTCTTATCAAATTTAGTTGTGAGATTAAAAAAAATT-ATTGTAAAATGAGATAAT
1 TTTGGAATTTCTCTTATCAAATTTACTTGTGAGATT-AAAAAAGTTAATTGTAAAATGAGATAAT
* * * *
77668 TTATATTTTAAAG-A-A---TA-ATTTA--TACTGACTGGA-GGAATGATACTTTCTATAAAATC
65 TTATCTTTTAAAGAATATTTTATATTTATTTACTGACGGGACGG-ACGATACTTTCTATAAAACC
* * *
77724 GGTCAACCTTACTTGTAAAATTAAAAAAACTAATGATATTAAGTGGGATAAATTCTCTATCTCTC
129 GGCCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGGATAAATTCTC--TCTCTC
* * * *
77789 TCTTTTTAAAGAGTTTATACAAACGGTGATATTTTTTATAAAATCGGCGAATCTGCTTTTAAAGA
192 TCTTTTTAAAGAGTTCATACAAACGGCGATATTTTATATAAAATCGACGAATCTGCTTTTAAAGA
* * * *
77854 TATTAGATTTTTCTTTTCGAATTTCTCTTATCACTTTGCAAAAGTAAAACACTTTGCAGTACATA
257 CATTAGATTTCTCTTTTGGAA-TT-T-TT-T--CTTT----AAGT---ACACTTTGCAATACATA
* *
77919 ATTGCATGCACTGAAACAC
309 GTTGCATGCAGTGAAACAC
* **
77938 TTTGGAATTTCTCCTATCAAATTTACTTGTGAGATTAAAAAAGTTAATTGTAAAATTTGATAATT
1 TTTGGAATTTCTCTTATCAAATTTACTTGTGAGATTAAAAAAGTTAATTGTAAAATGAGATAATT
*** * *
78003 TATCTTTTAAAGAATATTTTATATTTATTTTA-TGGTAGGACGAACGATACTTTCTATAAAACTG
66 TATCTTTTAAAGAATATTTTATATTTA-TTTACTGACGGGACGGACGATACTTTCTATAAAACCG
* * *
78067 GCCAACCTTACTTGTAAAATTCAATAATCTAATGATATGAAGTGGGATAAATTCTCTCTCACTCT
130 GCCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGGATAAATTCTCTCTCTCTCT
* * * * *
78132 TTTTAAAGAGTTTATACAAACGGCGATATTTTCTATAAAATCGATGAATCTACTTTTAAAGATAT
195 TTTTAAAGAGTTCATACAAACGGCGATATTTTATATAAAATCGACGAATCTGCTTTTAAAGACAT
* * *
78197 TAGATTTTTCTTTTGGAATTTCTGTTATCACTTTGCATAATTGAAACACTTTGCAATAAATAGTT
260 TAGATTTCTCTTTTGGAA-TT-T-TT-T--C-TT---TAA--G-TACACTTTGCAATACATAGTT
78262 GCATGCAGT-ACAACAC
312 GCATGCAGTGA-AACAC
* * * * * * **
78278 TTTAGAATTTTTCTTATTAAATTTACTTGTGAGATAAAAAAATTTTATTGTAAAATTCGATAATT
1 TTTGGAATTTCTCTTATCAAATTTACTTGTGAGATTAAAAAAGTTAATTGTAAAATGAGATAATT
* * * *
78343 TATCTTTTAAAGAATATTTTATATTTATTTACTGACGGGATGGATGGTACTTTCTATAAAACCGA
66 TATCTTTTAAAGAATATTTTATATTTATTTACTGACGGGACGGACGATACTTTCTATAAAACCGG
* *
78408 CTAACCTTACTTGTAAAATTCAAAAATATAATGATATTAAGTGGGATAAATTCTCTCTCTCTCTC
131 CCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGGATAAA-------T-TCTCTC
*
78473 TCTCTCTTTTTAAAGAGTTCATACAAACAGCGATAGTTTT-TAT-AAATCGACGAATCTGCTTTT
188 TCTCTCTTTTTAAAGAGTTCATACAAACGGCGATA-TTTTATATAAAATCGACGAATCTGCTTTT
*
78536 AAAGACATTAG-TTT-TTTTTTGGAATTTCTCTTATTACTTTGTAAAAGTGAAACACTTTGCAAT
252 AAAGACATTAGATTTCTCTTTTGGAA--T-T-TT-TT-C-TT-T--AAGT---ACACTTTGCAAT
*
78599 ATATAGTTGCATGCAGTGAAACAC
304 ACATAGTTGCATGCAGTGAAACAC
*
78623 TTTGGAATTTCTCTTATCAAATTTACTTGTGAGATTAAAAAATTTAATTGTAAAATGAGATAATT
1 TTTGGAATTTCTCTTATCAAATTTACTTGTGAGATTAAAAAAGTTAATTGTAAAATGAGATAATT
*
78688 TATCTTTTAAAGAATATTTTATATTTATTTACTGACGGGACGGACGATACTTTCTATAAAACCGA
66 TATCTTTTAAAGAATATTTTATATTTATTTACTGACGGGACGGACGATACTTTCTATAAAACCGG
* * * * * *
78753 TCAACTTTACCTGTAAAATTC-AAAATCTAATGATATTAAGAGGGATAAATTATCTCTCTCTCTC
131 CCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGGATAAATTCTCTCTCTCTCTT
* * * *
78817 TATAAAGAGTTCATACAAACGGCGATATTTTCTATAAAATCGGCGAATTTGCTTTTAAAGACATT
196 TTTAAAGAGTTCATACAAACGGCGATATTTTATATAAAATCGACGAATCTGCTTTTAAAGACATT
*
78882 AGATATTC-CTTTTAGAATTTCTCTTACTTTGCAAAAGTGAAACACTTTGCAATACATAGTTGCA
261 AGAT-TTCTCTTTTGGAATTT-T-TT-CTTT----AAGT---ACACTTTGCAATACATAGTTGCA
*
78946 TGCAGTGAAATAC
315 TGCAGTGAAACAC
*
78959 TTTGGAATTTCTCTTATCAAATTTACTTGTGAAATTAAAAAAGTTAATTGTAAAATGAGATAATT
1 TTTGGAATTTCTCTTATCAAATTTACTTGTGAGATTAAAAAAGTTAATTGTAAAATGAGATAATT
* * * * *
79024 TATCTTTTAAAGAATATTTTATATTTATTTATTGATGGGACGGATGATACTTTCTATAATATC-G
66 TATCTTTTAAAGAATATTTTATATTTATTTACTGACGGGACGGACGATACTTTCTATAAAACCGG
* * *
79088 ACAA-C---CTTGTACAATTCAAAAATCTAATGATATTAAGTGGGACAAA-T-TCTCTCTCTCTT
131 CCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGGATAAATTCTCTCTCTCTCTT
* * * * * * *
79147 TTTAAAGAGTTCATACGAACGGCAATATTTTCTATAAAATCGGCGATTCCGCTTTTAAAGATATT
196 TTTAAAGAGTTCATACAAACGGCGATATTTTATATAAAATCGACGAATCTGCTTTTAAAGACATT
* * * * * * *
79212 AGATTTTTCTTTTGGAA-TTTCTC-TT-A-T-TAGTTTGCAATACATAGTTGCATGTATTGAAAT
261 AGATTTCTCTTTTGGAATTTTTTCTTTAAGTACACTTTGCAATACATAGTTGCATGCAGTGAAAC
79272 AC
326 AC
* * * *
79274 TTTGAAATTTCTTTTATCAAATTTACTTGTAAGATTAAAAAAGTTAATTGTAAAATGAGATGATT
1 TTTGGAATTTCTCTTATCAAATTTACTTGTGAGATTAAAAAAGTTAATTGTAAAATGAGATAATT
* * * *
79339 TATCTTTTAAAGAATATTTTATATTTATTTAGTGACGTGATGGACGATACTTTCTATAAAACCCG
66 TATCTTTTAAAGAATATTTTATATTTATTTACTGACGGGACGGACGATACTTTCTATAAAACCGG
* ** *
79404 TCAACCTTACTTGTAAAATTTTAAAATCTAATGATA-TAGAGTTGGATAAATTCTCTCTCTCTCT
131 CCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTA-AGTGGGATAAA-T-TCTCTCTCTC-
** * **
79468 TTCTTTTTAAAGAG----TACTGACGGCGATATTTTCA-ATAAAATCGGCGAATCTAATTTTAAA
192 -TCTTTTTAAAGAGTTCATACAAACGGCGATATTTT-ATATAAAATCGACGAATCTGCTTTTAAA
* * *
79528 GACATTAGATTTATGTTTTGGAATTTCTCTTATCATTTTACATAAGTGAAACACTTTGCAATATA
255 GACATTAGATTTCTCTTTTGGAA-TT-T-TT-TC---TT---TAAGT---ACACTTTGCAATACA
* * *
79593 TAATTGTATGCAGTGAGACAC
307 TAGTTGCATGCAGTGAAACAC
* *
79614 TTTGAAAATTT-TCTTATCAAATTTACTTGTGAGATTAAAAAGGTTAATTGTAAAATGAGATAAT
1 TTTG-GAATTTCTCTTATCAAATTTACTTGTGAGATTAAAAAAGTTAATTGTAAAATGAGATAAT
*
79678 TTATCTTTTAAAGAATATTTTATATTTATTTATTGACGGGACGGACGATACTTTCTATAAAACCG
65 TTATCTTTTAAAGAATATTTTATATTTATTTACTGACGGGACGGACGATACTTTCTATAAAACCG
* * *
79743 GCCAACGTTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGGA-AAATT-TTTCTCT-TAA
130 GCCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGGATAAATTCTCTCTCTCT-C
* * * *
79805 TTTTTAAAGAGTTCATAAAAACGGCGATATTTTTTATAAAATCGACGAATATGCTTTTAAAGATA
194 TTTTTAAAGAGTTCATACAAACGGCGATATTTTATATAAAATCGACGAATCTGCTTTTAAAGACA
* *
79870 TTAGATTTTTCTTTTGGAA-TTTCTC-TT-A-T-CACTTTGCAATACATAGTTGCATGCAGTGAA
259 TTAGATTTCTCTTTTGGAATTTTTTCTTTAAGTACACTTTGCAATACATAGTTGCATGCAGTGAA
79930 ACAC
324 ACAC
79934 TTTGGAATTTCTCTTATCAAATTTACTTGTGAGATTAAAAAAGTTAATTGTAAAATGAGATAATT
1 TTTGGAATTTCTCTTATCAAATTTACTTGTGAGATTAAAAAAGTTAATTGTAAAATGAGATAATT
*
79999 TATCTTTTAAAGAATATTTTATATATATTTACTGACGGGACGGACGATACTTTCTATAAAACCGG
66 TATCTTTTAAAGAATATTTTATATTTATTTACTGACGGGACGGACGATACTTTCTATAAAACCGG
*
80064 CCAACCTTACTTGTAAAATTAAAAAATCTAATGATATTAAGTGGGATAAA-T-TCTCTCTCTCTT
131 CCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGGATAAATTCTCTCTCTCTCTT
*
80127 TTTAAAGAGTTCATACAAACGTCGATATTTTATATAAAATCGACGAATCTGCTTTTAAAGACATT
196 TTTAAAGAGTTCATACAAACGGCGATATTTTATATAAAATCGACGAATCTGCTTTTAAAGACATT
80192 AGATTTCTCTTTTGGAATTTTT
261 AGATTTCTCTTTTGGAATTTTT
80214 CTTATCACTT
Statistics
Matches: 4497, Mismatches: 553, Indels: 508
0.81 0.10 0.09
Matches are distributed among these distances:
315 147 0.03
316 4 0.00
317 193 0.04
318 1 0.00
319 46 0.01
320 353 0.08
321 9 0.00
322 444 0.10
323 10 0.00
324 95 0.02
325 10 0.00
326 23 0.01
327 10 0.00
328 12 0.00
329 10 0.00
330 86 0.02
331 15 0.00
332 33 0.01
333 19 0.00
334 204 0.05
335 69 0.02
336 541 0.12
337 260 0.06
338 88 0.02
339 88 0.02
340 752 0.17
341 40 0.01
342 175 0.04
343 7 0.00
344 33 0.01
345 187 0.04
346 8 0.00
347 34 0.01
348 57 0.01
349 10 0.00
350 241 0.05
351 1 0.00
352 8 0.00
353 6 0.00
354 6 0.00
355 19 0.00
356 8 0.00
357 6 0.00
358 88 0.02
359 9 0.00
360 1 0.00
361 2 0.00
362 3 0.00
363 4 0.00
364 10 0.00
365 3 0.00
366 2 0.00
368 7 0.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.39
Consensus pattern (327 bp):
TTTGGAATTTCTCTTATCAAATTTACTTGTGAGATTAAAAAAGTTAATTGTAAAATGAGATAATT
TATCTTTTAAAGAATATTTTATATTTATTTACTGACGGGACGGACGATACTTTCTATAAAACCGG
CCAACCTTACTTGTAAAATTCAAAAATCTAATGATATTAAGTGGGATAAATTCTCTCTCTCTCTT
TTTAAAGAGTTCATACAAACGGCGATATTTTATATAAAATCGACGAATCTGCTTTTAAAGACATT
AGATTTCTCTTTTGGAATTTTTTCTTTAAGTACACTTTGCAATACATAGTTGCATGCAGTGAAAC
AC
Found at i:82092 original size:23 final size:24
Alignment explanation
Indices: 82066--82112 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
82056 TAGGCTTGAT
82066 ATTTAATTT-ATTCAAATTCGAAA
1 ATTTAATTTAATTCAAATTCGAAA
*
82089 ATTTAATTTAATTCAAATTTGAAA
1 ATTTAATTTAATTCAAATTCGAAA
82113 TATGAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (24 bp):
ATTTAATTTAATTCAAATTCGAAA
Found at i:82113 original size:23 final size:22
Alignment explanation
Indices: 82061--82113 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
82051 ATAAATAGGC
*
82061 TTGATATTTAATTTATTCAAAT
1 TTGAAATTTAATTTATTCAAAT
*
82083 TCGAAAATTTAATTTAATTCAAAT
1 TTG-AAATTTAATTT-ATTCAAAT
82107 TTGAAAT
1 TTGAAAT
82114 ATGAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 2 0.08
23 14 0.54
24 10 0.38
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (22 bp):
TTGAAATTTAATTTATTCAAAT
Found at i:85578 original size:73 final size:74
Alignment explanation
Indices: 85436--85595 Score: 207
Period size: 74 Copynumber: 2.2 Consensus size: 74
85426 TGGGGGTTTG
*
85436 GGGAAATAAAAGCTTTAAAGAGAAAATAAAAGGAAAAAAATTTTAAGGATTTGGAGAAAAGTAAA
1 GGGAAATAAAAGCTTTAAAGAGAAAACAAAAGGAAAAAAATTTTAAGGATTTGGAGAAAAGTAAA
*
85501 ATTTTTTAA
66 ATTTTTGAA
* * ** * * *
85510 GGGAGATAAAAGTTTTGGAGAGAAAACAAAA-GAAAAAAAGTTTTGAGG-TTTGGGGGAAAGTAA
1 GGGAAATAAAAGCTTTAAAGAGAAAACAAAAGGAAAAAAA-TTTTAAGGATTTGGAGAAAAGTAA
85573 AATTTTTGAA
65 AATTTTTGAA
85583 GGGAAAGTAAAAG
1 GGGAAA-TAAAAG
85596 GGTTTGAGCG
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
73 35 0.47
74 39 0.53
ACGTcount: A:0.50, C:0.01, G:0.25, T:0.24
Consensus pattern (74 bp):
GGGAAATAAAAGCTTTAAAGAGAAAACAAAAGGAAAAAAATTTTAAGGATTTGGAGAAAAGTAAA
ATTTTTGAA
Found at i:86156 original size:18 final size:19
Alignment explanation
Indices: 86133--86168 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
86123 TTATATTGAT
86133 TCGATTAACTT-ATTTAAC
1 TCGATTAACTTGATTTAAC
*
86151 TCGATTAATTTGATTTAA
1 TCGATTAACTTGATTTAA
86169 AAAATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.47
Consensus pattern (19 bp):
TCGATTAACTTGATTTAAC
Found at i:89748 original size:96 final size:96
Alignment explanation
Indices: 89584--89765 Score: 253
Period size: 96 Copynumber: 1.9 Consensus size: 96
89574 GAGGATGTTC
* ** *
89584 GATTATCTCGATTTGAGGAAAGGTTGCACCTAGTAAGTTAAGGCGCAAATTTTCAGAATCGAAGA
1 GATTATCTCGATTTGAAGAAAAATTACACCTAGTAAGTTAAGGCGCAAATTTTCAGAATCGAAGA
89649 T-AAAGAAACATTGCCTCGATTAAGGGTATTT
66 TAAAAG-AACATTGCCTCGATTAAGGGTATTT
* *
89680 GATTATTTCGATTTGAAGAAAAATTACACCTAGTAAGTTAAGGTGCAAATTTTC-GAAACTCGAA
1 GATTATCTCGATTTGAAGAAAAATTACACCTAGTAAGTTAAGGCGCAAATTTTCAG-AA-TCGAA
*
89744 -ATAAAAGAATATTGCCTCGATT
64 GATAAAAGAACATTGCCTCGATT
89766 TCAAAGTTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
95 1 0.01
96 66 0.87
97 9 0.12
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (96 bp):
GATTATCTCGATTTGAAGAAAAATTACACCTAGTAAGTTAAGGCGCAAATTTTCAGAATCGAAGA
TAAAAGAACATTGCCTCGATTAAGGGTATTT
Found at i:90066 original size:30 final size:29
Alignment explanation
Indices: 90031--90582 Score: 398
Period size: 30 Copynumber: 18.7 Consensus size: 29
90021 GCAAAATGTT
* *
90031 AATTTTGGGAAAGTTTAGGGTTAAAAATGG
1 AATTTTTGG-AAGTTTAGGGTCAAAAATGG
* * *
90061 AATTTTTAGACA-TTCAGGG--AAAAAGGG
1 AATTTTTGGA-AGTTTAGGGTCAAAAATGG
* *
90088 TAA-TTTT-GAGAGTTTCAAGGTCGAAAATGG
1 -AATTTTTGGA-AGTTT-AGGGTCAAAAATGG
* * *
90118 AGTTTTTGGACA--TTCGGGAGC-AAAATGG
1 AATTTTTGGA-AGTTTAGGG-TCAAAAATGG
* *
90146 TAATTTTTGAAAGTTTCGGGGTCAAAAATGG
1 -AATTTTTGGAAGTTT-AGGGTCAAAAATGG
* *
90177 TAATTTTTGAAAGTTTCGGGGTCAAAAATGG
1 -AATTTTTGGAAGTTT-AGGGTCAAAAATGG
* *
90208 AAATTTTGGAAGTTCAGGGGT-AAAAATGG
1 AATTTTTGGAAGTTTA-GGGTCAAAAATGG
*
90237 AATTTTTGGAAGTTTCGGAGTCAAAAATGG
1 AATTTTTGGAAGTTTAGG-GTCAAAAATGG
**
90267 AATTTTTGGAAGTTCCGAGGTCAAAAATGG
1 AATTTTTGGAAGTTTAG-GGTCAAAAATGG
* ** * *
90297 AATTTTTGGGAAATCGAGGATAAAAAAT-G
1 AATTTTT-GGAAGTTTAGGGTCAAAAATGG
90326 AGATTTTTGGAAGTTTTAGGGTCAAAAATGG
1 A-ATTTTTGGAAG-TTTAGGGTCAAAAATGG
** * *
90357 AATTTTTGGAAG-TTAGGGAGAAAAACGA
1 AATTTTTGGAAGTTTAGGGTCAAAAATGG
* *
90385 AATTTTTGGAAGTTTCGAGGACAAAAAT-G
1 AATTTTTGGAAGTTTAG-GGTCAAAAATGG
*
90414 AACTTTTTGGAAGTTTCAAGGTCAAAAATGG
1 AA-TTTTTGGAAGTTT-AGGGTCAAAAATGG
*
90445 AATTTTTGGAAGTTCGAGGGT-AAAAAT-G
1 AATTTTTGGAAGTT-TAGGGTCAAAAATGG
*
90473 ATTTTTTTGGAAGTTTAGGCGGT-AAAAATGG
1 A-ATTTTTGGAAGTTTA-G-GGTCAAAAATGG
* *
90504 AATTTTTGGAAGTTTCAAGGTTAAAAATGG
1 AATTTTTGGAAGTTT-AGGGTCAAAAATGG
** *
90534 AATTTTTGGAAGTTCGGGGGT-AAAAATGT
1 AATTTTTGGAAGTT-TAGGGTCAAAAATGG
*
90563 AATTTTTGAATAGTTTAGGG
1 AATTTTTGGA-AGTTTAGGG
90583 ACCTCCAGGG
Statistics
Matches: 425, Mismatches: 61, Indels: 73
0.76 0.11 0.13
Matches are distributed among these distances:
26 3 0.01
27 13 0.03
28 44 0.10
29 94 0.22
30 212 0.50
31 59 0.14
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (29 bp):
AATTTTTGGAAGTTTAGGGTCAAAAATGG
Found at i:90175 original size:59 final size:58
Alignment explanation
Indices: 90014--90570 Score: 369
Period size: 59 Copynumber: 9.4 Consensus size: 58
90004 ATTTTGAATT
* * * * * *
90014 TTCGGGGGCAAAATGTTAATTTTGGGAAAGTTT-AGGGTTAAAAATGGAATTTTTAGACA-
1 TTCGGGAGCAAAATG-GAATTTTTGG-AAGTTTCGGGGTCAAAAATGGAATTTTTGGA-AG
* ** * *
90073 TTCAGGGA--AAAAGGGTAA-TTTT-GAGAGTTTCAAGGTCGAAAATGGAGTTTTTGGACA-
1 TTC-GGGAGCAAAATGG-AATTTTTGGA-AGTTTCGGGGTCAAAAATGGAATTTTTGGA-AG
* *
90130 TTCGGGAGCAAAATGGTAATTTTTGAAAGTTTCGGGGTCAAAAATGGTAATTTTTGAAAG
1 TTCGGGAGCAAAATGG-AATTTTTGGAAGTTTCGGGGTCAAAAATGG-AATTTTTGGAAG
*
90190 TTTCGGG-GTCAAAAATGGAAATTTTGGAAG-TTCAGGGGT-AAAAATGGAATTTTTGGAAG
1 -TTCGGGAG-C-AAAATGGAATTTTTGGAAGTTTC-GGGGTCAAAAATGGAATTTTTGGAAG
* *
90249 TTTC-GGAGTCAAAAATGGAATTTTTGGAAGTTCCGAGGTCAAAAATGGAATTTTTGGGAA-
1 -TTCGGGAG-C-AAAATGGAATTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTT-GGAAG
* ** **
90309 ATCGAGGATAAAAAAT-GAGATTTTTGGAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAG
1 TTCG-GGA-GCAAAATGGA-ATTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTGGAAG
* * * * * *
90369 TTAGGGAGAAAAACGAAATTTTTGGAAGTTTCGAGGACAAAAAT-GAACTTTTTGGAAG
1 TTCGGGAGCAAAATGGAATTTTTGGAAGTTTCGGGGTCAAAAATGGAA-TTTTTGGAAG
* * *
90427 TTTCAAGG-TCAAAAATGGAATTTTTGGAAG-TTCGAGGGT-AAAAAT-GATTTTTTTGGAAG
1 -TTC-GGGAGC-AAAATGGAATTTTTGGAAGTTTCG-GGGTCAAAAATGGA-ATTTTTGGAAG
* * ** *
90486 TTTAGGCG-GTAAAAATGGAATTTTTGGAAGTTTCAAGGTTAAAAATGGAATTTTTGGAAG
1 -TTCGG-GAG-CAAAATGGAATTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTGGAAG
* * *
90546 TTCGGGGGTAAAAATGTAATTTTTG
1 TTCGGGAG-CAAAATGGAATTTTTG
90571 AATAGTTTAG
Statistics
Matches: 406, Mismatches: 56, Indels: 72
0.76 0.10 0.13
Matches are distributed among these distances:
55 1 0.00
56 10 0.02
57 30 0.07
58 58 0.14
59 149 0.37
60 120 0.30
61 31 0.08
62 7 0.02
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (58 bp):
TTCGGGAGCAAAATGGAATTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTGGAAG
Found at i:90321 original size:89 final size:87
Alignment explanation
Indices: 90105--90570 Score: 416
Period size: 89 Copynumber: 5.2 Consensus size: 87
90095 GAGAGTTTCA
* * ** * *
90105 AGGTCGAAAATGGAGTTTTTGGACATTCG-GGAGCAAAATGGTAATTTTTGAAAGTTTCGGGGTC
1 AGGTCAAAAATGGAATTTTTGGA-ATTCGAGGATAAAAATGG-AATTTTTGGAAGTTTCGGAGTC
*
90169 AAAAATGGTAATTTTTGAAAGTTTCG
64 AAAAATGG-AATTTTTGGAAG-TTCG
* * *
90195 GGGTCAAAAATGGAAATTTTGGAAGTTC-AGGGGTAAAAATGGAATTTTTGGAAGTTTCGGAGTC
1 AGGTCAAAAATGGAATTTTTGGAA-TTCGA-GGATAAAAATGGAATTTTTGGAAGTTTCGGAGTC
90259 AAAAATGGAATTTTTGGAAGTTCCG
64 AAAAATGGAATTTTTGGAAGTT-CG
* *
90284 AGGTCAAAAATGGAATTTTTGGGAAATCGAGGATAAAAAAT-GAGATTTTTGGAAGTTTTAGG-G
1 AGGTCAAAAATGGAATTTTT-GGAATTCGAGGAT-AAAAATGGA-ATTTTTGGAAG-TTTCGGAG
*
90347 TCAAAAATGGAATTTTTGGAAGTTAG
62 TCAAAAATGGAATTTTTGGAAGTTCG
** * * * *
90373 -GGAGAAAAACGAAATTTTTGGAAGTTTCGAGGACAAAAAT-GAACTTTTTGGAAGTTTC-AAGG
1 AGGTCAAAAATGGAATTTTTGGAA--TTCGAGGATAAAAATGGAA-TTTTTGGAAGTTTCGGA-G
90435 TCAAAAATGGAATTTTTGGAAGTTCG
62 TCAAAAATGGAATTTTTGGAAGTTCG
* * * *
90461 AGGGT-AAAAAT-GATTTTTTTGGAAGTT-TAGGCGGTAAAAATGGAATTTTTGGAAGTTTC-AA
1 A-GGTCAAAAATGGA-ATTTTTGGAA-TTCGA-G-GATAAAAATGGAATTTTTGGAAGTTTCGGA
*
90522 GGTTAAAAATGGAATTTTTGGAAGTTCGG
61 -GTCAAAAATGGAATTTTTGGAAGTTC-G
* *
90551 GGGT-AAAAATGTAATTTTTG
1 AGGTCAAAAATGGAATTTTTG
90571 AATAGTTTAG
Statistics
Matches: 317, Mismatches: 37, Indels: 45
0.79 0.09 0.11
Matches are distributed among these distances:
87 9 0.03
88 65 0.21
89 125 0.39
90 104 0.33
91 14 0.04
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (87 bp):
AGGTCAAAAATGGAATTTTTGGAATTCGAGGATAAAAATGGAATTTTTGGAAGTTTCGGAGTCAA
AAATGGAATTTTTGGAAGTTCG
Found at i:91687 original size:3 final size:3
Alignment explanation
Indices: 91634--91669 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
91624 TAATTAATGA
*
91634 TAT TAT TAA TAT TATT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA
91670 AAACAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:91687 original size:27 final size:27
Alignment explanation
Indices: 91649--91701 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
91639 TTAATATTAT
** *
91649 TTATTATTATTATTATTATTAAAACAA
1 TTATTATTATTAAAAATATTAAAACAA
91676 TTATTATTATTAAAAATATTAAAACA
1 TTATTATTATTAAAAATATTAAAACA
91702 TTTAATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (27 bp):
TTATTATTATTAAAAATATTAAAACAA
Found at i:91696 original size:18 final size:19
Alignment explanation
Indices: 91656--91696 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
91646 TATTTATTAT
91656 TATTATTATTATTAAAACA
1 TATTATTATTATTAAAACA
91675 -ATTATTATTATTAAAA-A
1 TATTATTATTATTAAAACA
91692 TATTA
1 TATTA
91697 AAACATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTATTATTATTAAAACA
Found at i:92423 original size:7 final size:6
Alignment explanation
Indices: 92388--92453 Score: 64
Period size: 6 Copynumber: 11.2 Consensus size: 6
92378 TTATAATAAG
* * **
92388 TTAAAT TTAAAT ATAAAT CTAAAT TTAAATT TTAAA- ACAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAA-T TTAAAT TTAAAT TTAAAT
*
92436 TTAAA- ATAAAT TTAAAT T
1 TTAAAT TTAAAT TTAAAT T
92454 CAAAATCAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
5 7 0.15
6 35 0.73
7 6 0.12
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (6 bp):
TTAAAT
Found at i:92440 original size:17 final size:17
Alignment explanation
Indices: 92390--92486 Score: 90
Period size: 17 Copynumber: 5.5 Consensus size: 17
92380 ATAATAAGTT
* *
92390 AAATTTAAATATAAATC
1 AAATTTAAATTTAAAAC
92407 TAAATTTAAATTTTAAAAC
1 -AAATTTAAA-TTTAAAAC
*
92426 AAATTTAAATTTAAAAT
1 AAATTTAAATTTAAAAC
*
92443 AAATTTAAATTCAAAATC
1 AAATTTAAATTTAAAA-C
*
92461 -AATTT-AATCTTAAAAT
1 AAATTTAAAT-TTAAAAC
92477 AAATCTTAAA
1 AAAT-TTAAA
92487 ATGGGTTTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
16 3 0.05
17 35 0.53
18 20 0.30
19 8 0.12
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTTAAATTTAAAAC
Found at i:93270 original size:200 final size:199
Alignment explanation
Indices: 92891--93428 Score: 707
Period size: 200 Copynumber: 2.7 Consensus size: 199
92881 CTCTGTGTTT
* * * *
92891 CACTTCTCCGTATCTCATCAGGAAGCTAACCTTTTTATTGTTTCGCCCTGTTTCTCAGTATCTCA
1 CACTTCTCAGTATTTCATCAGGAAGCTAACCTTTTTATTGCTTCGCCCTGCTTCTCAGTATCTCA
* * * *
92956 TCTGGAAGCTGGGGTCGAAGATTTG-T---TT--GCATTGAGTTGGTATACTTCTCTGTATCTCA
66 TCAGGAAGCTGGGGTAGAAGATTTGCTCCATTGAGCCTCGAGTTGGTATACTTCTCTGTATCTCA
*
93015 TCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTT
131 TCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTACCTCATCAGGAAGACGAATTT
*
93080 GGTC
196 CGTC
* * * *
93084 CACTTCTCAGTATTTCATCAGGAAGCTAACCTTTTTATTGCTTCGTCCTACTTCTCAGTGTCTTA
1 CACTTCTCAGTATTTCATCAGGAAGCTAACCTTTTTATTGCTTCGCCCTGCTTCTCAGTATCTCA
* ** *
93149 TCAGGAAGCTGGGGTAGAAGATTTGCTCGCATTGAGCCTCGAGTTGGTATTCTTCTCTGCGTCCC
66 TCAGGAAGCTGGGGTAGAAGATTTGCTC-CATTGAGCCTCGAGTTGGTATACTTCTCTGTATCTC
* * *
93214 ATCAGGAAGATGACCGCCTTACTTGTTTCAATCCGCTTCTCTGTACCTTATCAGGAAGATGAATT
130 ATCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTACCTCATCAGGAAGACGAATT
93279 TCGTC
195 TCGTC
* **
93284 CACTTCTCAGTATCTT-ATTAAAAAGCTAACC-TTTTATTGCTTCGCCCTGCTTCTCAGTATCTC
1 CACTTCTCAGTAT-TTCATCAGGAAGCTAACCTTTTTATTGCTTCGCCCTGCTTCTCAGTATCTC
** * *
93347 ATCAGGAAGCTGAGATTTGAAGATTTGCTCACATCGAGCC-CTGAGTTGGTATACTTCTCTGTAT
65 ATCAGGAAGCTG-GGGTAGAAGATTTGCTC-CATTGAGCCTC-GAGTTGGTATACTTCTCTGTAT
*
93411 CTCATCAGGAAGCTGACC
127 CTCATCAGGAAGATGACC
93429 ATTTTATGCC
Statistics
Matches: 297, Mismatches: 38, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
193 80 0.27
194 1 0.00
198 2 0.01
199 41 0.14
200 171 0.58
201 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (199 bp):
CACTTCTCAGTATTTCATCAGGAAGCTAACCTTTTTATTGCTTCGCCCTGCTTCTCAGTATCTCA
TCAGGAAGCTGGGGTAGAAGATTTGCTCCATTGAGCCTCGAGTTGGTATACTTCTCTGTATCTCA
TCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTACCTCATCAGGAAGACGAATTT
CGTC
Found at i:101081 original size:21 final size:22
Alignment explanation
Indices: 101040--101082 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
101030 AATTCCCTGC
101040 ATCGCGTTGATTTTCTCCTCTA
1 ATCGCGTTGATTTTCTCCTCTA
101062 ATCGC-TTGTATTTT-TCCTCTA
1 ATCGCGTTG-ATTTTCTCCTCTA
101083 TTTGTCTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.14, C:0.26, G:0.12, T:0.49
Consensus pattern (22 bp):
ATCGCGTTGATTTTCTCCTCTA
Found at i:105542 original size:29 final size:29
Alignment explanation
Indices: 105353--105759 Score: 285
Period size: 30 Copynumber: 13.7 Consensus size: 29
105343 TTTCGAGGGC
* *
105353 AAATGGTAATTTTGGGAAAGTTCGAGGTTAA
1 AAATGG-AATTTTTGG-AAGTTCGAGGGTAA
* *
105384 AAATGGAATTTTTAGACA-TTCG-GGGAAA
1 AAATGGAATTTTTGGA-AGTTCGAGGGTAA
* ***
105412 AAAGGGTAA-TTTT-GAGAGTTTCGAGGACGA
1 AAATGG-AATTTTTGGA-AG-TTCGAGGGTAA
* * * **
105442 AAATGGAGTTTTTGGACGTCCG-GGGGCA
1 AAATGGAATTTTTGGAAGTTCGAGGGTAA
* * *
105470 AAATGGTAATCTTTGAAAGTTTTG-GGGTCAA
1 AAATGG-AATTTTTGGAAG-TTCGAGGGT-AA
* *
105501 AAATGGAAATTTTGGAGGTTCGAGGGTAA
1 AAATGGAATTTTTGGAAGTTCGAGGGTAA
* *
105530 AAAAGGAATTTTTGGAAGTTTCG-GAGTCAA
1 AAATGGAATTTTTGGAAG-TTCGAGGGT-AA
*
105560 AAATGGAATTTTTGAAAGTTTC-AGGGTTAA
1 AAATGGAATTTTTGGAAG-TTCGAGGG-TAA
*
105590 AAATAGAATTTTTGGAAAGTT-GAGGGTAAA
1 AAATGGAATTTTTGG-AAGTTCGAGGGT-AA
* **
105620 AAATGGGATTTTTGGAAGTTTTAGGGTCAA
1 AAATGGAATTTTTGGAAGTTCGAGGGT-AA
*
105650 AAATGGAATTTTTGGAAGTTCGGGGGTAA
1 AAATGGAATTTTTGGAAGTTCGAGGGTAA
* *
105679 AAATGGAATTTTTGGATGTTTCGGGGGTAAA
1 AAATGGAATTTTTGGAAG-TTCGAGGGT-AA
* * *
105710 AAATGGAATTTCTAGAAGTCTGGA-GGTAA
1 AAATGGAATTTTTGGAAGT-TCGAGGGTAA
105739 AAATGGAATTTTTGGATAGTT
1 AAATGGAATTTTTGGA-AGTT
105760 TAGGGACCTC
Statistics
Matches: 299, Mismatches: 54, Indels: 48
0.75 0.13 0.12
Matches are distributed among these distances:
27 3 0.01
28 22 0.07
29 88 0.29
30 148 0.49
31 38 0.13
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (29 bp):
AAATGGAATTTTTGGAAGTTCGAGGGTAA
Found at i:105754 original size:89 final size:87
Alignment explanation
Indices: 105353--105752 Score: 318
Period size: 89 Copynumber: 4.5 Consensus size: 87
105343 TTTCGAGGGC
* * * * * *
105353 AAATGGTAATTTTGGGAAAGTTCGAGGTTAAAAATGGAATTTTTAGACA-TTC-GGGGAAAAAAG
1 AAATGG-AATTTTTGG-AAGTTGGAGGTCAAAAATGGAATTTTT-GAAAGTTCAGGGGTAAAAAT
*
105416 GGTAA-TTTTGAGAGTTTCGA-GG-ACGA
63 GG-AATTTTTG-GAG-TTCGAGGGTA-AA
* * * * * **
105442 AAATGGAGTTTTTGGACGTCCGG-GGGC-AAAATGGTAATCTTTGAAAGTTTTGGGGTCAAAAAT
1 AAATGGAATTTTTGGAAGT-TGGAGGTCAAAAATGG-AATTTTTGAAAGTTCAGGGGT-AAAAAT
*
105505 GGAAATTTTGGAGGTTCGAGGGTAAA
63 GGAATTTTTGGA-GTTCGAGGGTAAA
*
105531 AAA-GGAATTTTTGGAAGTTTCGGA-GTCAAAAATGGAATTTTTGAAAGTTTCAGGGTTAAAAAT
1 AAATGGAATTTTTGGAAG-TT-GGAGGTCAAAAATGGAATTTTTGAAAG-TTCAGGGGTAAAAAT
*
105594 AGAATTTTTGGAAAGTT-GAGGGTAAA
63 GGAATTTTTGG--AGTTCGAGGGTAAA
* ** * *
105620 AAATGGGATTTTTGGAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGG
1 AAATGGAATTTTTGGAAGTTGGA-GGTCAAAAATGGAATTTTTGAAAGTTCAGGGGTAAAAATGG
*
105685 AATTTTTGGATGTTTCGGGGGTAAA
65 AATTTTTGGA-G-TTCGAGGGTAAA
* *
105710 AAATGGAATTTCTAGAAGTCTGGAGGT-AAAAATGGAATTTTTG
1 AAATGGAATTTTTGGAAGT-TGGAGGTCAAAAATGGAATTTTTG
105753 GATAGTTTAG
Statistics
Matches: 252, Mismatches: 36, Indels: 46
0.75 0.11 0.14
Matches are distributed among these distances:
86 10 0.04
87 14 0.06
88 35 0.14
89 111 0.44
90 79 0.31
91 3 0.01
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (87 bp):
AAATGGAATTTTTGGAAGTTGGAGGTCAAAAATGGAATTTTTGAAAGTTCAGGGGTAAAAATGGA
ATTTTTGGAGTTCGAGGGTAAA
Found at i:106822 original size:9 final size:9
Alignment explanation
Indices: 106810--106842 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
106800 TAATTAATGC
106810 TATTATTAA
1 TATTATTAA
106819 TATTATT--
1 TATTATTAA
106826 TATTATTAA
1 TATTATTAA
106835 TATTATTA
1 TATTATTA
106843 TTAAAATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.32
9 15 0.68
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TATTATTAA
Found at i:106829 original size:16 final size:15
Alignment explanation
Indices: 106810--106860 Score: 68
Period size: 15 Copynumber: 3.3 Consensus size: 15
106800 TAATTAATGC
106810 TATTATTAATATTATT
1 TATTATTAATATTA-T
106826 TATTATTAATATTAT
1 TATTATTAATATTAT
*
106841 TATTA-AAATAGTTAT
1 TATTATTAATA-TTAT
106856 TATTA
1 TATTA
106861 GTAAAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
14 4 0.12
15 15 0.45
16 14 0.42
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TATTATTAATATTAT
Found at i:107594 original size:29 final size:29
Alignment explanation
Indices: 107561--107620 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
107551 ATAATAAGTT
*
107561 TTAAATTTAAA-TATAAATCTAAATTTAAA
1 TTAAATTTAAATTATAAAAC-AAATTTAAA
*
107590 TTAAATTTAAATTTTAAAACAAATTTAAA
1 TTAAATTTAAATTATAAAACAAATTTAAA
107619 TT
1 TT
107621 TAAAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (29 bp):
TTAAATTTAAATTATAAAACAAATTTAAA
Found at i:107599 original size:35 final size:34
Alignment explanation
Indices: 107560--107670 Score: 118
Period size: 35 Copynumber: 3.2 Consensus size: 34
107550 TATAATAAGT
* *
107560 TTTAAATTTAAATATAAATCTAAATTTAAATTAAA
1 TTTAAATTTAAA-ACAAATCTAAATTTAAAATAAA
*
107595 TTTAAATTTTAAAACAAATTTAAATTTAAAATAAA
1 TTTAAA-TTTAAAACAAATCTAAATTTAAAATAAA
* *
107630 TTTAAATTCAAAATC-AAT-TTAATCTTAAAATAAA
1 TTTAAATTTAAAA-CAAATCTAAAT-TTAAAATAAA
107664 TCTTAAA
1 T-TTAAA
107671 ATGGATTTAA
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
33 4 0.06
34 20 0.30
35 37 0.55
36 6 0.09
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (34 bp):
TTTAAATTTAAAACAAATCTAAATTTAAAATAAA
Found at i:107600 original size:17 final size:17
Alignment explanation
Indices: 107560--107670 Score: 134
Period size: 17 Copynumber: 6.4 Consensus size: 17
107550 TATAATAAGT
107560 TTTAAATTTAAATATAAA
1 TTTAAATTTAAA-ATAAA
* *
107578 TCTAAATTTAAATTAAA
1 TTTAAATTTAAAATAAA
*
107595 TTTAAATTTTAAAACAAA
1 TTTAAA-TTTAAAATAAA
107613 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* *
107630 TTTAAATTCAAAATCAA
1 TTTAAATTTAAAATAAA
107647 TTT-AATCTTAAAATAAA
1 TTTAAAT-TTAAAATAAA
107664 TCTTAAA
1 T-TTAAA
107671 ATGGATTTAA
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
16 3 0.04
17 46 0.58
18 28 0.35
19 2 0.03
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:107626 original size:7 final size:6
Alignment explanation
Indices: 107560--107637 Score: 81
Period size: 6 Copynumber: 13.3 Consensus size: 6
107550 TATAATAAGT
* *
107560 TTTAAA TTTAAA TATAAA TCTAAA TTTAAA -TTAAA TTTAAA TTTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA
** *
107608 -ACAAA TTTAAA TTTAAA -ATAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT
107638 CAAAATCAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
5 12 0.20
6 41 0.69
7 6 0.10
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:108978 original size:38 final size:38
Alignment explanation
Indices: 108927--109004 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
108917 TCATTTATTT
* *
108927 AACAGATACAGATATCTGAAGAAATCGAACTCGAGTCA
1 AACAGATACAGATAGCTGAAGAAATCGAACCCGAGTCA
*
108965 AACAGATACAGATAGCTGAAGAAATCGGACCCGAGTCA
1 AACAGATACAGATAGCTGAAGAAATCGAACCCGAGTCA
109003 AA
1 AA
109005 TTTTCTACCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (38 bp):
AACAGATACAGATAGCTGAAGAAATCGAACCCGAGTCA
Found at i:114898 original size:59 final size:58
Alignment explanation
Indices: 114776--115212 Score: 328
Period size: 59 Copynumber: 7.5 Consensus size: 58
114766 ATTTGGGGTT
* * * * *
114776 TAAAAATGGTATTTTTAGACATTCG-GGGT-AAAAGGGCAA-TTTT-GAGAGTTTTGAGG
1 TAAAAATGGAATTTTTGGAAATTCGAGGGTAAAAATGG-AATTTTTGGA-AGTTTCGAGG
* *
114832 TCGAAAATGGAATTTTTGGAAATTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTGAGG
1 T-AAAAATGGAATTTTTGGAAATTCGAGGGTAAAAATGGAATTTTTGGAAGTTTCGAGG
* * *
114891 TCAAAAATGGAATTTTTGGAAGTTCG-GTGTAAAAAATGGAATTTTTGGAAGTTTCGGGG
1 T-AAAAATGGAATTTTTGGAAATTCGAGGGT-AAAAATGGAATTTTTGGAAGTTTCGAGG
* * * * *
114950 TAAAAAAT-GAGATTTTTGGAAGTTTGGGGGTAAAANT-GAGA-TTTTGGAAG-TTCAGGGG
1 T-AAAAATGGA-ATTTTTGGAAATTCGAGGGTAAAAATGGA-ATTTTTGGAAGTTTC-GAGG
* *
115008 TAAAAATGGAATTTTTGGAAGTTTCG-GGGTCAAAAATAGG-ATTTTTTGAAG-TTCGAGGG
1 TAAAAATGGAATTTTTGGAA-ATTCGAGGGT-AAAAAT-GGAATTTTTGGAAGTTTCGA-GG
* * * * * * *
115067 TAAAATTGGGATTTTTTGGAAGTTTC-AGGATAAAAATGGGATTTTTGGAAGTTTGGGGG
1 TAAAAAT-GGAATTTTTGGAA-ATTCGAGGGTAAAAATGGAATTTTTGGAAGTTTCGAGG
** * ** *
115126 TAAAAATGGAATTTTTATAAGTTTTAGGGTCAAAAATGGGATTTTTGGAAG-TTCGAGGG
1 TAAAAATGGAATTTTTGGAAATTCGAGGGT-AAAAATGGAATTTTTGGAAGTTTCGA-GG
*
115185 TAAAAATGGAA-TTTTCGAAAGTTCGAGG
1 TAAAAATGGAATTTTTGGAAA-TTCGAGG
115213 ACCTATAGGG
Statistics
Matches: 317, Mismatches: 39, Indels: 47
0.79 0.10 0.12
Matches are distributed among these distances:
56 1 0.00
57 45 0.14
58 64 0.20
59 178 0.56
60 29 0.09
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.34
Consensus pattern (58 bp):
TAAAAATGGAATTTTTGGAAATTCGAGGGTAAAAATGGAATTTTTGGAAGTTTCGAGG
Found at i:114899 original size:30 final size:29
Alignment explanation
Indices: 114835--115212 Score: 341
Period size: 29 Copynumber: 12.9 Consensus size: 29
114825 TTTGAGGTCG
*
114835 AAAATGGAATTTTTGGAA-ATTCGAGGGTA
1 AAAATGGAATTTTTGGAAGTTTCGA-GGTA
*
114864 AAAATGGAATTTTTGGAAGTTTTGAGGTCA
1 AAAATGGAATTTTTGGAAGTTTCGAGGT-A
114894 AAAATGGAATTTTTGGAAG-TTCG-GTGTAA
1 AAAATGGAATTTTTGGAAGTTTCGAG-GT-A
*
114923 AAAATGGAATTTTTGGAAGTTTCGGGGTAA
1 AAAATGGAATTTTTGGAAGTTTCGAGGT-A
* *
114953 AAAAT-GAGATTTTTGGAAGTTTGGGGGTA
1 AAAATGGA-ATTTTTGGAAGTTTCGAGGTA
* *
114982 AAANT-GAGA-TTTTGGAAG-TTCAGGGGTA
1 AAAATGGA-ATTTTTGGAAGTTTC-GAGGTA
*
115010 AAAATGGAATTTTTGGAAGTTTCGGGGTCA
1 AAAATGGAATTTTTGGAAGTTTCGAGGT-A
*
115040 AAAATAGG-ATTTTTTGAAG-TTCGAGGGTA
1 AAAAT-GGAATTTTTGGAAGTTTCGA-GGTA
* *
115069 AAATTGGGATTTTTTGGAAGTTTC-AGGATA
1 AAAAT-GGAATTTTTGGAAGTTTCGAGG-TA
* * *
115099 AAAATGGGATTTTTGGAAGTTTGGGGGTA
1 AAAATGGAATTTTTGGAAGTTTCGAGGTA
** *
115128 AAAATGGAATTTTTATAAGTTT-TAGGGTCA
1 AAAATGGAATTTTTGGAAGTTTCGA-GGT-A
*
115158 AAAATGGGATTTTTGGAAG-TTCGAGGGTA
1 AAAATGGAATTTTTGGAAGTTTCGA-GGTA
* *
115187 AAAATGGAATTTTCGAAAG-TTCGAGG
1 AAAATGGAATTTTTGGAAGTTTCGAGG
115213 ACCTATAGGG
Statistics
Matches: 298, Mismatches: 31, Indels: 41
0.81 0.08 0.11
Matches are distributed among these distances:
27 2 0.01
28 23 0.08
29 149 0.50
30 118 0.40
31 6 0.02
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.34
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAAGTTTCGAGGTA
Found at i:117661 original size:206 final size:206
Alignment explanation
Indices: 117307--118178 Score: 1501
Period size: 206 Copynumber: 4.2 Consensus size: 206
117297 GAGTTGGTAT
* * *
117307 ACTTCTCCGTGTCTCATCAGGAGGCTAACCATTTTATTATTTCGACCTGCTTCTCGGTATCTCAT
1 ACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTATTTCGACCTGCTTCTCGGTATCTCAT
* * *
117372 TAGGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGT
66 CAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGT
117437 ATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAGAC
131 ATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAGAC
117502 GAATTTGGTTC
196 GAATTTGGTTC
* * **
117513 ACTTCTCAGTATCTCATTAGGAAGCTAACAATTTTATTGCTTCGACCTGCTTCTCGGTATCTCAT
1 ACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTATTTCGACCTGCTTCTCGGTATCTCAT
* * **
117578 CAGGAAGCTGGGGTTCGAAGATTTGTTCACATCTAGTGTGGGTTTGATTTGGTCTTCTTCTCAGT
66 CAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGT
* *
117643 ATCTCATCAGGAAGATGACCGCATTGCTTGTTTCAATCCTCTTCTCTGTATCTCATCAAGAAGAC
131 ATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAGAC
117708 GAATTTGGTTC
196 GAATTTGGTTC
*
117719 ACTTCTCAGTATCTCATTAGGAAGCTAACCATTTTATTATTTCGACCTGCTTCTCGGTATCTCAT
1 ACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTATTTCGACCTGCTTCTCGGTATCTCAT
* * *
117784 TAGGAAGCTGGGGTTCGAAGATTTGCTCGCATCGAACATGGGTTTGATTTGGTCTTCTTCTCAGT
66 CAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGT
* *
117849 ATCTCATTAGGAAGATGACTGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAGAC
131 ATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAGAC
117914 GAATTTGGTTC
196 GAATTTGGTTC
**
117925 ACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCGGTATCTCAT
1 ACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTATTTCGACCTGCTTCTCGGTATCTCAT
*
117990 CAGGAAGCTGGGGTTCGAAGATTTGCTCGCATCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGT
66 CAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGT
* *
118055 ATCTCATCAAGAAGATGACCACATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAGAC
131 ATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAGAC
118120 GAATTTGGTTC
196 GAATTTGGTTC
118131 ACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTATTTCGACCT
1 ACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTATTTCGACCT
118179 TCGAAGATTT
Statistics
Matches: 627, Mismatches: 39, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
206 627 1.00
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.36
Consensus pattern (206 bp):
ACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTATTTCGACCTGCTTCTCGGTATCTCAT
CAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGT
ATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAGAC
GAATTTGGTTC
Found at i:118294 original size:175 final size:175
Alignment explanation
Indices: 118003--118353 Score: 594
Period size: 175 Copynumber: 2.0 Consensus size: 175
117993 GAAGCTGGGG
* * *
118003 TTCGAAGATTTGCTCGCATCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAAGAA
1 TTCGAAGATTTGCTCGCATCAAGCATGAGTTTGATTTGGTCTTCTTCTCAATATCTCATCAAGAA
*
118068 GATGACCACATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAGACGAATTTGGTTCAC
66 GATGACCACATCGCTTGTTTCAATCCGCTTCTCTGTATCTAATCAAGAAGACGAATTTGGTTCAC
*
118133 TTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTATTTCGACC
131 TTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACC
* * * *
118178 TTCGAAGATTTGCTTGCATCAAGCATGAGTTTGATTTGGTCTTCTTCTTAATATCTCATTAGGAA
1 TTCGAAGATTTGCTCGCATCAAGCATGAGTTTGATTTGGTCTTCTTCTCAATATCTCATCAAGAA
**
118243 GATGACTGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTAATCAAGAAGACGAATTTGGTTCAC
66 GATGACCACATCGCTTGTTTCAATCCGCTTCTCTGTATCTAATCAAGAAGACGAATTTGGTTCAC
*
118308 TTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACC
131 TTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACC
118353 T
1 T
118354 GCTTCTCGGT
Statistics
Matches: 164, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
175 164 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.36
Consensus pattern (175 bp):
TTCGAAGATTTGCTCGCATCAAGCATGAGTTTGATTTGGTCTTCTTCTCAATATCTCATCAAGAA
GATGACCACATCGCTTGTTTCAATCCGCTTCTCTGTATCTAATCAAGAAGACGAATTTGGTTCAC
TTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACC
Found at i:118328 original size:86 final size:84
Alignment explanation
Indices: 118046--118329 Score: 236
Period size: 86 Copynumber: 3.3 Consensus size: 84
118036 ATTTGGTCTT
*
118046 CTTCTCAGTATCTCATCAAGAAGATGACCACATCGCTTGTTTCAATCCGCTTCTCTGTATCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGA-C-CATCGCTTGTTTCAATCCGCTTCTCTGTATCTCAT
118111 CAAGAAGACGAATTTGGTTCA
64 CAAGAAGACGAATTTGGTTCA
* * *** * * *** *
118132 CTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTATTTCGA--C-CTTCGAAGATTTGCTTG
1 CTTCTCAGTATCTCATCAGGAAGATGACCA-TCGCTTGTTTCAATCCGCTTCTCTG-TAT-C-T-
* * *
118194 CATCAAGCATGA-GTTTGATTTGG-TCTT
61 CATCAAG-AAGACG---AATTTGGTTC-A
* * * *
118221 CTTCTTAATATCTCATTAGGAAGATGACTGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTAAT
1 CTTCTCAGTATCTCATCAGGAAGATGAC--CATCGCTTGTTTCAATCCGCTTCTCTGTATCTCAT
118286 CAAGAAGACGAATTTGGTTCA
64 CAAGAAGACGAATTTGGTTCA
118307 CTTCTCAGTATCTCATCAGGAAG
1 CTTCTCAGTATCTCATCAGGAAG
118330 CTAACCATTT
Statistics
Matches: 145, Mismatches: 36, Indels: 34
0.67 0.17 0.16
Matches are distributed among these distances:
82 5 0.03
83 3 0.02
84 3 0.02
85 10 0.07
86 58 0.40
87 5 0.03
88 5 0.03
89 36 0.25
90 9 0.06
91 3 0.02
92 3 0.02
93 5 0.03
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.36
Consensus pattern (84 bp):
CTTCTCAGTATCTCATCAGGAAGATGACCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCA
AGAAGACGAATTTGGTTCA
Found at i:130315 original size:59 final size:59
Alignment explanation
Indices: 130252--130423 Score: 242
Period size: 59 Copynumber: 2.9 Consensus size: 59
130242 AAAAGGGTAA
*
130252 TTTTGAG-AGTTTTGAGGTCGAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATAAAAT
1 TTTTGAGAAGTTTTGAGGTC-AAAATGGGATTTTTGGAAGTTCGAGGGTAAAAATAAAAT
* * * *
130311 TTTTG-GAAGTTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGTGGTAAAAACAGAAT
1 TTTTGAGAAGTTTTGAGGTC-AAAATGGGATTTTTGGAAGTTCGAG-GGTAAAAATAAAAT
*
130371 TTTT-AGAAGTTTTGAGGTCAAAATGGGATTTTTGGAAGTTCGAGAGTAAAAAT
1 TTTTGAGAAGTTTTGAGGTCAAAATGGGATTTTTGGAAGTTCGAGGGTAAAAAT
130424 GGAATTTTCG
Statistics
Matches: 100, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
58 8 0.08
59 64 0.64
60 28 0.28
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.34
Consensus pattern (59 bp):
TTTTGAGAAGTTTTGAGGTCAAAATGGGATTTTTGGAAGTTCGAGGGTAAAAATAAAAT
Found at i:130343 original size:30 final size:29
Alignment explanation
Indices: 130272--130441 Score: 182
Period size: 29 Copynumber: 5.8 Consensus size: 29
130262 TTTGAGGTCG
130272 AAAATGGAATTTTTGGAAGTTCGAGGGTA
1 AAAATGGAATTTTTGGAAGTTCGAGGGTA
**
130301 AAAATAAAATTTTTGGAAGTTTCG-GGGTCA
1 AAAATGGAATTTTTGGAAG-TTCGAGGGT-A
*
130331 AAAATGGGATTTTTGGAAGTTCGAGTGGTA
1 AAAATGGAATTTTTGGAAGTTCGAG-GGTA
** * * *
130361 AAAACAGAATTTTTAGAAGTTTTGA-GGTC
1 AAAATGGAATTTTTGGAAG-TTCGAGGGTA
* *
130390 AAAATGGGATTTTTGGAAGTTCGAGAGTA
1 AAAATGGAATTTTTGGAAGTTCGAGGGTA
* *
130419 AAAATGGAATTTTCGAAAGTTCG
1 AAAATGGAATTTTTGGAAGTTCG
130442 GGGACCTCTA
Statistics
Matches: 114, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
28 4 0.04
29 65 0.57
30 38 0.33
31 7 0.06
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.32
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAAGTTCGAGGGTA
Found at i:131233 original size:13 final size:13
Alignment explanation
Indices: 131215--131239 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
131205 AAGGTAAAAG
131215 TCTTTTCTTTTTC
1 TCTTTTCTTTTTC
131228 TCTTTTCTTTTT
1 TCTTTTCTTTTT
131240 AAAAAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TCTTTTCTTTTTC
Found at i:131482 original size:30 final size:31
Alignment explanation
Indices: 131442--131519 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
131432 TTATTAATGA
*
131442 TATTATTTATTTTTATTAAT-AAATTCATTAC
1 TATTA-TTATTATTATTAATCAAATTCATTAC
* * * *
131473 TGTTATTATTAATATT-ATCATATTCATTAT
1 TATTATTATTATTATTAATCAAATTCATTAC
131503 TATTATTATTATTATTA
1 TATTATTATTATTATTA
131520 TTATTATTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
29 2 0.05
30 32 0.84
31 4 0.11
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (31 bp):
TATTATTATTATTATTAATCAAATTCATTAC
Found at i:131483 original size:3 final size:3
Alignment explanation
Indices: 131475--131541 Score: 100
Period size: 3 Copynumber: 22.3 Consensus size: 3
131465 TTCATTACTG
* *
131475 TTA TTA TTA ATA TTA TCA -TA TTCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
131520 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
131542 GAATCGTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 1 0.02
3 54 0.93
4 3 0.05
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:132138 original size:17 final size:17
Alignment explanation
Indices: 132116--132178 Score: 101
Period size: 17 Copynumber: 3.7 Consensus size: 17
132106 TTGAACATTT
132116 TAAATTTAAATTT-ATAA
1 TAAATTTAAATTTCA-AA
132133 TAAATTTAAATTTCAAA
1 TAAATTTAAATTTCAAA
132150 TAAATTTAAATTTCAAA
1 TAAATTTAAATTTCAAA
*
132167 TAAATTCAAATT
1 TAAATTTAAATT
132179 CCAATAGACC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
17 43 0.98
18 1 0.02
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATTTAAATTTCAAA
Found at i:132167 original size:7 final size:6
Alignment explanation
Indices: 132114--132167 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
132104 AATTGAACAT
132114 TTTAAA TTTAAA TTTATAA --TAAA TTTAAA TTTCAAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA
132160 TTTCAAA T
1 TTT-AAA T
132168 AAATTCAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
4 5 0.12
5 3 0.07
6 24 0.59
7 9 0.22
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:144210 original size:6 final size:6
Alignment explanation
Indices: 144201--144225 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
144191 AATCCTAATT
144201 CAACGA CAACGA CAACGA CAACGA C
1 CAACGA CAACGA CAACGA CAACGA C
144226 GAGTTCGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.36, G:0.16, T:0.00
Consensus pattern (6 bp):
CAACGA
Found at i:145003 original size:79 final size:79
Alignment explanation
Indices: 144872--145032 Score: 313
Period size: 79 Copynumber: 2.0 Consensus size: 79
144862 GGAGCAAGGC
*
144872 AAAGAATATATTATCCAAAATGTCAATGGCAGTTCCTTTTAGTTACACGCTGACAGCTGGCAATT
1 AAAGAATATATTATCCAAAATGTCAATGGCAGTTCCTTTTAGTTACACGCTGACAGCTAGCAATT
144937 AACAAGTATTTCAT
66 AACAAGTATTTCAT
144951 AAAGAATATATTATCCAAAATGTCAATGGCAGTTCCTTTTAGTTACACGCTGACAGCTAGCAATT
1 AAAGAATATATTATCCAAAATGTCAATGGCAGTTCCTTTTAGTTACACGCTGACAGCTAGCAATT
145016 AACAAGTATTTCAT
66 AACAAGTATTTCAT
145030 AAA
1 AAA
145033 TTCTGGATTT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (79 bp):
AAAGAATATATTATCCAAAATGTCAATGGCAGTTCCTTTTAGTTACACGCTGACAGCTAGCAATT
AACAAGTATTTCAT
Found at i:146284 original size:22 final size:24
Alignment explanation
Indices: 146241--146302 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
146231 TAAAACACAT
146241 TAAAATTATAAAAATATATATATA
1 TAAAATTATAAAAATATATATATA
*
146265 TAAAA-TATGAAAAATATATAT-TT
1 TAAAATTAT-AAAAATATATATATA
*
146288 TAAAATTTTAAAAAT
1 TAAAATTATAAAAAT
146303 TAATTAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 15 0.44
24 19 0.56
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (24 bp):
TAAAATTATAAAAATATATATATA
Found at i:146340 original size:12 final size:12
Alignment explanation
Indices: 146323--146347 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
146313 TTGTTATGTC
146323 ATTCACGTGACA
1 ATTCACGTGACA
146335 ATTCACGTGACA
1 ATTCACGTGACA
146347 A
1 A
146348 ATATTAATTT
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:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (12 bp):
ATTCACGTGACA
Found at i:161238 original size:6 final size:7
Alignment explanation
Indices: 161220--161246 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
161210 ACGTTCTTCC
161220 ATTTTTT
1 ATTTTTT
161227 ATTTTTT
1 ATTTTTT
161234 ATTTTTT
1 ATTTTTT
161241 ATTTTT
1 ATTTTT
161247 CCTTTTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:163023 original size:11 final size:11
Alignment explanation
Indices: 163007--163033 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
162997 TGAAATATAT
163007 AAAATTAGTTC
1 AAAATTAGTTC
163018 AAAATTAGTTC
1 AAAATTAGTTC
163029 AAAAT
1 AAAAT
163034 GGATCTAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (11 bp):
AAAATTAGTTC
Found at i:163346 original size:8 final size:9
Alignment explanation
Indices: 163323--163351 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
163313 ACATTTAATT
163323 AATTTTTAA
1 AATTTTTAA
163332 AATTTTTAA
1 AATTTTTAA
163341 AATTTTTAA
1 AATTTTTAA
163350 AA
1 AA
163352 ATAAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
AATTTTTAA
Found at i:171590 original size:97 final size:97
Alignment explanation
Indices: 171424--171639 Score: 389
Period size: 97 Copynumber: 2.2 Consensus size: 97
171414 TAGTTAAGTA
* *
171424 GAGGGACTCTAAGTGGCGGCACAAAGAGGTATTTCTGACACGTGTTTTTTTATTTTTTTTATATA
1 GAGGGATTCTAAGTGGCGGCACAAAGAGATATTTCTGACACGTGTTTTTTTATTTTTTTTATATA
171489 TTTAAAAATAAAAAAATATTATTTTATTAGTG
66 TTTAAAAATAAAAAAATATTATTTTATTAGTG
171521 GAGGGATTCTAAGTGGCGGCACAAAGAGATATTTCTGACACGTGTTTTTTTATTTTTTTTATATA
1 GAGGGATTCTAAGTGGCGGCACAAAGAGATATTTCTGACACGTGTTTTTTTATTTTTTTTATATA
171586 TTTAAAAATAAAAAAATATTATTTTATTAGTG
66 TTTAAAAATAAAAAAATATTATTTTATTAGTG
*
171618 GAGGGACTT-AAAGTGGCGGCAC
1 GAGGGA-TTCTAAGTGGCGGCAC
171640 TCAGGGTTTT
Statistics
Matches: 115, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
97 113 0.98
98 2 0.02
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (97 bp):
GAGGGATTCTAAGTGGCGGCACAAAGAGATATTTCTGACACGTGTTTTTTTATTTTTTTTATATA
TTTAAAAATAAAAAAATATTATTTTATTAGTG
Found at i:171976 original size:9 final size:9
Alignment explanation
Indices: 171962--171994 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
171952 AATGAAGAAG
171962 GAAGAAGGA
1 GAAGAAGGA
*
171971 GAAGAAGGG
1 GAAGAAGGA
171980 GAAGAAGGA
1 GAAGAAGGA
171989 GAAGAA
1 GAAGAA
171995 AAAAAATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (9 bp):
GAAGAAGGA
Found at i:173738 original size:40 final size:40
Alignment explanation
Indices: 173688--173783 Score: 113
Period size: 43 Copynumber: 2.3 Consensus size: 40
173678 GTATGTTATT
*
173688 CATTAACATGTTAAATTATATTACTTGACTCGTATTAATA
1 CATTGACATGTTAAATTATATTACTTGACTCGTATTAATA
* *
173728 CAGTTG-CATGTTACTAAATTATATTACTTTACTCTTATTAATA
1 CA-TTGACATG-T--TAAATTATATTACTTGACTCGTATTAATA
*
173771 TATTGACATGTTA
1 CATTGACATGTTA
173784 TTAATTATGC
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
40 8 0.17
41 3 0.06
42 4 0.09
43 32 0.68
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.45
Consensus pattern (40 bp):
CATTGACATGTTAAATTATATTACTTGACTCGTATTAATA
Found at i:173748 original size:43 final size:42
Alignment explanation
Indices: 173699--173791 Score: 125
Period size: 43 Copynumber: 2.2 Consensus size: 42
173689 ATTAACATGT
173699 TAAATTATATTACTTGACTCGTATTAATACAGTTG-CATGTTA
1 TAAATTATATTACTTGACTCGTATTAATACA-TTGACATGTTA
* * *
173741 CTAAATTATATTACTTTACTCTTATTAATATATTGACATGTTA
1 -TAAATTATATTACTTGACTCGTATTAATACATTGACATGTTA
*
173784 TTAATTAT
1 TAAATTAT
173792 GCAGTTCATC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
42 10 0.22
43 35 0.78
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (42 bp):
TAAATTATATTACTTGACTCGTATTAATACATTGACATGTTA
Found at i:174424 original size:45 final size:44
Alignment explanation
Indices: 174350--174473 Score: 167
Period size: 45 Copynumber: 2.8 Consensus size: 44
174340 GCATAGTTCA
* *
174350 TCAAGCCAAGGATATCAGCCTCAGCTTGACGAGCCACCGCAATAC
1 TCAAGACAAGGATATCAG-CTCAGTTTGACGAGCCACCGCAATAC
*
174395 TCAAGACAAGGATATCATGCTCAATTTGACGAGCCACCGCAATAC
1 TCAAGACAAGGATATCA-GCTCAGTTTGACGAGCCACCGCAATAC
** *
174440 TCAAGGGAAGGATATCAGGCTGAGTTTGACGAGC
1 TCAAGACAAGGATATCA-GCTCAGTTTGACGAGC
174474 ACTGCGATAC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
45 69 0.99
46 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (44 bp):
TCAAGACAAGGATATCAGCTCAGTTTGACGAGCCACCGCAATAC
Found at i:174794 original size:28 final size:27
Alignment explanation
Indices: 174752--174828 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 27
174742 TTAAACCCTA
* * *
174752 AAACC-TAAATTATAAACTCTAGACTT
1 AAACCTTAAATCATAAACACTAAACTT
174778 GAAACCTTAAATCATAAACACTAAACTT
1 -AAACCTTAAATCATAAACACTAAACTT
* * *
174806 AAAACTCTAAATCGTAAATACTA
1 AAACCT-TAAATCATAAACACTA
174829 GATTGATTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 10 0.24
28 32 0.76
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.27
Consensus pattern (27 bp):
AAACCTTAAATCATAAACACTAAACTT
Found at i:177858 original size:4 final size:4
Alignment explanation
Indices: 177838--177910 Score: 51
Period size: 4 Copynumber: 18.2 Consensus size: 4
177828 AACACATTAC
* * * * *
177838 CTTT CTTT CCTT -MTT CTTT CTTT CCTCT CCTT C-TT CTTT CTTT CCTCT
1 CTTT CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT -CTTT
* *
177886 CCTT CTTC CTTT CTTT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT C
177911 CCGTTTATTT
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
3 5 0.09
4 42 0.79
5 6 0.11
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.63
Consensus pattern (4 bp):
CTTT
Found at i:177890 original size:17 final size:17
Alignment explanation
Indices: 177838--177898 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 17
177828 AACACATTAC
*
177838 CTTTCTTTCCT-T-MTT
1 CTTTCTTTCCTCTCCTT
177853 CTTTCTTTCCTCTCCTTCTT
1 CTTTCTTTCCTCT-C--CTT
177873 CTTTCTTTCCTCTCCTT
1 CTTTCTTTCCTCTCCTT
*
177890 CTTCCTTTC
1 CTTTCTTTC
177899 TTTCTTTCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
15 11 0.28
16 1 0.03
17 11 0.28
19 1 0.03
20 15 0.38
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.61
Consensus pattern (17 bp):
CTTTCTTTCCTCTCCTT
Found at i:177906 original size:25 final size:20
Alignment explanation
Indices: 177845--177902 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
177835 TACCTTTCTT
*
177845 TCCTTMTTCTTTCTTTCCTC
1 TCCTTCTTCTTTCTTTCCTC
177865 TCCTTCTTCTTTCTTTCCTC
1 TCCTTCTTCTTTCTTTCCTC
177885 TCCTTCTTCCTTTCTTTC
1 TCCTTCTT-CTTTCTTTC
177903 TTTCTTTCCC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 27 0.75
21 9 0.25
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.60
Consensus pattern (20 bp):
TCCTTCTTCTTTCTTTCCTC
Found at i:187356 original size:23 final size:22
Alignment explanation
Indices: 187330--187404 Score: 87
Period size: 23 Copynumber: 3.3 Consensus size: 22
187320 AACAGCACTG
*
187330 AAAACAATACTAAAATAGAACCA
1 AAAACAATACTAAAAT-GCACCA
* * *
187353 AAAACAGTACCAAACTGCACCA
1 AAAACAATACTAAAATGCACCA
*
187375 AAAACAGTACTAAAACTGCACCA
1 AAAACAATACTAAAA-TGCACCA
187398 AAAACAA
1 AAAACAA
187405 CATCAAATCA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 18 0.41
23 26 0.59
ACGTcount: A:0.59, C:0.24, G:0.07, T:0.11
Consensus pattern (22 bp):
AAAACAATACTAAAATGCACCA
Found at i:187446 original size:23 final size:23
Alignment explanation
Indices: 187349--187449 Score: 114
Period size: 23 Copynumber: 4.4 Consensus size: 23
187339 CTAAAATAGA
187349 ACCAAAAACAGTACCAAA-CTGC
1 ACCAAAAACAGTACCAAATCTGC
* *
187371 ACCAAAAACAGTACTAAAACTGC
1 ACCAAAAACAGTACCAAATCTGC
** * *
187394 ACCAAAAACAACATCAAATCAGC
1 ACCAAAAACAGTACCAAATCTGC
** *
187417 ATTAAAAATAGTACCAAATCTGC
1 ACCAAAAACAGTACCAAATCTGC
187440 ACCAAAAACA
1 ACCAAAAACA
187450 ACCAGCAAAA
Statistics
Matches: 61, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
22 17 0.28
23 44 0.72
ACGTcount: A:0.53, C:0.27, G:0.07, T:0.13
Consensus pattern (23 bp):
ACCAAAAACAGTACCAAATCTGC
Found at i:187612 original size:15 final size:15
Alignment explanation
Indices: 187592--187620 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
187582 CGAAGAAGCA
187592 TCATCCTCATCATCC
1 TCATCCTCATCATCC
187607 TCATCCTCATCATC
1 TCATCCTCATCATC
187621 ATTCTTATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.45, G:0.00, T:0.34
Consensus pattern (15 bp):
TCATCCTCATCATCC
Found at i:190620 original size:13 final size:13
Alignment explanation
Indices: 190602--190638 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
190592 GATTTGCGAC
190602 TGATGGAAGCAAT
1 TGATGGAAGCAAT
190615 TGATGGAAGCAAT
1 TGATGGAAGCAAT
190628 TGATGGAAGCA
1 TGATGGAAGCA
190639 CTTAGGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.32, T:0.22
Consensus pattern (13 bp):
TGATGGAAGCAAT
Found at i:198760 original size:17 final size:16
Alignment explanation
Indices: 198740--198831 Score: 78
Period size: 17 Copynumber: 5.5 Consensus size: 16
198730 GGCTTTATTT
*
198740 ATTTTAAATTTATGATA
1 ATTTTAAATTTA-AATA
198757 ATTTTAAATTTAAATA
1 ATTTTAAATTTAAATA
*
198773 ATTTTAAACTTAAATTA
1 ATTTTAAATTTAAA-TA
* *
198790 AATTTAAA-ATAAATTTA
1 ATTTTAAATTTAAA--TA
*
198807 ATTTTAATTTTAAAATA
1 ATTTTAAATTT-AAATA
*
198824 AATTTAAA
1 ATTTTAAA
198832 AATAGTTTGG
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
16 20 0.32
17 38 0.61
18 1 0.02
19 3 0.05
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (16 bp):
ATTTTAAATTTAAATA
Found at i:198768 original size:6 final size:6
Alignment explanation
Indices: 198759--198831 Score: 57
Period size: 6 Copynumber: 13.0 Consensus size: 6
198749 TTATGATAAT
* * *
198759 TTTAAA TTTAAA --TAAT TTTAAA CTTAAA -TTAAA TTTAAA -ATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
198803 TTTAAT TTTAAT TTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
198832 AATAGTTTGG
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
4 3 0.06
5 13 0.25
6 37 0.70
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:198818 original size:23 final size:23
Alignment explanation
Indices: 198755--198830 Score: 82
Period size: 23 Copynumber: 3.1 Consensus size: 23
198745 AAATTTATGA
*
198755 TAATTTTAAATTT-AAATAATTT
1 TAATTTTAAATTTAAAATAAATT
198777 TAAACTTAAATTAAATTTAAAATAAATT
1 T-AA-TT---TTAAATTTAAAATAAATT
*
198805 TAATTTTAATTTTAAAATAAATT
1 TAATTTTAAATTTAAAATAAATT
198828 TAA
1 TAA
198831 AAATAGTTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
22 1 0.02
23 22 0.48
24 2 0.04
26 2 0.04
27 10 0.22
28 9 0.20
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (23 bp):
TAATTTTAAATTTAAAATAAATT
Found at i:198832 original size:11 final size:11
Alignment explanation
Indices: 198777--198832 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
198767 TAAATAATTT
* *
198777 TAAACTTAAAT
1 TAAATTTAAAA
198788 TAAATTTAAAA
1 TAAATTTAAAA
**
198799 TAAATTTAATTT
1 TAAATTTAA-AA
*
198811 TAATTTTAAAA
1 TAAATTTAAAA
198822 TAAATTTAAAA
1 TAAATTTAAAA
198833 ATAGTTTGGG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
11 28 0.78
12 8 0.22
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:199580 original size:27 final size:26
Alignment explanation
Indices: 199529--199583 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 26
199519 AATTATTTGT
*
199529 TATTTTTAAATTTTTATTTTAAAAAA
1 TATTTTCAAATTTTTATTTTAAAAAA
199555 TATTTTCAATATTTTTATATTTAAAAAA
1 TATTTTCAA-ATTTTTAT-TTTAAAAAA
199583 T
1 T
199584 TGATAAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 8 0.31
27 8 0.31
28 10 0.38
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TATTTTCAAATTTTTATTTTAAAAAA
Found at i:200573 original size:8 final size:8
Alignment explanation
Indices: 200560--200587 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
200550 AGCGACTCAC
200560 AAAAAAAT
1 AAAAAAAT
200568 AAAAAAAT
1 AAAAAAAT
200576 AAAAAAAT
1 AAAAAAAT
200584 AAAA
1 AAAA
200588 GACTGAGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:210754 original size:31 final size:30
Alignment explanation
Indices: 210698--210764 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
210688 GTATTCAGAA
*
210698 TTAATTTTTATATTTTTATTTTTTAAAAAT
1 TTAATTTTTATATTTTTATTATTTAAAAAT
*
210728 TTAATTTTTCTATTTTT-TTGAATTTAAAAAT
1 TTAATTTTTATATTTTTATT--ATTTAAAAAT
*
210759 TAAATT
1 TTAATT
210765 CCAATTGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 2 0.06
30 16 0.50
31 14 0.44
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (30 bp):
TTAATTTTTATATTTTTATTATTTAAAAAT
Found at i:210942 original size:6 final size:6
Alignment explanation
Indices: 210933--210958 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
210923 ATGTCCATGT
210933 CCAAGG CCAAGG CCAAGG CCAAGG CC
1 CCAAGG CCAAGG CCAAGG CCAAGG CC
210959 CCGATGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.38, G:0.31, T:0.00
Consensus pattern (6 bp):
CCAAGG
Found at i:211207 original size:5 final size:5
Alignment explanation
Indices: 211197--211221 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
211187 TTTTAAGTAT
211197 AATTA AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA
211222 TAAAAATTTT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:211784 original size:15 final size:16
Alignment explanation
Indices: 211766--211805 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
211756 ATTAATAAAT
*
211766 AATTTAAAAATATA-A
1 AATTTAAAAAAATATA
211781 AATTTAAAAAAATATA
1 AATTTAAAAAAATATA
211797 AATTATAAA
1 AATT-TAAA
211806 TTCAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.59
16 5 0.23
17 4 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTTAAAAAAATATA
Found at i:212544 original size:58 final size:58
Alignment explanation
Indices: 212479--212593 Score: 185
Period size: 58 Copynumber: 2.0 Consensus size: 58
212469 AAAAGAACTC
* * * *
212479 AAAACTATTTCATTTAAAAAGATCTGAGCTATAAAAGGGGAACTTTTGATTGGTGCAT
1 AAAACTATTTCATTTAAAAAAATCCGAGCTATAAAAGAGGAACTTTCGATTGGTGCAT
*
212537 AAAACTATTTCATTTAAAAAAATCCGAGCTATAGAAGAGGAACTTTCGATTGGTGCA
1 AAAACTATTTCATTTAAAAAAATCCGAGCTATAAAAGAGGAACTTTCGATTGGTGCA
212594 AACGTTGTGA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (58 bp):
AAAACTATTTCATTTAAAAAAATCCGAGCTATAAAAGAGGAACTTTCGATTGGTGCAT
Found at i:218256 original size:5 final size:5
Alignment explanation
Indices: 218248--218272 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
218238 AAAAGAGATG
218248 GAGTT GAGTT GAGTT GAGTT GAGTT
1 GAGTT GAGTT GAGTT GAGTT GAGTT
218273 TAAAGTGATT
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:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (5 bp):
GAGTT
Found at i:218704 original size:2 final size:2
Alignment explanation
Indices: 218697--218731 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
218687 AAATGAAAAT
218697 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
218732 TGCACTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:219135 original size:30 final size:30
Alignment explanation
Indices: 219090--219150 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
219080 AAGATTTTAG
*
219090 GAGCCACACGGGCTGGACACACGACCATGT
1 GAGCCACACGAGCTGGACACACGACCATGT
* * * *
219120 GAGCGACACGAGCTGGGCACATGGCCATGT
1 GAGCCACACGAGCTGGACACACGACCATGT
219150 G
1 G
219151 CCAGACCGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.30, G:0.34, T:0.11
Consensus pattern (30 bp):
GAGCCACACGAGCTGGACACACGACCATGT
Found at i:222577 original size:24 final size:23
Alignment explanation
Indices: 222550--222608 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 23
222540 CAAATTTCAC
*
222550 TATTAAAATATAATCTTATCATTT
1 TATTAAAATATAATATTA-CATTT
* *
222574 TATTAAATTATAATATTAGATTT
1 TATTAAAATATAATATTACATTT
*
222597 T-TTAAAAAATAA
1 TATTAAAATATAA
222609 ACATTAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 9 0.30
23 5 0.17
24 16 0.53
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (23 bp):
TATTAAAATATAATATTACATTT
Found at i:224584 original size:27 final size:28
Alignment explanation
Indices: 224544--224603 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
224534 TTGAAATTAT
** * *
224544 ATAAATAAGTTTTTTAAATTTATAT-AA
1 ATAAATAAAATTTTAAAATCTATATAAA
*
224571 ATAAATAAAATTTTAAAATCTATTTAAA
1 ATAAATAAAATTTTAAAATCTATATAAA
224599 ATAAA
1 ATAAA
224604 ATATTAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (28 bp):
ATAAATAAAATTTTAAAATCTATATAAA
Found at i:225736 original size:36 final size:36
Alignment explanation
Indices: 225696--225775 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 36
225686 ACAATAATTT
225696 TTTTACTAATTGT-AAAT-TTTTAAATAATTTTTTACA
1 TTTTACTAATT-TCAAATATTTTAAAT-ATTTTTTACA
*
225732 TTTTA-TAATTTCTAATATTTTAAATATTTTTTACA
1 TTTTACTAATTTCAAATATTTTAAATATTTTTTACA
*
225767 ATTT-CTAAT
1 TTTTACTAAT
225776 AATTTTGATA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
34 1 0.03
35 25 0.64
36 13 0.33
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.57
Consensus pattern (36 bp):
TTTTACTAATTTCAAATATTTTAAATATTTTTTACA
Found at i:225763 original size:28 final size:28
Alignment explanation
Indices: 225732--225794 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
225722 ATTTTTTACA
225732 TTTTATAATTTCTAAT-ATTTTAAATATT
1 TTTTATAATTTCTAATAATTTT-AATATT
* *
225760 TTTTACAATTTCTAATAATTTTGATATT
1 TTTTATAATTTCTAATAATTTTAATATT
225788 TTTTATA
1 TTTTATA
225795 TTTTTATACC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 26 0.84
29 5 0.16
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (28 bp):
TTTTATAATTTCTAATAATTTTAATATT
Found at i:226488 original size:23 final size:22
Alignment explanation
Indices: 226435--226488 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
226425 ACGTGTCATA
* * *
226435 AGATAGAAGCGTGCCACAATGC
1 AGATAAAAGCGTCCCACAAAGC
*
226457 AGAGAAAAAGCGTCCCACAAAGAC
1 AGA-TAAAAGCGTCCCACAAAG-C
226481 AGATAAAA
1 AGATAAAA
226489 ACTAAAAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 3 0.12
23 18 0.72
24 4 0.16
ACGTcount: A:0.48, C:0.20, G:0.22, T:0.09
Consensus pattern (22 bp):
AGATAAAAGCGTCCCACAAAGC
Found at i:226488 original size:24 final size:23
Alignment explanation
Indices: 226441--226489 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
226431 CATAAGATAG
* *
226441 AAGCGTGCCACAATGCAGAGAAA
1 AAGCGTCCCACAAAGCAGAGAAA
*
226464 AAGCGTCCCACAAAGACAGATAAA
1 AAGCGTCCCACAAAG-CAGAGAAA
226488 AA
1 AA
226490 CTAAAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.49, C:0.22, G:0.20, T:0.08
Consensus pattern (23 bp):
AAGCGTCCCACAAAGCAGAGAAA
Found at i:226519 original size:19 final size:18
Alignment explanation
Indices: 226491--226538 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
226481 AGATAAAAAC
* *
226491 TAAAAGAAAAACAAAATG
1 TAAAAAAAAAACAAAATA
*
226509 TAAAAAAAAAACTAAATA
1 TAAAAAAAAAACAAAATA
226527 TAAAAAAGAAAA
1 TAAAAAA-AAAA
226539 GAGCAGGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.12
Consensus pattern (18 bp):
TAAAAAAAAAACAAAATA
Found at i:226917 original size:60 final size:60
Alignment explanation
Indices: 226845--226993 Score: 174
Period size: 60 Copynumber: 2.5 Consensus size: 60
226835 GGTATGATAC
* * * **
226845 TTTTTTTTAATTTGGTGCTTAAACTTTTTTTTGACTTAATTT-ATACTTGAACTTGACATT
1 TTTTTTTTAATTTGGTACCTAAA-TTTTTATTGACCCAATTTGATACTTGAACTTGACATT
* * *
226905 TTTTTTTTAATTTAGTACCTAAATTTTTATTGACCCAATTTGGTACTTGAACTTGATATT
1 TTTTTTTTAATTTGGTACCTAAATTTTTATTGACCCAATTTGATACTTGAACTTGACATT
** *
226965 TTTTTTTCTAATTTGACACCTAATTTTTT
1 TTTTTTT-TAATTTGGTACCTAAATTTTT
226994 TTTAGACTTA
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
59 15 0.20
60 43 0.57
61 17 0.23
ACGTcount: A:0.24, C:0.11, G:0.09, T:0.56
Consensus pattern (60 bp):
TTTTTTTTAATTTGGTACCTAAATTTTTATTGACCCAATTTGATACTTGAACTTGACATT
Found at i:227257 original size:60 final size:59
Alignment explanation
Indices: 227172--227324 Score: 164
Period size: 60 Copynumber: 2.6 Consensus size: 59
227162 ATTAAGTACC
* * * * * *
227172 AAATTAGAAAAATGAGTCAAGTTTAAGTATAAATTAGACAAAAAAAAGTTTAAGTATCA
1 AAATAAGAAAAAAGTGTCAAATTTAAGTATAAATTAAACAAAAAAAAGTTTAAATATCA
** * * *
227231 ACTTTAAGAAAAAAGTGTCAAATTTAAATATCAAATTAAATAAAAAAAATTTTAAATATCA
1 A-AATAAGAAAAAAGTGTCAAATTTAAGTAT-AAATTAAACAAAAAAAAGTTTAAATATCA
* *
227292 AAATAAG-AAAAAGTATCAAACTTAAGTATAAAT
1 AAATAAGAAAAAAGTGTCAAATTTAAGTATAAAT
227325 ATTATATTAA
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
58 4 0.05
59 20 0.26
60 26 0.34
61 26 0.34
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.28
Consensus pattern (59 bp):
AAATAAGAAAAAAGTGTCAAATTTAAGTATAAATTAAACAAAAAAAAGTTTAAATATCA
Found at i:227285 original size:61 final size:57
Alignment explanation
Indices: 227146--227324 Score: 157
Period size: 61 Copynumber: 3.1 Consensus size: 57
227136 ATGCTTAACT
* * * *
227146 AATTAATATAAAAAAAA-TTAAGTACCAAATTAGAAAAATGAGTCAAGTTTAAGTATA
1 AATTAA-ATAAAAAAAATTTAAGTATCAAATTAGAAAAAAGAGTCAAATTTAAATATA
* * * *
227203 AATTAGACAAAAAAAAGTTTAAGTATCAACTTTAAGAAAAAAGTGTCAAATTTAAATATCA
1 AATTAAATAAAAAAAA-TTTAAGTATCAA-ATT-AGAAAAAAGAGTCAAATTTAAATAT-A
* * * *
227264 AATTAAATAAAAAAAATTTTAAATATCAAAATA-AGAAAAAGTA-TCAAACTTAAGTATA
1 AATTAAATAAAAAAAA-TTTAAGTATCAAATTAGA-AAAAAG-AGTCAAATTTAAATATA
227322 AAT
1 AAT
227325 ATTATATTAA
Statistics
Matches: 98, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
56 9 0.09
57 5 0.05
58 15 0.15
59 21 0.21
60 22 0.22
61 26 0.27
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.28
Consensus pattern (57 bp):
AATTAAATAAAAAAAATTTAAGTATCAAATTAGAAAAAAGAGTCAAATTTAAATATA
Found at i:239436 original size:22 final size:22
Alignment explanation
Indices: 239410--239465 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
239400 ATAAATTATA
239410 TTAAAATATAATTAATAAAAAT
1 TTAAAATATAATTAATAAAAAT
* * *
239432 TTAAATATATAA-TATTATACAT
1 TTAAA-ATATAATTAATAAAAAT
239454 TTAAAATA-AATT
1 TTAAAATATAATT
239466 TCAATAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 2 0.07
21 4 0.14
22 17 0.59
23 6 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
TTAAAATATAATTAATAAAAAT
Found at i:247173 original size:19 final size:19
Alignment explanation
Indices: 247149--247186 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
247139 AATTTTTTTT
247149 TCATAAAAAG-TGATTAAAA
1 TCATAAAAAGAT-ATTAAAA
247168 TCATAAAAAGATATTAAAA
1 TCATAAAAAGATATTAAAA
247187 AATAAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.26
Consensus pattern (19 bp):
TCATAAAAAGATATTAAAA
Found at i:247271 original size:28 final size:28
Alignment explanation
Indices: 247240--247312 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
247230 TAAAGTTGTT
247240 AATATTATAAAAA-TATAAAAAACTTATA
1 AATATTATAAAAATTATAAAAAA-TTATA
* *
247268 AATATTATAAAAATTCTAACAAATTATA
1 AATATTATAAAAATTATAAAAAATTATA
*
247296 AAT-TTAATAAAACTTAT
1 AATATT-ATAAAAATTAT
247313 TTAAATTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 2 0.05
28 30 0.77
29 7 0.18
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (28 bp):
AATATTATAAAAATTATAAAAAATTATA
Found at i:247275 original size:9 final size:9
Alignment explanation
Indices: 247243--247297 Score: 58
Period size: 9 Copynumber: 5.9 Consensus size: 9
247233 AGTTGTTAAT
247243 ATTATAAAA
1 ATTATAAAA
247252 A-TATAAAAA
1 ATTAT-AAAA
*
247261 ACTTATAAAT
1 A-TTATAAAA
247271 ATTATAAAA
1 ATTATAAAA
*
247280 ATTCTAACAA
1 ATTATAA-AA
247290 ATTATAAA
1 ATTATAAA
247298 TTTAATAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 3 0.08
9 20 0.53
10 12 0.32
11 3 0.08
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (9 bp):
ATTATAAAA
Found at i:250881 original size:16 final size:15
Alignment explanation
Indices: 250845--250883 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
250835 ATTATTTTTA
250845 TTTAATTTTTATAAT
1 TTTAATTTTTATAAT
**
250860 AATAATTTTTAATAAT
1 TTTAATTTTT-ATAAT
250876 TTTAATTT
1 TTTAATTT
250884 ATTTTTAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAATTTTTATAAT
Found at i:259177 original size:2 final size:2
Alignment explanation
Indices: 259170--259204 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
259160 AGCACAAACC
259170 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
259205 TTGATGATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:261490 original size:58 final size:56
Alignment explanation
Indices: 261366--261584 Score: 248
Period size: 55 Copynumber: 3.9 Consensus size: 56
261356 GCTACGTAAT
* * * * * * *
261366 AATCTATTTAAATATATAAATAATCGATTCGAAATAA-ATAG-TATTCTAAAATAAT
1 AATCGATTTAAACATATAAATAATCGATTCAAAAGAAGA-AGCTATTCCAACATAAC
*
261421 AATCGATTTAAACATATAAATAATCGATTCAAAAGAAGAAGCATTATTCCATCATAAC
1 AATCGATTTAAACATATAAATAATCGATTCAAAAGAAGAAGC--TATTCCAACATAAC
* * *
261479 AATCGATTTAAACATATAAACAATCGATTCAAACGAAGTA-CTATTCCAACATAAC
1 AATCGATTTAAACATATAAATAATCGATTCAAAAGAAGAAGCTATTCCAACATAAC
* * * *
261534 AATCGATATAAACATATAAATTATCGATTCGAAAGAAGCAG-TATTCCAACA
1 AATCGATTTAAACATATAAATAATCGATTCAAAAGAAGAAGCTATTCCAACA
261585 ATTAAAAAGA
Statistics
Matches: 141, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
55 92 0.65
56 1 0.01
57 1 0.01
58 47 0.33
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.29
Consensus pattern (56 bp):
AATCGATTTAAACATATAAATAATCGATTCAAAAGAAGAAGCTATTCCAACATAAC
Found at i:261569 original size:113 final size:113
Alignment explanation
Indices: 261366--261571 Score: 288
Period size: 113 Copynumber: 1.8 Consensus size: 113
261356 GCTACGTAAT
* * * * * * * *
261366 AATCTATTTAAATATATAAATAATCGATTCGAAATAAATAGTATTCTAAAATAATAATCGATTTA
1 AATCGATTTAAACATATAAACAATCGATTCGAAAGAAATACTATTCCAAAATAACAATCGATATA
261431 AACATATAAATAATCGATTCAAAAGAAGAAGCATTATTCCATCATAAC
66 AACATATAAATAATCGATTCAAAAGAAGAAGCATTATTCCATCATAAC
* *
261479 AATCGATTTAAACATATAAACAATCGATTC-AAACGAAGTACTATTCCAACATAACAATCGATAT
1 AATCGATTTAAACATATAAACAATCGATTCGAAA-GAAATACTATTCCAAAATAACAATCGATAT
* *
261543 AAACATATAAATTATCGATTCGAAAGAAG
65 AAACATATAAATAATCGATTCAAAAGAAG
261572 CAGTATTCCA
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
112 3 0.04
113 77 0.96
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (113 bp):
AATCGATTTAAACATATAAACAATCGATTCGAAAGAAATACTATTCCAAAATAACAATCGATATA
AACATATAAATAATCGATTCAAAAGAAGAAGCATTATTCCATCATAAC
Found at i:267614 original size:23 final size:23
Alignment explanation
Indices: 267588--267637 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
267578 TTTCGTGTCA
267588 TCTGATCAGCACTT-TGTGTGCTC
1 TCTGATCAGCA-TTGTGTGTGCTC
*
267611 TCTGATTAGCATTGTGTGTGCTC
1 TCTGATCAGCATTGTGTGTGCTC
267634 TCTG
1 TCTG
267638 TTGCCCAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.12, C:0.22, G:0.24, T:0.42
Consensus pattern (23 bp):
TCTGATCAGCATTGTGTGTGCTC
Found at i:270876 original size:123 final size:123
Alignment explanation
Indices: 270657--270917 Score: 468
Period size: 123 Copynumber: 2.1 Consensus size: 123
270647 AGGGACAAGC
* * * * *
270657 AGGCAACCAGGACAAAGTGTAAAAACCATTGCTGGGAAGTGAAGACTCGTGATAAAGCATCACAA
1 AGGCAACAATGACAAACTGTAAAAACCATTGCTGGGAAGTGAAGACTCGTGATAAAACAGCACAA
270722 ACAGGTGTGACCTAACTTGGTCTTGTTAACCACAATGGTCAGTATATATATTAAGATA
66 ACAGGTGTGACCTAACTTGGTCTTGTTAACCACAATGGTCAGTATATATATTAAGATA
270780 AGGCAACAATGACAAACTGTAAAAACCATTGCTGGGAAGTGAAGACTCGTGATAAAACAGCACAA
1 AGGCAACAATGACAAACTGTAAAAACCATTGCTGGGAAGTGAAGACTCGTGATAAAACAGCACAA
270845 ACAGGTGTGACCTAACTTGGTCTTGTTAACCACAATGGTCAGTATATATATTAAGATA
66 ACAGGTGTGACCTAACTTGGTCTTGTTAACCACAATGGTCAGTATATATATTAAGATA
*
270903 AGGCTACAATGACAA
1 AGGCAACAATGACAA
270918 CGCAAGTACA
Statistics
Matches: 132, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 132 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (123 bp):
AGGCAACAATGACAAACTGTAAAAACCATTGCTGGGAAGTGAAGACTCGTGATAAAACAGCACAA
ACAGGTGTGACCTAACTTGGTCTTGTTAACCACAATGGTCAGTATATATATTAAGATA
Found at i:277183 original size:60 final size:61
Alignment explanation
Indices: 277071--277220 Score: 196
Period size: 60 Copynumber: 2.5 Consensus size: 61
277061 CATGTTCTTT
* * * **
277071 CAATTT-GATTCTAAATCTAAAAAATTCAACAGATTTAGCCCTTAATGTTTACAAAACTTGT
1 CAATTTAG-TTCTAATTCTAAAAAATTCAACAAATTTAGCCCTAAATGTTTACAAAACTTAC
* * *
277132 CATTTTAGTTCTAATTCTAAAAAATT-AATAAATTTAGCCCTAAATGTTTACAAAATTTAC
1 CAATTTAGTTCTAATTCTAAAAAATTCAACAAATTTAGCCCTAAATGTTTACAAAACTTAC
*
277192 CAATTTAGTTCTAATTCTAAAAATTTCAA
1 CAATTTAGTTCTAATTCTAAAAAATTCAA
277221 AAAAAAAAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
60 52 0.68
61 24 0.31
62 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.39
Consensus pattern (61 bp):
CAATTTAGTTCTAATTCTAAAAAATTCAACAAATTTAGCCCTAAATGTTTACAAAACTTAC
Found at i:281860 original size:23 final size:23
Alignment explanation
Indices: 281833--281888 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
281823 TCATTAACAT
*
281833 TGTTCGTGAACATGTTCGTTTAA
1 TGTTCGTGAACATATTCGTTTAA
* * *
281856 TGTTCATGAACGTATTTGTTTAA
1 TGTTCGTGAACATATTCGTTTAA
281879 TGTTCGTGAA
1 TGTTCGTGAA
281889 TATTAAACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.45
Consensus pattern (23 bp):
TGTTCGTGAACATATTCGTTTAA
Found at i:288513 original size:17 final size:16
Alignment explanation
Indices: 288491--288522 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
288481 CCAAACCTTT
288491 TCTTCCATATTCTATTG
1 TCTTCCATATT-TATTG
288508 TCTTCCATATTTATT
1 TCTTCCATATTTATT
288523 TCTCCCCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.19, C:0.22, G:0.03, T:0.56
Consensus pattern (16 bp):
TCTTCCATATTTATTG
Found at i:289236 original size:28 final size:28
Alignment explanation
Indices: 289192--289255 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
289182 TCTGAATTTG
289192 ATTTTTTT-TTTTAAATTTAGTATTTAA
1 ATTTTTTTATTTTAAATTTAGTATTTAA
*
289219 ATTTTTTTATATTT-AATTTGGTATTTAA
1 ATTTTTTTAT-TTTAAATTTAGTATTTAA
*
289247 ATTTATTTA
1 ATTTTTTTA
289256 AATGTTATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 8 0.24
28 22 0.67
29 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (28 bp):
ATTTTTTTATTTTAAATTTAGTATTTAA
Found at i:289686 original size:56 final size:55
Alignment explanation
Indices: 289599--289718 Score: 141
Period size: 56 Copynumber: 2.1 Consensus size: 55
289589 CAAATCGAGC
** * *
289599 AAAAAAAAGATTAGGTACCAAATTAGGAAAAAGAATCAAATTTATGTACCAAATTG
1 AAAAAAAA-ATTAAATACCAAATTAAGAAAAAGAATCAAATTTAAGTACCAAATTG
* ** * *
289655 AACAAAAAAATTAAATACCAACTTAAGAAAAAGTGTCAAATTTAAGTACTAAATTT
1 AA-AAAAAAATTAAATACCAAATTAAGAAAAAGAATCAAATTTAAGTACCAAATTG
289711 AAAAAAAA
1 AAAAAAAA
289719 TGTAAAATTC
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
55 6 0.11
56 42 0.78
57 6 0.11
ACGTcount: A:0.57, C:0.09, G:0.10, T:0.23
Consensus pattern (55 bp):
AAAAAAAAATTAAATACCAAATTAAGAAAAAGAATCAAATTTAAGTACCAAATTG
Found at i:292896 original size:17 final size:18
Alignment explanation
Indices: 292864--292904 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
292854 AAATTCCTTT
*
292864 TTAAATTTACTTTTAAAA
1 TTAAAATTACTTTTAAAA
*
292882 TTAAAATTA-TTTTAAAT
1 TTAAAATTACTTTTAAAA
292899 TTAAAA
1 TTAAAA
292905 AGTCCCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAAATTACTTTTAAAA
Found at i:294657 original size:29 final size:29
Alignment explanation
Indices: 294606--294787 Score: 208
Period size: 29 Copynumber: 6.2 Consensus size: 29
294596 GGAGGTCCCG
294606 AAACTTCCAAAAATTCCAATTTTGACCCCA
1 AAACTTCCAAAAATTCC-ATTTTGACCCCA
* *
294636 AAACTACCAAAAATTCCATTTTTATCCCC-
1 AAACTTCCAAAAATTCCATTTTGA-CCCCA
294665 AAACTTCCAAAAATTCCATTTTTGACCCCA
1 AAACTTCCAAAAATTCCA-TTTTGACCCCA
*
294695 AAACTTCCAAAAATTCCATTTTTACCCTC-
1 AAACTTCCAAAAATTCCATTTTGACCC-CA
* * *
294724 GAACTTCCAAAAATTCCATTTTTA-CCCG
1 AAACTTCCAAAAATTCCATTTTGACCCCA
* * * *
294752 AAACCTCTAAAATTTCCATTTTTGACCTCA
1 AAACTTCCAAAAATTCCA-TTTTGACCCCA
294782 AAACTT
1 AAACTT
294788 TTGAAAATTA
Statistics
Matches: 131, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
27 1 0.01
28 16 0.12
29 63 0.48
30 51 0.39
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.32
Consensus pattern (29 bp):
AAACTTCCAAAAATTCCATTTTGACCCCA
Done.