Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 173 of 310
Found at i:56595539 original size:92 final size:91
Alignment explanation
Indices: 56595462--56595670 Score: 217
Period size: 92 Copynumber: 2.3 Consensus size: 91
56595452 TAATTATAAC
* * * *
56595462 TAATAAATTATATTTTATGAATTTGTATAATCTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATCTAAAATAATTAA-TATTAAATATAATTTAATAA
* *
56595526 TTAATATTAAATTTCATAAAATACTTGA
65 TTAATATTAAATTTCAAAAAATAC-TAA
* * * *
56595554 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAAT-AG
1 TAATAAATTATATTATATGAATTTATACAATCTAAAATAATTAATATTAAATATAATTTAATAAT
* * *
56595618 TGATA-TATAATTTCATAAAATTCTCAA
66 TAATATTA-AATTTCAAAAAATACT-AA
* *
56595645 TAATAAATTGTTCTTATATGAATTTA
1 TAATAAATT-ATATTATATGAATTTA
56595671 CTAAAATCAA
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
90 3 0.03
91 29 0.28
92 67 0.66
93 3 0.03
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATCTAAAATAATTAATATTAAATATAATTTAATAAT
TAATATTAAATTTCAAAAAATACTAA
Found at i:56599326 original size:30 final size:29
Alignment explanation
Indices: 56599258--56599330 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
56599248 ACAAAATAAT
*
56599258 AACATAAGTGACTAAAATGTAACATTTCA
1 AACATAAGTGACTAAAATGTAACATTGCA
56599287 AACATAAGTGACTAAAATGTAAC-TTGGGCA
1 AACATAAGTGACTAAAATGTAACATT--GCA
*
56599317 AACAAAAGTGACTA
1 AACATAAGTGACTA
56599331 TTTTTGTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.05
29 23 0.57
30 15 0.38
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.23
Consensus pattern (29 bp):
AACATAAGTGACTAAAATGTAACATTGCA
Found at i:56599497 original size:35 final size:35
Alignment explanation
Indices: 56599431--56599496 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
56599421 AAAATAATAT
*
56599431 ACTTATTCATAAAAAAATATTATAACTTTTTTCTC
1 ACTTATTCATAAAAAAATAATATAACTTTTTTCTC
*
56599466 ACTTATTTATAAAAAAATAATAT-ACTTTTTT
1 ACTTATTCATAAAAAAATAATATAACTTTTTT
56599497 TTATGGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 8 0.28
35 21 0.72
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (35 bp):
ACTTATTCATAAAAAAATAATATAACTTTTTTCTC
Found at i:56601207 original size:17 final size:17
Alignment explanation
Indices: 56601185--56601217 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
56601175 AGGTTTATGT
56601185 TTTCT-ATACTATGTTAA
1 TTTCTAATA-TATGTTAA
56601202 TTTCTAATATATGTTA
1 TTTCTAATATATGTTA
56601218 TATATTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (17 bp):
TTTCTAATATATGTTAA
Found at i:56603091 original size:134 final size:135
Alignment explanation
Indices: 56602915--56603184 Score: 479
Period size: 134 Copynumber: 2.0 Consensus size: 135
56602905 CATATGGGGT
*
56602915 GGGTTTGGATATGATGGAGGAAGTGTTTTTGGTAGTACCACTATAATTTTGGCGGTTTAACTGCA
1 GGGTTTGGATATGATGGAGGAAGTGTTTTTGGCAGTACCACTATAATTTTGGCGGTTTAACTGCA
*
56602980 AATTATCTGTCTAGAAGCATAGCTACAT-TTTAATAGTGACATACCACCACTTTCTGGTGTGATT
66 AATTATCTGTCTAGAAGCATAGCTACATATTTAATAGTGACATACCACCACTTTCCGGTGTGATT
56603044 GGATG
131 GGATG
*
56603049 GGGTTTGGATATGATGGAGGAAGTGTTTTTGGCAGTATCACTATAATTTTGGCGGTTTAACTGCA
1 GGGTTTGGATATGATGGAGGAAGTGTTTTTGGCAGTACCACTATAATTTTGGCGGTTTAACTGCA
* * *
56603114 AATTATCTGTCTGGCAGCATAGCTACATATTTAATAGTGACATACCACTACTTTCCGGTGTGATT
66 AATTATCTGTCTAGAAGCATAGCTACATATTTAATAGTGACATACCACCACTTTCCGGTGTGATT
56603179 GGATG
131 GGATG
56603184 G
1 G
56603185 ATGGACTCAT
Statistics
Matches: 129, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
134 89 0.69
135 40 0.31
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.36
Consensus pattern (135 bp):
GGGTTTGGATATGATGGAGGAAGTGTTTTTGGCAGTACCACTATAATTTTGGCGGTTTAACTGCA
AATTATCTGTCTAGAAGCATAGCTACATATTTAATAGTGACATACCACCACTTTCCGGTGTGATT
GGATG
Found at i:56607893 original size:20 final size:17
Alignment explanation
Indices: 56607852--56607894 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 17
56607842 AGAGTTTAGA
56607852 AAATAAGGAAAATGGAT
1 AAATAAGGAAAATGGAT
*
56607869 CAATAAGGACTAAATCGGAT
1 AAATAAGGA--AAAT-GGAT
56607889 AAATAA
1 AAATAA
56607895 AAATTATGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 8 0.38
19 4 0.19
20 9 0.43
ACGTcount: A:0.56, C:0.07, G:0.19, T:0.19
Consensus pattern (17 bp):
AAATAAGGAAAATGGAT
Found at i:56612116 original size:27 final size:27
Alignment explanation
Indices: 56612086--56612177 Score: 175
Period size: 27 Copynumber: 3.4 Consensus size: 27
56612076 GTGGTACTGG
56612086 GAGCCACCAGATCAGATATTTGTGGCA
1 GAGCCACCAGATCAGATATTTGTGGCA
56612113 GAGCCACCAGATCAGATATTTGTGGCA
1 GAGCCACCAGATCAGATATTTGTGGCA
56612140 GAGCCACCAGATCAGATATTTGTGGCA
1 GAGCCACCAGATCAGATATTTGTGGCA
*
56612167 TAGCCACCAGA
1 GAGCCACCAGA
56612178 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (27 bp):
GAGCCACCAGATCAGATATTTGTGGCA
Found at i:56613454 original size:26 final size:26
Alignment explanation
Indices: 56613418--56613527 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
56613408 CATGAAATTC
56613418 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
56613444 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
56613470 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
56613496 TTATCATTG-AATATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
56613522 TTATCA
1 TTATCA
56613528 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:56613668 original size:13 final size:13
Alignment explanation
Indices: 56613636--56613670 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
56613626 CATGCAAATC
*
56613636 CTCCTACTTTGCA
1 CTCCTATTTTGCA
56613649 CTCCTATTTTGCA
1 CTCCTATTTTGCA
56613662 CTCCTATTT
1 CTCCTATTT
56613671 ATTTGGCCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.34, G:0.06, T:0.46
Consensus pattern (13 bp):
CTCCTATTTTGCA
Found at i:56617268 original size:16 final size:16
Alignment explanation
Indices: 56617247--56617284 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
56617237 TATTAGAATA
56617247 ACTTAAGTTATTAATC
1 ACTTAAGTTATTAATC
*
56617263 ACTTAAGTTATTAGTC
1 ACTTAAGTTATTAATC
56617279 ACTTAA
1 ACTTAA
56617285 TTTTTAGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (16 bp):
ACTTAAGTTATTAATC
Found at i:56628530 original size:11 final size:11
Alignment explanation
Indices: 56628502--56628555 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
56628492 TTGACCTTTC
56628502 CAAGGTATGGG
1 CAAGGTATGGG
*
56628513 -TAGGTATGGG
1 CAAGGTATGGG
*
56628523 AAAGGTATGGG
1 CAAGGTATGGG
*
56628534 CAAGGGATGGG
1 CAAGGTATGGG
*
56628545 CAAGGGATGGG
1 CAAGGTATGGG
56628556 TATATTCTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
10 9 0.24
11 29 0.76
ACGTcount: A:0.28, C:0.06, G:0.50, T:0.17
Consensus pattern (11 bp):
CAAGGTATGGG
Found at i:56632625 original size:18 final size:18
Alignment explanation
Indices: 56632598--56632694 Score: 122
Period size: 18 Copynumber: 5.4 Consensus size: 18
56632588 CAATCCCAAC
*
56632598 TACTGTATACATGAACAG
1 TACTGTATACATGAATAG
* *
56632616 TACCGTATACGTGAATAG
1 TACTGTATACATGAATAG
* *
56632634 TGCTGTATATATGAATAG
1 TACTGTATACATGAATAG
56632652 TACTGTATACATGAATAG
1 TACTGTATACATGAATAG
* * *
56632670 TACTATATACGTAAATAG
1 TACTGTATACATGAATAG
56632688 TACTGTA
1 TACTGTA
56632695 AACTGTCATA
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (18 bp):
TACTGTATACATGAATAG
Found at i:56635089 original size:33 final size:33
Alignment explanation
Indices: 56635052--56635150 Score: 77
Period size: 33 Copynumber: 3.2 Consensus size: 33
56635042 CGATATTTTA
56635052 TATTTATGGTAAATATTATAACATTTAATAATT
1 TATTTATGGTAAATATTATAACATTTAATAATT
* ** * *
56635085 TATTTTTCTTGAAA-A--ATAGC--TT-AT-TTT
1 TATTTATGGT-AAATATTATAACATTTAATAATT
*
56635112 ATATTTATGGTTAATATTATAACATTTAATAATT
1 -TATTTATGGTAAATATTATAACATTTAATAATT
56635146 TATTT
1 TATTT
56635151 TTCTTGAAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 18
0.61 0.15 0.24
Matches are distributed among these distances:
27 4 0.09
28 10 0.22
29 2 0.04
30 4 0.09
31 4 0.09
32 2 0.04
33 15 0.33
34 5 0.11
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (33 bp):
TATTTATGGTAAATATTATAACATTTAATAATT
Found at i:56635118 original size:61 final size:62
Alignment explanation
Indices: 56635045--56635174 Score: 235
Period size: 61 Copynumber: 2.1 Consensus size: 62
56635035 TATATAACGA
56635045 TATTTTATATTTATGGTAAATATTATAACATTTAATAATTTATTTTTCTTG-AAAAATAGCT
1 TATTTTATATTTATGGTAAATATTATAACATTTAATAATTTATTTTTCTTGAAAAAATAGCT
*
56635106 TATTTTATATTTATGGTTAATATTATAACATTTAATAATTTATTTTTCTTGAAAAAAATAGCT
1 TATTTTATATTTATGGTAAATATTATAACATTTAATAATTTATTTTTCTTG-AAAAAATAGCT
56635169 TATTTT
1 TATTTT
56635175 GTCGTTATGT
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
61 50 0.76
63 16 0.24
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (62 bp):
TATTTTATATTTATGGTAAATATTATAACATTTAATAATTTATTTTTCTTGAAAAAATAGCT
Found at i:56640038 original size:12 final size:11
Alignment explanation
Indices: 56640012--56640037 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
56640002 GGGATATAGC
56640012 AAAATATTTAA
1 AAAATATTTAA
56640023 AAAATATTTAA
1 AAAATATTTAA
56640034 AAAA
1 AAAA
56640038 AGAGACACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAATATTTAA
Found at i:56644251 original size:15 final size:14
Alignment explanation
Indices: 56644183--56644293 Score: 68
Period size: 14 Copynumber: 7.6 Consensus size: 14
56644173 TTATTCCTAT
56644183 TATTTTTATGTT-TC
1 TATTTTTAT-TTATC
*
56644197 TATTTATATTTAT-
1 TATTTTTATTTATC
*
56644210 T-TTGTTATTCTAATAC
1 TATTTTTATT-T-AT-C
*
56644226 TATTATTATTTATC
1 TATTTTTATTTATC
56644240 TAATTTTTATTTATC
1 T-ATTTTTATTTATC
* *
56644255 TATTTATATTTCTAC
1 TATTTTTATTTAT-C
*
56644270 TATTATTATGTT-TC
1 TATTTTTAT-TTATC
56644284 TATTTATTAT
1 TATTT-TTAT
56644294 ATTTTTATTT
Statistics
Matches: 77, Mismatches: 10, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
12 6 0.08
13 4 0.05
14 28 0.36
15 28 0.36
16 4 0.05
17 7 0.09
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (14 bp):
TATTTTTATTTATC
Found at i:56644264 original size:29 final size:28
Alignment explanation
Indices: 56644183--56644290 Score: 82
Period size: 29 Copynumber: 3.8 Consensus size: 28
56644173 TTATTCCTAT
56644183 TATTTTTATGTTTCTATTTATATTTAT-
1 TATTTTTATGTTTCTATTTATATTTATC
*
56644210 T-TTGTTAT-TCTAATACTA-TTATTATTTATC
1 TATTTTTATGT-T--T-CTATTTA-TATTTATC
*
56644240 TAATTTTTAT-TTATCTATTTATATTTCTAC
1 T-ATTTTTATGTT-TCTATTTATATTTAT-C
*
56644270 TATTATTATGTTTCTATTTAT
1 TATTTTTATGTTTCTATTTAT
56644291 TATATTTTTA
Statistics
Matches: 66, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
25 1 0.02
26 7 0.11
27 1 0.02
28 4 0.06
29 35 0.53
30 10 0.15
31 1 0.02
32 7 0.11
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (28 bp):
TATTTTTATGTTTCTATTTATATTTATC
Found at i:56644271 original size:44 final size:44
Alignment explanation
Indices: 56644222--56644334 Score: 119
Period size: 44 Copynumber: 2.6 Consensus size: 44
56644212 TGTTATTCTA
56644222 ATACTATTATTATTTATCTAATTT-TTAT-TTATCTATTTATATT-T
1 ATACTATTATTATTT-TCT-ATTTATTATATT-TCTATTTATATTAT
* * *
56644266 CTACTATTATTATGTTTCTATTTATTATATTTTTATTTCTATTAT
1 ATACTATTATTAT-TTTCTATTTATTATATTTCTATTTATATTAT
*
56644311 ATACTAATATTATTTTC-A-TTATTA
1 ATACTATTATTATTTTCTATTTATTA
56644335 CTTTTTTCTT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
42 6 0.10
43 5 0.08
44 33 0.55
45 16 0.27
ACGTcount: A:0.29, C:0.08, G:0.01, T:0.62
Consensus pattern (44 bp):
ATACTATTATTATTTTCTATTTATTATATTTCTATTTATATTAT
Found at i:56644283 original size:17 final size:15
Alignment explanation
Indices: 56644258--56644303 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
56644248 ATTTATCTAT
56644258 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
*
56644275 TTATGTTTCTATTTA
1 TTATATTTCTATTTA
*
56644290 TTATATTTTTATTT
1 TTATATTTCTATTT
56644304 CTATTATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 15 0.58
16 1 0.04
17 10 0.38
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:56644302 original size:15 final size:16
Alignment explanation
Indices: 56644226--56644303 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 16
56644216 ATTCTAATAC
*
56644226 TATTATTATTTATCTA
1 TATTTTTATTTATCTA
56644242 -ATTTTTATTTATCTA
1 TATTTTTATTTATCTA
56644257 TTTATATTTCTACTATTAT-TA
1 --TAT-TTT-TA-T-TTATCTA
* *
56644278 TGTTTCTATTTAT-TA
1 TATTTTTATTTATCTA
56644293 TATTTTTATTT
1 TATTTTTATTT
56644304 CTATTATATA
Statistics
Matches: 50, Mismatches: 5, Indels: 15
0.71 0.07 0.21
Matches are distributed among these distances:
15 29 0.58
16 1 0.02
17 2 0.04
18 4 0.08
19 5 0.10
20 2 0.04
21 3 0.06
22 4 0.08
ACGTcount: A:0.26, C:0.06, G:0.01, T:0.67
Consensus pattern (16 bp):
TATTTTTATTTATCTA
Found at i:56644386 original size:4 final size:4
Alignment explanation
Indices: 56644377--56644401 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
56644367 ATTAACATTC
56644377 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
56644402 TACATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:56644506 original size:25 final size:23
Alignment explanation
Indices: 56644447--56644506 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 23
56644437 TATACCGCTC
*
56644447 ATTTC-AATTTTATATATTATTT
1 ATTTCAAATTTTATATATTATGT
56644469 ACTTT-AATATTTTCATATATTATGT
1 A-TTTCAA-ATTTT-ATATATTATGT
56644494 ATTTCAAACTTTT
1 ATTTCAAA-TTTT
56644507 TTACACATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
22 1 0.03
23 4 0.13
24 9 0.29
25 17 0.55
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (23 bp):
ATTTCAAATTTTATATATTATGT
Found at i:56644896 original size:15 final size:16
Alignment explanation
Indices: 56644874--56644923 Score: 66
Period size: 15 Copynumber: 3.1 Consensus size: 16
56644864 GGGCTTATAC
56644874 AAAAAATAAAAAAAAT
1 AAAAAATAAAAAAAAT
* *
56644890 -CAAAATACAAAAAAT
1 AAAAAATAAAAAAAAT
56644905 AAAAAATAAAAAAATAT
1 AAAAAATAAAAAAA-AT
56644922 AA
1 AA
56644924 TAATAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 13 0.46
16 11 0.39
17 4 0.14
ACGTcount: A:0.82, C:0.04, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAAAATAAAAAAAAT
Found at i:56644918 original size:24 final size:24
Alignment explanation
Indices: 56644870--56644920 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
56644860 GTCCGGGCTT
*
56644870 ATACAAAAAATAAAAAAAATCAAA
1 ATACAAAAAATAAAAAAAATAAAA
56644894 ATACAAAAAATAAAAAATAA-AAAA
1 ATACAAAAAATAAAAAA-AATAAAA
56644918 ATA
1 ATA
56644921 TAATAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.80, C:0.06, G:0.00, T:0.14
Consensus pattern (24 bp):
ATACAAAAAATAAAAAAAATAAAA
Found at i:56644928 original size:16 final size:15
Alignment explanation
Indices: 56644876--56644929 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
56644866 GCTTATACAA
56644876 AAAATAAAAAAA-AT
1 AAAATAAAAAAATAT
*
56644890 CAAAATACAAAAAATAA
1 -AAAATA-AAAAAATAT
56644907 AAAATAAAAAAATAT
1 AAAATAAAAAAATAT
56644922 AATAATAA
1 AA-AATAA
56644930 TAATAAAGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 16 0.47
16 17 0.50
17 1 0.03
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATAAAAAAATAT
Found at i:56665568 original size:22 final size:21
Alignment explanation
Indices: 56665538--56665584 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
56665528 TACAAATTAA
56665538 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
56665560 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
56665581 ATCT
1 ATCT
56665585 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:56665590 original size:19 final size:21
Alignment explanation
Indices: 56665555--56665594 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
56665545 AGATTACAAG
56665555 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
56665576 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
56665595 GTCCTAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 1 0.05
21 8 0.42
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:56671502 original size:20 final size:20
Alignment explanation
Indices: 56671477--56671518 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
56671467 AGTCATTGAC
56671477 TGATATATGTAATGGCAATA
1 TGATATATGTAATGGCAATA
56671497 TGATATATGTAATGGCAATA
1 TGATATATGTAATGGCAATA
56671517 TG
1 TG
56671519 CCAATGTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (20 bp):
TGATATATGTAATGGCAATA
Found at i:56673611 original size:36 final size:36
Alignment explanation
Indices: 56673571--56673643 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
56673561 AGTATATACG
*
56673571 TATTGTATTTTATATTGCGAACAGATAGTTTGCGTT
1 TATTGTATTTTATATTGCCAACAGATAGTTTGCGTT
*
56673607 TATTGTATTTTATATTGCCAACGGATAGTTTGCGTT
1 TATTGTATTTTATATTGCCAACAGATAGTTTGCGTT
56673643 T
1 T
56673644 CTTGCATTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.48
Consensus pattern (36 bp):
TATTGTATTTTATATTGCCAACAGATAGTTTGCGTT
Found at i:56673658 original size:36 final size:36
Alignment explanation
Indices: 56673582--56673658 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
56673572 ATTGTATTTT
* * **
56673582 ATATTGCGAACAGATAGTTTGCGTTTATTGTATTTT
1 ATATTGCCAACAGATAGTTTGCGTTTATTGCATTCC
* *
56673618 ATATTGCCAACGGATAGTTTGCGTTTCTTGCATTCC
1 ATATTGCCAACAGATAGTTTGCGTTTATTGCATTCC
56673654 ATATT
1 ATATT
56673659 ACCACCAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.44
Consensus pattern (36 bp):
ATATTGCCAACAGATAGTTTGCGTTTATTGCATTCC
Found at i:56683511 original size:18 final size:18
Alignment explanation
Indices: 56683488--56683544 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
56683478 CCCAACTACT
* *
56683488 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTGCC
56683506 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
56683524 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
56683542 GTA
1 GTA
56683545 AACGGTCGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTGCC
Found at i:56684582 original size:14 final size:14
Alignment explanation
Indices: 56684563--56684590 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
56684553 TACAATATTC
56684563 AAATAATAACAATA
1 AAATAATAACAATA
56684577 AAATAATAACAATA
1 AAATAATAACAATA
56684591 TAATGGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAATAACAATA
Found at i:56687004 original size:16 final size:16
Alignment explanation
Indices: 56686983--56687052 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
56686973 TTTGGTTCAT
* *
56686983 TGTAATGGAATAGGGC
1 TGTAATTGAATAGAGC
*
56686999 TGTAATTGAATAAAGC
1 TGTAATTGAATAGAGC
56687015 TGTAATTGAATAGAGC
1 TGTAATTGAATAGAGC
*
56687031 TGTAATTGAATAGAGT
1 TGTAATTGAATAGAGC
56687047 TGTAAT
1 TGTAAT
56687053 CAGTAATTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (16 bp):
TGTAATTGAATAGAGC
Found at i:56687318 original size:17 final size:17
Alignment explanation
Indices: 56687293--56687325 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56687283 AATTATCATT
56687293 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
*
56687310 AAATTTAATTTAATAA
1 AAATATAATTTAATAA
56687326 CATTCTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:56687802 original size:43 final size:43
Alignment explanation
Indices: 56687735--56687819 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
56687725 TACAAATACA
*
56687735 TAAGGCAACCAATTTGATGCCTTTTCCAACTTGATACCCAACC
1 TAAGACAACCAATTTGATGCCTTTTCCAACTTGATACCCAACC
* *
56687778 TAAGACAACCAATTTGATGTCTTTTCTAACTTGATACCCAAC
1 TAAGACAACCAATTTGATGCCTTTTCCAACTTGATACCCAAC
56687820 TAATTCCTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.31
Consensus pattern (43 bp):
TAAGACAACCAATTTGATGCCTTTTCCAACTTGATACCCAACC
Found at i:56692030 original size:68 final size:70
Alignment explanation
Indices: 56691911--56692069 Score: 214
Period size: 68 Copynumber: 2.3 Consensus size: 70
56691901 GGATAGAAGC
* *
56691911 ATGAAAAAGAGAGAGATGGTTGGAAGGAAATAGGAAGAAGAATGAAAAAAAGAAGATGATTCAGA
1 ATGAAAAAGAG-GAGAAGGTTCGAAGGAAATAGG-AGAAGAATGAAAAAAAGAAGATGATTCAGA
56691976 CGTGACA
64 CGTGACA
* * *
56691983 ATGAAAAAGAGGAGAAGTTTCGAAGGAAAT-GG-GAAGAATGAAAAAAAGAAGTTGCTTCAGACG
1 ATGAAAAAGAGGAGAAGGTTCGAAGGAAATAGGAGAAGAATGAAAAAAAGAAGATGATTCAGACG
*
56692046 TGAGA
66 TGACA
*
56692051 ACGAAAAAGAGGGAGAAGG
1 ATGAAAAAGA-GGAGAAGG
56692070 GTAAAGTTGA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
68 42 0.54
69 7 0.09
70 2 0.03
71 16 0.21
72 11 0.14
ACGTcount: A:0.50, C:0.05, G:0.32, T:0.13
Consensus pattern (70 bp):
ATGAAAAAGAGGAGAAGGTTCGAAGGAAATAGGAGAAGAATGAAAAAAAGAAGATGATTCAGACG
TGACA
Found at i:56694160 original size:17 final size:18
Alignment explanation
Indices: 56694140--56694173 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56694130 AAGTGAATTG
56694140 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
56694157 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
56694174 AAAAAGAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:56694727 original size:37 final size:37
Alignment explanation
Indices: 56694666--56694848 Score: 316
Period size: 37 Copynumber: 5.0 Consensus size: 37
56694656 TACGTATGAT
* *
56694666 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
56694701 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
56694738 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
56694775 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
56694812 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
56694849 TAAAGCTATC
Statistics
Matches: 141, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
35 9 0.06
36 3 0.02
37 129 0.91
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:56694865 original size:46 final size:46
Alignment explanation
Indices: 56694812--56694982 Score: 234
Period size: 46 Copynumber: 3.6 Consensus size: 46
56694802 TAAGTGTAGC
* **
56694812 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
56694858 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
56694904 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
56694956 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
56694983 AGTACTCAAA
Statistics
Matches: 113, Mismatches: 6, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
46 68 0.60
49 2 0.02
52 43 0.38
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:56694931 original size:52 final size:52
Alignment explanation
Indices: 56694855--56694976 Score: 199
Period size: 52 Copynumber: 2.3 Consensus size: 52
56694845 TAGCTAAAGC
* *
56694855 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
56694908 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
56694960 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
56694977 ATCAGAAGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
52 46 0.71
53 19 0.29
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:56698696 original size:24 final size:26
Alignment explanation
Indices: 56698669--56698717 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
56698659 ACAAATAAAT
*
56698669 AAAGATAAAT-TAAATTAA-ATCCTA
1 AAAGATAAATGTAAATAAAGATCCTA
*
56698693 AAAGTTAAATGTAAATAAAGATCCT
1 AAAGATAAATGTAAATAAAGATCCT
56698718 TAATAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 7 0.33
26 5 0.24
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (26 bp):
AAAGATAAATGTAAATAAAGATCCTA
Found at i:56699508 original size:96 final size:96
Alignment explanation
Indices: 56699343--56699625 Score: 467
Period size: 96 Copynumber: 2.9 Consensus size: 96
56699333 ATTTTATTTA
* * ** * ** * *
56699343 TTTATTTTTACTTAGGAATATATTGAACCTTTTGATGCGAAGAGAGATGACAGCCAAGCACCCCA
1 TTTATTTTT-CTTAAGAACATATCAAACCTTTTGACGTAAAGAGAAATGACAGCCAAGCACCTCA
*
56699408 CCCTGGTTACTCAGCCTAACACATTCCTAATT
65 CCCTGGTTACTCAGCCCAACACATTCCTAATT
56699440 TTTATTTTTCTTAAGAACATATCAAACCTTTTGACGTAAAGAGAAATGACAGCCAAGCACCTCAC
1 TTTATTTTTCTTAAGAACATATCAAACCTTTTGACGTAAAGAGAAATGACAGCCAAGCACCTCAC
56699505 CCTGGTTACTCAGCCCAACACATTCCTAATT
66 CCTGGTTACTCAGCCCAACACATTCCTAATT
56699536 TTTATTTTTCTTAAGAACATATCAAACCTTTTGACGTAAAGAGAAATGACAGCCAAGCACCTCAC
1 TTTATTTTTCTTAAGAACATATCAAACCTTTTGACGTAAAGAGAAATGACAGCCAAGCACCTCAC
56699601 CCTGGTTACTCAGCCCAACACATTC
66 CCTGGTTACTCAGCCCAACACATTC
56699626 TTAAAAATTA
Statistics
Matches: 176, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
96 167 0.95
97 9 0.05
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (96 bp):
TTTATTTTTCTTAAGAACATATCAAACCTTTTGACGTAAAGAGAAATGACAGCCAAGCACCTCAC
CCTGGTTACTCAGCCCAACACATTCCTAATT
Found at i:56700347 original size:10 final size:10
Alignment explanation
Indices: 56700330--56700393 Score: 53
Period size: 10 Copynumber: 6.4 Consensus size: 10
56700320 TATTAATATC
56700330 TAAA-AATAA
1 TAAATAATAA
56700339 TAAATAATAA
1 TAAATAATAA
*
56700349 AATAATAATAA
1 TA-AATAATAA
*
56700360 AAAATAA-AA
1 TAAATAATAA
56700369 TAAACTAA-AA
1 TAAA-TAATAA
*
56700379 TAAAATAAAAA
1 T-AAATAATAA
56700390 TAAA
1 TAAA
56700394 AATTGGGTTG
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
9 9 0.19
10 23 0.48
11 16 0.33
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.22
Consensus pattern (10 bp):
TAAATAATAA
Found at i:56700368 original size:5 final size:5
Alignment explanation
Indices: 56700344--56700394 Score: 57
Period size: 5 Copynumber: 9.4 Consensus size: 5
56700334 AATAATAAAT
*
56700344 AATAA AATAA TAATAAAA AATAA AATAA ACTAA AATAA AATAAA AATAA
1 AATAA AATAA -AAT--AA AATAA AATAA AATAA AATAA AAT-AA AATAA
56700393 AA
1 AA
56700395 ATTGGGTTGC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 27 0.68
6 8 0.20
7 3 0.08
8 2 0.05
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:56700370 original size:15 final size:15
Alignment explanation
Indices: 56700332--56700394 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
56700322 TTAATATCTA
*
56700332 AAAATAATAAATAAT
1 AAAATAATAAAAAAT
*
56700347 AAAATAAT-AATAA-
1 AAAATAATAAAAAAT
*
56700360 AAAATAA-AATAAACT
1 AAAATAATAA-AAAAT
*
56700375 AAAATAAAATAAAAAT
1 AAAATAATA-AAAAAT
56700391 AAAA
1 AAAA
56700395 ATTGGGTTGC
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
13 8 0.20
14 7 0.17
15 15 0.38
16 9 0.22
17 1 0.03
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATAATAAAAAAT
Found at i:56703244 original size:12 final size:12
Alignment explanation
Indices: 56703227--56703259 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
56703217 TTCCCTGTAA
56703227 AATAGTAAAAAT
1 AATAGTAAAAAT
56703239 AATAGTAAAAAT
1 AATAGTAAAAAT
*
56703251 AATAATAAA
1 AATAGTAAA
56703260 GGGGAAGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:56703435 original size:17 final size:18
Alignment explanation
Indices: 56703415--56703448 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56703405 AAGTGAATTG
56703415 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
56703432 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
56703449 AAAAAAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:56703803 original size:29 final size:30
Alignment explanation
Indices: 56703744--56703801 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
56703734 TCCGAGCCTT
*
56703744 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
56703774 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
56703802 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:56704031 original size:13 final size:13
Alignment explanation
Indices: 56704013--56704044 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56704003 TTTCCAGCAA
56704013 TTATGAATTTATT
1 TTATGAATTTATT
56704026 TTATGAATTTATT
1 TTATGAATTTATT
*
56704039 TGATGA
1 TTATGA
56704045 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:56704219 original size:50 final size:50
Alignment explanation
Indices: 56704139--56704323 Score: 361
Period size: 50 Copynumber: 3.7 Consensus size: 50
56704129 ATTTGGGTAA
*
56704139 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
56704189 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
56704239 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
56704289 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
56704324 TTTGGCATGT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 134 1.00
ACGTcount: A:0.26, C:0.24, G:0.33, T:0.17
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:56718184 original size:12 final size:10
Alignment explanation
Indices: 56718158--56718204 Score: 67
Period size: 11 Copynumber: 4.4 Consensus size: 10
56718148 AACTTAATCC
56718158 TTTCTCTCAA
1 TTTCTCTCAA
56718168 TTTCTCTCTAA
1 TTTCTCTC-AA
56718179 TATTCTCTCAA
1 T-TTCTCTCAA
56718190 TTTCCTCTCAA
1 TTT-CTCTCAA
56718201 TTTC
1 TTTC
56718205 CTTTCAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
10 11 0.32
11 16 0.47
12 7 0.21
ACGTcount: A:0.19, C:0.30, G:0.00, T:0.51
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:56718199 original size:11 final size:11
Alignment explanation
Indices: 56718161--56718217 Score: 64
Period size: 11 Copynumber: 5.2 Consensus size: 11
56718151 TTAATCCTTT
56718161 CTCTCAATTT-
1 CTCTCAATTTC
56718171 CTCTCTAATATT-
1 CTCTC-AAT-TTC
56718183 CTCTCAATTTC
1 CTCTCAATTTC
56718194 CTCTCAATTTC
1 CTCTCAATTTC
* *
56718205 CTTTCAAATTC
1 CTCTCAATTTC
56718216 CT
1 CT
56718218 ATTTAAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
10 7 0.17
11 28 0.67
12 7 0.17
ACGTcount: A:0.21, C:0.32, G:0.00, T:0.47
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:56719521 original size:18 final size:18
Alignment explanation
Indices: 56719484--56719522 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
56719474 ATGCCAGGTG
* * *
56719484 TGTATCCTAGCTCTTTTA
1 TGTATCCTAACCCTTATA
56719502 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
56719520 TGT
1 TGT
56719523 TTCCATTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.23, G:0.10, T:0.46
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:56719818 original size:21 final size:21
Alignment explanation
Indices: 56719784--56719825 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
56719774 GATCCCCTAT
* * *
56719784 CGGAGGAACTAGAATCCCCGC
1 CGGAGCAACCAGAACCCCCGC
56719805 CGGAGCAACCAGAACCCCCGC
1 CGGAGCAACCAGAACCCCCGC
56719826 TGGAAGCTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.40, G:0.26, T:0.05
Consensus pattern (21 bp):
CGGAGCAACCAGAACCCCCGC
Found at i:56723001 original size:7 final size:7
Alignment explanation
Indices: 56722989--56723024 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
56722979 CCTTAACCTT
56722989 AACCCTA
1 AACCCTA
56722996 AACCCTA
1 AACCCTA
*
56723003 AACTCTA
1 AACCCTA
56723010 AACCCTA
1 AACCCTA
56723017 AACCCTA
1 AACCCTA
56723024 A
1 A
56723025 CGACAGGGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (7 bp):
AACCCTA
Found at i:56729411 original size:15 final size:15
Alignment explanation
Indices: 56729381--56729446 Score: 57
Period size: 15 Copynumber: 4.3 Consensus size: 15
56729371 AAAAAATAAT
56729381 TTAAAAATAATAAAAAA
1 TTAAAAAT--TAAAAAA
56729398 TTAAAAATTAAAAAA
1 TTAAAAATTAAAAAA
56729413 -T--AAATTATAAAAA
1 TTAAAAATTA-AAAAA
* *
56729426 TAAAAAATAAAAAAA
1 TTAAAAATTAAAAAA
56729441 TGTAAA
1 T-TAAA
56729447 CTAGATTGCC
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
12 6 0.15
13 5 0.12
14 1 0.02
15 13 0.32
16 8 0.20
17 8 0.20
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (15 bp):
TTAAAAATTAAAAAA
Found at i:56729424 original size:13 final size:12
Alignment explanation
Indices: 56729368--56729429 Score: 58
Period size: 11 Copynumber: 5.1 Consensus size: 12
56729358 TATATGTTAC
56729368 ATTAAAAAAT-A
1 ATTAAAAAATAA
*
56729379 ATTTAAAAAT-A
1 ATTAAAAAATAA
56729390 A-TAAAAAATTAAAA
1 ATTAAAAAA-T--AA
56729404 ATTAAAAAATAA
1 ATTAAAAAATAA
56729416 ATTATAAAAATAA
1 ATTA-AAAAATAA
56729429 A
1 A
56729430 AAATAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
10 6 0.14
11 12 0.28
12 6 0.14
13 9 0.21
14 3 0.07
15 7 0.16
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
ATTAAAAAATAA
Found at i:56729439 original size:7 final size:7
Alignment explanation
Indices: 56729384--56729439 Score: 60
Period size: 7 Copynumber: 7.9 Consensus size: 7
56729374 AAATAATTTA
56729384 AAAATAAT
1 AAAA-AAT
56729392 AAAAAATT
1 AAAAAA-T
*
56729400 AAAAATT
1 AAAAAAT
56729407 AAAAAAT
1 AAAAAAT
**
56729414 AAATTAT
1 AAAAAAT
56729421 -AAAAAT
1 AAAAAAT
56729427 AAAAAAT
1 AAAAAAT
56729434 AAAAAA
1 AAAAAA
56729440 ATGTAAACTA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
6 4 0.10
7 26 0.65
8 10 0.25
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (7 bp):
AAAAAAT
Found at i:56729441 original size:36 final size:36
Alignment explanation
Indices: 56729368--56729439 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
56729358 TATATGTTAC
* *
56729368 ATTAAAAAATAATTTAAAAATAATAAAAAATTAAAA
1 ATTAAAAAATAAATTAAAAATAATAAAAAATAAAAA
*
56729404 ATTAAAAAATAAATTATAAA-AATAAAAAATAAAAA
1 ATTAAAAAATAAATTAAAAATAATAAAAAATAAAAA
56729439 A
1 A
56729440 ATGTAAACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 15 0.45
36 18 0.55
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (36 bp):
ATTAAAAAATAAATTAAAAATAATAAAAAATAAAAA
Found at i:56731300 original size:15 final size:14
Alignment explanation
Indices: 56731276--56731305 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
56731266 TGGGAAGCCT
56731276 AATTTGACAAATCA
1 AATTTGACAAATCA
56731290 AATTATGACAAATCA
1 AATT-TGACAAATCA
56731305 A
1 A
56731306 CTACATGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (14 bp):
AATTTGACAAATCA
Found at i:56734340 original size:41 final size:41
Alignment explanation
Indices: 56734295--56734375 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
56734285 ATTTTCTCAA
56734295 TTTAATTACTTAACCGATCTTTAATATATTTTTCATACTAG
1 TTTAATTACTTAACCGATCTTTAATATATTTTTCATACTAG
**
56734336 TTTAATTACTTAATTGATCTTTAATATATTTTTCATACTA
1 TTTAATTACTTAACCGATCTTTAATATATTTTTCATACTA
56734376 ACTTCGTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.32, C:0.12, G:0.04, T:0.52
Consensus pattern (41 bp):
TTTAATTACTTAACCGATCTTTAATATATTTTTCATACTAG
Found at i:56736263 original size:47 final size:47
Alignment explanation
Indices: 56736185--56736581 Score: 695
Period size: 47 Copynumber: 8.4 Consensus size: 47
56736175 CCCTTCGGGA
* * * * * *
56736185 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56736232 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56736279 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56736326 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56736373 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56736420 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56736467 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56736514 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56736563 CTTATCACATATATACACT
1 CTTATCACATATATACACT
56736582 GTCTTGGCTG
Statistics
Matches: 336, Mismatches: 12, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
47 290 0.86
49 46 0.14
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56748970 original size:37 final size:37
Alignment explanation
Indices: 56748929--56749167 Score: 131
Period size: 37 Copynumber: 6.6 Consensus size: 37
56748919 TATTATAAAG
* *
56748929 GTTAGTTGATTTTAGATCACAACCTAAGTTAATTTGA
1 GTTAGCTGATTTAAGATCACAACCTAAGTTAATTTGA
* * *
56748966 GTTAGCTGATTTAATATCGCAACCTAAGTTTATTTGA
1 GTTAGCTGATTTAAGATCACAACCTAAGTTAATTTGA
* * * ** *
56749003 GTTACCTGATTTAAAATCGCAACTCCTAA-ACAACTTG-
1 GTTAGCTGATTTAAGATCACAA--CCTAAGTTAATTTGA
* * * * *
56749040 CTAACCT-A--T--GTTCACAA-CTAATGTT-ATAT-A
1 GTTAGCTGATTTAAGATCACAACCTAA-GTTAATTTGA
* * *
56749070 GGTTAGCTAATTTAAGATTGA-AACCTAAGTTTATTTGA
1 -GTTAGCTGATTTAAGA-TCACAACCTAAGTTAATTTGA
* * ** *
56749108 GTTAGTTGATTTAATATCGGAACCTAAGTTTATTTGA
1 GTTAGCTGATTTAAGATCACAACCTAAGTTAATTTGA
*
56749145 GTTAGTTGATTTAAGATCACAAC
1 GTTAGCTGATTTAAGATCACAAC
56749168 TCTTAAATAG
Statistics
Matches: 152, Mismatches: 34, Indels: 32
0.70 0.16 0.15
Matches are distributed among these distances:
29 4 0.03
30 2 0.01
31 4 0.03
32 6 0.04
34 2 0.01
36 8 0.05
37 116 0.76
38 5 0.03
39 5 0.03
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (37 bp):
GTTAGCTGATTTAAGATCACAACCTAAGTTAATTTGA
Found at i:56749031 original size:142 final size:142
Alignment explanation
Indices: 56748845--56749271 Score: 554
Period size: 142 Copynumber: 3.0 Consensus size: 142
56748835 AAATGTTCAT
* *
56748845 ACCTAAGTTTATTTGAGTTAGTTAATTTAAGATCGCAACTCCTAAACAGCTCGCTAACCTACGTT
1 ACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAAACAGCTCGCTAACCTATGTT
* * *
56748910 CACATCTAATATTATAAAGGTTAGTTGATTTTAGATCACAACCTAAGTTAATTTGAGTTAGCTGA
66 CACATCTAATATTATAAAGGTTAGCTGATTTAAGATCACAACCTAAGTTTATTTGAGTTAGCTGA
56748975 TTTAATATCGCA
131 TTTAATATCGCA
** * * *
56748987 ACCTAAGTTTATTTGAGTTACCTGATTTAAAATCGCAACTCCTAAACAACTTGCTAACCTATGTT
1 ACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAAACAGCTCGCTAACCTATGTT
* * * * * *
56749052 CACAACTAATGTTATATAGGTTAGCTAATTTAAGATTGA-AACCTAAGTTTATTTGAGTTAGTTG
66 CACATCTAATATTATAAAGGTTAGCTGATTTAAGA-TCACAACCTAAGTTTATTTGAGTTAGCTG
*
56749116 ATTTAATATCGGA
130 ATTTAATATCGCA
* * * * *
56749129 ACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCACAACTCTTAAATAGCTCACTGACCTATGTT
1 ACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAAACAGCTCGCTAACCTATGTT
* * * * * *
56749194 CACGGT-TGATATTTTAAAGGTTAGCTGATTTAAGATCGCGACCTAAGTTTATTTGACTTAGCT-
66 CAC-ATCTAATATTATAAAGGTTAGCTGATTTAAGATCACAACCTAAGTTTATTTGAGTTAGCTG
*
56749257 ATTTAAGATCGCA
130 ATTTAATATCGCA
56749270 AC
1 AC
56749272 TTCTAAATAG
Statistics
Matches: 241, Mismatches: 41, Indels: 7
0.83 0.14 0.02
Matches are distributed among these distances:
141 14 0.06
142 225 0.93
143 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (142 bp):
ACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAAACAGCTCGCTAACCTATGTT
CACATCTAATATTATAAAGGTTAGCTGATTTAAGATCACAACCTAAGTTTATTTGAGTTAGCTGA
TTTAATATCGCA
Found at i:56749357 original size:208 final size:208
Alignment explanation
Indices: 56749108--56749589 Score: 626
Period size: 208 Copynumber: 2.3 Consensus size: 208
56749098 GTTTATTTGA
* * * *
56749108 GTTAGTTGATTTAATATCGGAACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCACAACTCTTA
1 GTTAGTTGATTTAAGATTGAAACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCACAACTCCTA
* * * * * * * *
56749173 AATAGCTCACTGACCTATGTTCACGGTTGATATTTTAAAGGTTAGCTGATTTAAGATCGCGACCT
66 AACAGCTCACTGACCTACGTTCACAGCTAATATTATAAAGGTTAGCTGATTTAAGATCGCAACCC
* * * * **
56749238 AAGTTTATTTGACTTAG-CTATTTAAGATCGCAACTTCTAAATAGCTCGCTGACCTATGTTCACA
131 AAATTTATTTGACTTAGTCTATTTAAGATCACAACTCCTAAATAGCTCACTGACCTACATTCACA
*
56749302 ATTAATATTATAAG
196 ACTAATATTA-AAG
* * *
56749316 GTTAATTGATTTAAGATTGAAACCTAAGTCTATTTGAGTTAGTTGATTTAAGATCTCAACTCCTA
1 GTTAGTTGATTTAAGATTGAAACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCACAACTCCTA
** *
56749381 AACAGCTTGCTGACCTACGTTCACAGCTAATATTATAAAGGTTAGCTGATTTAAGATCGTAACCC
66 AACAGCTCACTGACCTACGTTCACAGCTAATATTATAAAGGTTAGCTGATTTAAGATCGCAACCC
* * *
56749446 AAATTTATTTGAGTTAGTTTATTTAAGATCATAACTCCTAAATAGCTCACTGACCTACATTCACA
131 AAATTTATTTGACTTAGTCTATTTAAGATCACAACTCCTAAATAGCTCACTGACCTACATTCACA
*
56749511 ACTGATATTAAAG
196 ACTAATATTAAAG
* * * * *
56749524 GTTAGTTGATTTAAGA-TCATAACCTAAGTTTATTTGAGTTAGCTAATTTATGATCACAAATCCT
1 GTTAGTTGATTTAAGATTGA-AACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCACAACTCCT
56749588 AA
65 AA
56749590 CAACTTATCT
Statistics
Matches: 235, Mismatches: 37, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
207 2 0.01
208 185 0.79
209 48 0.20
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.37
Consensus pattern (208 bp):
GTTAGTTGATTTAAGATTGAAACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCACAACTCCTA
AACAGCTCACTGACCTACGTTCACAGCTAATATTATAAAGGTTAGCTGATTTAAGATCGCAACCC
AAATTTATTTGACTTAGTCTATTTAAGATCACAACTCCTAAATAGCTCACTGACCTACATTCACA
ACTAATATTAAAG
Found at i:56749474 original size:105 final size:105
Alignment explanation
Indices: 56749108--56749589 Score: 576
Period size: 105 Copynumber: 4.6 Consensus size: 105
56749098 GTTTATTTGA
* * *
56749108 GTTAGTTGATTTAATATCGGAACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCACAACTCTTA
1 GTTAGTTGATTTAAGATCGTAACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCACAACTCCTA
* *** * *
56749173 AATAGCTCACTGACCTATGTTCACGGTTGATATTTTAAAG
66 AATAGCTCACTGACCTACGTTCACAACTAATATTATAAAG
* ** * * * *
56749213 GTTAGCTGATTTAAGATCGCGACCTAAGTTTATTTGACTTAGCT-ATTTAAGATCGCAACTTCTA
1 GTTAGTTGATTTAAGATCGTAACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCACAACTCCTA
* * *
56749277 AATAGCTCGCTGACCTATGTTCACAATTAATATTAT-AAG
66 AATAGCTCACTGACCTACGTTCACAACTAATATTATAAAG
* * * * *
56749316 GTTAATTGATTTAAGATTGAAACCTAAGTCTATTTGAGTTAGTTGATTTAAGATCTCAACTCCTA
1 GTTAGTTGATTTAAGATCGTAACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCACAACTCCTA
* ** *
56749381 AACAGCTTGCTGACCTACGTTCACAGCTAATATTATAAAG
66 AATAGCTCACTGACCTACGTTCACAACTAATATTATAAAG
* * * * *
56749421 GTTAGCTGATTTAAGATCGTAACCCAAATTTATTTGAGTTAGTTTATTTAAGATCATAACTCCTA
1 GTTAGTTGATTTAAGATCGTAACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCACAACTCCTA
* *
56749486 AATAGCTCACTGACCTACATTCACAACTGATA-T-TAAAG
66 AATAGCTCACTGACCTACGTTCACAACTAATATTATAAAG
* * * * *
56749524 GTTAGTTGATTTAAGATCATAACCTAAGTTTATTTGAGTTAGCTAATTTATGATCACAAATCCTA
1 GTTAGTTGATTTAAGATCGTAACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCACAACTCCTA
56749589 A
66 A
56749590 CAACTTATCT
Statistics
Matches: 321, Mismatches: 54, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
103 101 0.31
104 98 0.31
105 122 0.38
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.37
Consensus pattern (105 bp):
GTTAGTTGATTTAAGATCGTAACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCACAACTCCTA
AATAGCTCACTGACCTACGTTCACAACTAATATTATAAAG
Found at i:56754666 original size:44 final size:44
Alignment explanation
Indices: 56754617--56754711 Score: 163
Period size: 44 Copynumber: 2.2 Consensus size: 44
56754607 CACTGCGGGT
* *
56754617 TAGGACTTGTAATCTTCAACCTATTCCACTGTTGGTCAGGGAGA
1 TAGGACTTGCAATCTTCAACCTATTCCACTGCTGGTCAGGGAGA
*
56754661 TAGGACTTGCGATCTTCAACCTATTCCACTGCTGGTCAGGGAGA
1 TAGGACTTGCAATCTTCAACCTATTCCACTGCTGGTCAGGGAGA
56754705 TAGGACT
1 TAGGACT
56754712 CGCGGCTTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (44 bp):
TAGGACTTGCAATCTTCAACCTATTCCACTGCTGGTCAGGGAGA
Found at i:56754916 original size:85 final size:85
Alignment explanation
Indices: 56754812--56755091 Score: 267
Period size: 85 Copynumber: 3.2 Consensus size: 85
56754802 CTTCGGTCTA
*
56754812 TTCCACTATAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTATAACTTCAGAGAGATA
1 TTCCACTATAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
*
56754877 AGATCCTTTATTTTAATCCG
66 AGATCCTTTATTTTAATCTG
* * * * * * * * * * *
56754897 TTCCACTATAATCTCAGGGAAATAGGATTACTGGCTTCAATATGCTTTGCTGTAA-TCTCAGGGA
1 TTCCACTATAATCTCAGGGAGATAAGA--CCT-GATGCGATCTACTCTACTGTAACT-TCAGAGA
* * ** *
56754961 GATAAGA-ACTATAATTCTTCGGTCTA
62 GATAAGATCCT-TTATT-TT-AATCTG
* * *
56754987 TTCCACTGTAATCTTAGGGAGATAAGACCTGATGCGATCTTCTCTACTGTAACTTCAGAGAGATA
1 TTCCACTATAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
56755052 AGATCCTTTATTTTAATCTG
66 AGATCCTTTATTTTAATCTG
* * *
56755072 TTCCATTGTAATATCAGGGA
1 TTCCACTATAATCTCAGGGA
56755092 AATAGGATTA
Statistics
Matches: 147, Mismatches: 39, Indels: 18
0.72 0.19 0.09
Matches are distributed among these distances:
85 45 0.31
86 2 0.01
87 37 0.25
88 36 0.24
89 2 0.01
90 25 0.17
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (85 bp):
TTCCACTATAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
AGATCCTTTATTTTAATCTG
Found at i:56754983 original size:175 final size:175
Alignment explanation
Indices: 56754797--56755155 Score: 601
Period size: 175 Copynumber: 2.1 Consensus size: 175
56754787 GACAGGATCT
56754797 TAATTCTTCGGTCTATTCCACTATAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTAT
1 TAATTCTTCGGTCTATTCCACTATAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTAT
*
56754862 AACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTATAATCTCAGGGAAATAGGATTA
66 AACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTATAATATCAGGGAAATAGGATTA
***
56754927 CTGGCTTCAATATGCTTTGCTGTAATCTCAGGGAGATAAGAACTA
131 CTGGCTTCAATATGCTCCACTGTAATCTCAGGGAGATAAGAACTA
* * * *
56754972 TAATTCTTCGGTCTATTCCACTGTAATCTTAGGGAGATAAGACCTGATGCGATCTTCTCTACTGT
1 TAATTCTTCGGTCTATTCCACTATAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTAT
* * *
56755037 AACTTCAGAGAGATAAGATCCTTTATTTTAATCTGTTCCATTGTAATATCAGGGAAATAGGATTA
66 AACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTATAATATCAGGGAAATAGGATTA
* *
56755102 CTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTA
131 CTGGCTTCAATATGCTCCACTGTAATCTCAGGGAGATAAGAACTA
56755147 TAATTCTTC
1 TAATTCTTC
56755156 ACTGATCTGT
Statistics
Matches: 171, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
175 171 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (175 bp):
TAATTCTTCGGTCTATTCCACTATAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTAT
AACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTATAATATCAGGGAAATAGGATTA
CTGGCTTCAATATGCTCCACTGTAATCTCAGGGAGATAAGAACTA
Found at i:56766185 original size:17 final size:17
Alignment explanation
Indices: 56766163--56766198 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
56766153 CAAGCAAATT
56766163 AATAACTAAAAAAATGA
1 AATAACTAAAAAAATGA
56766180 AATAACTAAAAAAATGA
1 AATAACTAAAAAAATGA
56766197 AA
1 AA
56766199 GAAAGGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.17
Consensus pattern (17 bp):
AATAACTAAAAAAATGA
Found at i:56785479 original size:49 final size:49
Alignment explanation
Indices: 56785336--56785483 Score: 149
Period size: 49 Copynumber: 3.0 Consensus size: 49
56785326 TTTTTGCAAC
* * * *
56785336 CTGTGTGTCTTGGCCTTGTGGAGCACAAGGCCGTGTAAAACTTTGCAGA
1 CTGTGTGTCTTAGCCATGTGGAGCACAAGGCCGTGTGAAACTTTACAGA
** * ****
56785385 CTGTGTG-GGTAGGCCATGTAGAGCACACA-GCCGTGTGTGTTTTTACAG-
1 CTGTGTGTCTTA-GCCATGTGGAGCACA-AGGCCGTGTGAAACTTTACAGA
56785433 CTTGTGTGTCTTAGCCATGTGGAGCACAAGGCCGTGTGAAACTTTACAGA
1 C-TGTGTGTCTTAGCCATGTGGAGCACAAGGCCGTGTGAAACTTTACAGA
56785483 C
1 C
56785484 CATATGGGTA
Statistics
Matches: 75, Mismatches: 18, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
48 3 0.04
49 68 0.91
50 4 0.05
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (49 bp):
CTGTGTGTCTTAGCCATGTGGAGCACAAGGCCGTGTGAAACTTTACAGA
Found at i:56785500 original size:49 final size:48
Alignment explanation
Indices: 56785352--56785504 Score: 123
Period size: 49 Copynumber: 3.1 Consensus size: 48
56785342 GTCTTGGCCT
* * **
56785352 TGTGGAGCACAAGGCCGTGTAAAACTTTGCAGACTGTGTGGGTAGGCCA
1 TGTGGAGCACAAGGCCGTGTGAAACTTTACAGACCATGTGGGTA-GCCA
* **** * *
56785401 TGTAGAGCACACA-GCCGTGTGTGTTTTTACAG--CTTGTGTGTCTTAGCCA
1 TGTGGAGCACA-AGGCCGTGTGAAACTTTACAGACCATGTG-G--GTAGCCA
*
56785450 TGTGGAGCACAAGGCCGTGTGAAACTTTACAGACCATATGGGTAGTCCA
1 TGTGGAGCACAAGGCCGTGTGAAACTTTACAGACCATGTGGGTAG-CCA
56785499 TGTGGA
1 TGTGGA
56785505 CAACACGCTA
Statistics
Matches: 78, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
47 4 0.05
48 5 0.06
49 61 0.78
50 4 0.05
51 4 0.05
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.27
Consensus pattern (48 bp):
TGTGGAGCACAAGGCCGTGTGAAACTTTACAGACCATGTGGGTAGCCA
Found at i:56786022 original size:5 final size:5
Alignment explanation
Indices: 56786012--56786095 Score: 98
Period size: 5 Copynumber: 16.8 Consensus size: 5
56786002 AGGACATGTA
* * *
56786012 ATGAT ATGAT ATAAT ATGAT ATGAT ATGAT TTGGT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
* * *
56786062 ATGTT ATGAT A-CATT ATGAT ATGAT AAGAT ATGA
1 ATGAT ATGAT ATGA-T ATGAT ATGAT ATGAT ATGA
56786096 CTAGTATGAA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
4 1 0.02
5 63 0.97
6 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.19, T:0.40
Consensus pattern (5 bp):
ATGAT
Found at i:56792159 original size:21 final size:21
Alignment explanation
Indices: 56792135--56792174 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
56792125 AGAATTGCCA
* *
56792135 AAATAGTTTGAGGAGAAATGG
1 AAATAGATTGAAGAGAAATGG
*
56792156 AAATGGATTGAAGAGAAAT
1 AAATAGATTGAAGAGAAAT
56792175 TTAGGGCAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (21 bp):
AAATAGATTGAAGAGAAATGG
Found at i:56800436 original size:172 final size:173
Alignment explanation
Indices: 56800046--56800497 Score: 721
Period size: 172 Copynumber: 2.6 Consensus size: 173
56800036 AGATCAATGG
* * *
56800046 AATTGTAGATATTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCC
1 AATTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCC
* * * *
56800111 TAGGAGTAGGGAAGCATATTTAAGCCACAAATCCTATCTTCCTGGACAACATTGGAGTAGGTTGA
66 CAGGAGTAGGGAAGCAGATTTAAGCCACAAATCCTATC-TCCTGGACAACATTGGAATAGGTTAA
* *
56800176 AGATTGTAGACCTTATCTCCTTGAGCATCAGTGGAGTAGGTTGAA
130 AGA-TCTAGACCTTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAA
56800221 AATTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCC
1 AATTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCC
* * *
56800286 CAAGAATAGGGAAGCAGATTTAAGCCACAAATCCTATCTCCTTGGACAGCATTGGAATAGGTTAA
66 CAGGAGTAGGGAAGCAGATTTAAGCCACAAATCCTATCTCC-TGGACAACATTGGAATAGGTTAA
*
56800351 AGA-CTAG-TCTTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAA
130 AGATCTAGACCTTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAA
56800393 AATTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCC
1 AATTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCC
*
56800458 CAGGAGTAGGGAAGTAGATTTAAGCCACAAA-CTCTATCTC
66 CAGGAGTAGGGAAGCAGATTTAAGCCACAAATC-CTATCTC
56800498 TCTGAGCAGC
Statistics
Matches: 259, Mismatches: 16, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
171 1 0.00
172 133 0.51
173 3 0.01
174 3 0.01
175 119 0.46
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (173 bp):
AATTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCC
CAGGAGTAGGGAAGCAGATTTAAGCCACAAATCCTATCTCCTGGACAACATTGGAATAGGTTAAA
GATCTAGACCTTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAA
Found at i:56800518 original size:131 final size:131
Alignment explanation
Indices: 56800361--56800680 Score: 459
Period size: 131 Copynumber: 2.4 Consensus size: 131
56800351 AGACTAGTCT
* *
56800361 TATCTC-CTTGAGCAGCAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGTAGTAGTG
1 TATCTCTC-TGAGCAGCAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAATAGTG
* * *
56800425 GAGCAGATCGAAGACG-GCGAATCTTATCTTCCCCAGGAGTAGGGAAGTAGATTTAAGCCACAAA
65 GAGCAAATCAAAGA-GTGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAA
56800489 -CTC
129 TC-C
* *
56800492 TATCTCTCTGAGCAGCAGTGGGGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAATAGTGG
1 TATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAATAGTGG
*
56800557 AGCAAATCAAAGAGTTCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAATC
66 AGCAAATCAAAGAGTGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAATC
56800622 C
131 C
* * * * *
56800623 TATCTCTCTG-GACAGCAGTGGAATAGGTTGAAGATTGTAGACCTTATCTCCCTGAGCA
1 TATCTCTCTGAG-CAGCAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCA
56800681 GCAGCGGAGT
Statistics
Matches: 170, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
130 2 0.01
131 166 0.98
132 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (131 bp):
TATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAATAGTGG
AGCAAATCAAAGAGTGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAATC
C
Found at i:56800694 original size:44 final size:44
Alignment explanation
Indices: 56800635--56801038 Score: 130
Period size: 44 Copynumber: 9.2 Consensus size: 44
56800625 TCTCTCTGGA
* * *
56800635 CAGCAGTGGAATAGGTTGAAGATTGTAGACCTTATCTCCCTGAG
1 CAGCAGTGGAGTAGGTTGAAGATTGCAGACCTTATCTCCCTAAG
* * * *
56800679 CAGCAGCGGAGTAGGTTAAAAATTGCAGATCTTATCTCCCTAAG
1 CAGCAGTGGAGTAGGTTGAAGATTGCAGACCTTATCTCCCTAAG
* * * * * *
56800723 CAGTAGTGGAGCAGATTGAAGA-CG-ACGAATCTTATCTTCCC-CAG
1 CAGCAGTGGAGTAGGTTGAAGATTGCA-G-ACCTTATC-TCCCTAAG
* * * * *** * * * *
56800767 GAGTAG-GGAAGTAGATTTAAG-CCACAAACCCTATCTCTCT-GG
1 CAGCAGTGG-AGTAGGTTGAAGATTGCAGACCTTATCTCCCTAAG
* * * * *
56800809 ACAGCAATGGAATAGGTTGAAAATTGCATATCTTATCTCCCTAAG
1 -CAGCAGTGGAGTAGGTTGAAGATTGCAGACCTTATCTCCCTAAG
* * * * * *
56800854 CAGTAGTGGAGCAGATCGAAGACGGTG-A-ATCTTATCTTCCCT-AG
1 CAGCAGTGGAGTAGGTTGAAGA--TTGCAGACCTTATC-TCCCTAAG
* * * * *** * * *
56800898 GAGTAG-GGAAGTAGATTTAAG-CCACAAACCCTATCTCTCT-AG
1 CAGCAGTGG-AGTAGGTTGAAGATTGCAGACCTTATCTCCCTAAG
* * * * *
56800940 ACAGCAGTGGAATAGGTTGAAGATTGTAGACATTATCTCCTTAAA
1 -CAGCAGTGGAGTAGGTTGAAGATTGCAGACCTTATCTCCCTAAG
* * ** *
56800985 CAGTAGTGGAGTAGGTTGAAAATTAAAGATCTTATCTCCCTAAG
1 CAGCAGTGGAGTAGGTTGAAGATTGCAGACCTTATCTCCCTAAG
*
56801029 CAGTAGTGGA
1 CAGCAGTGGA
56801039 ACAGATCGAA
Statistics
Matches: 258, Mismatches: 81, Indels: 42
0.68 0.21 0.11
Matches are distributed among these distances:
42 12 0.05
43 42 0.16
44 189 0.73
45 13 0.05
46 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
CAGCAGTGGAGTAGGTTGAAGATTGCAGACCTTATCTCCCTAAG
Found at i:56800695 original size:175 final size:175
Alignment explanation
Indices: 56800492--56800856 Score: 552
Period size: 175 Copynumber: 2.1 Consensus size: 175
56800482 CCACAAACTC
* * * *
56800492 TATCTCTCTGAGCAGCAGTGGGGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAATAGTGG
1 TATCTCCCTGAGCAGCAGCGGAGTAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAATAGTGG
* *
56800557 AGCAAATCAAAGA-GTTCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAAT
66 AGCAAATCAAAGACG-ACGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAAC
* * *
56800621 CCTATCTCTCTGGACAGCAGTGGAATAGGTTGAAGATTGTAGACCT
130 CCTATCTCTCTGGACAGCAATGGAATAGGTTGAAAATTGCAGACCT
* *
56800667 TATCTCCCTGAGCAGCAGCGGAGTAGGTTAAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGAGCAGCAGCGGAGTAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAATAGTGG
* ** *
56800732 AGCAGATTGAAGACGACGAATCTTATCTTCCCCAGGAGTAGGGAAGTAGATTTAAGCCACAAACC
66 AGCAAATCAAAGACGACGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAACC
* *
56800797 CTATCTCTCTGGACAGCAATGGAATAGGTTGAAAATTGCATATCT
131 CTATCTCTCTGGACAGCAATGGAATAGGTTGAAAATTGCAGACCT
*
56800842 TATCTCCCTAAGCAG
1 TATCTCCCTGAGCAG
56800857 TAGTGGAGCA
Statistics
Matches: 171, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
175 170 0.99
176 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (175 bp):
TATCTCCCTGAGCAGCAGCGGAGTAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAATAGTGG
AGCAAATCAAAGACGACGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAACC
CTATCTCTCTGGACAGCAATGGAATAGGTTGAAAATTGCAGACCT
Found at i:56800736 original size:131 final size:131
Alignment explanation
Indices: 56800361--56800739 Score: 358
Period size: 131 Copynumber: 2.9 Consensus size: 131
56800351 AGACTAGTCT
* * * * ** *
56800361 TATCTC-CTTGAGCAGCAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGTAGTAGTG
1 TATCTCTC-TGAGCAGCAGTGGAATAGGTTGAAAATTACAGACCTTATCTCCCTAAGCAACAGCG
* * *** * * *
56800425 GAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGTAGATTTAAGCCACAAAC
65 GAGCAAATCAAAGAATTCGAATCTTATCTTCCCAAGCAGTAGGGAAGCAGATTTAAGCCACAAAC
56800490 TC
130 TC
** * * *
56800492 TATCTCTCTGAGCAGCAGTGGGGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAATAGTGG
1 TATCTCTCTGAGCAGCAGTGGAATAGGTTGAAAATTACAGACCTTATCTCCCTAAGCAACAGCGG
* * *
56800557 AGCAAATCAAAGAGTTCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAA-T
66 AGCAAATCAAAGAATTCGAATCTTATCTTCCCAAGCAGTAGGGAAGCAGATTTAAGCCACAAACT
56800621 CC
131 -C
* ** * *
56800623 TATCTCTCTG-GACAGCAGTGGAATAGGTTGAAGATTGTAGACCTTATCTCCCTGAGCAGCAGCG
1 TATCTCTCTGAG-CAGCAGTGGAATAGGTTGAAAATTACAGACCTTATCTCCCTAAGCAACAGCG
* ** *
56800687 GAGTAGGTTAAA-AATT-GCAGATCTTATC-TCCCTAAGCAGTAGTGG-AGCAGATT
65 GAGCAAATCAAAGAATTCG-A-ATCTTATCTTCCC-AAGCAGTAG-GGAAGCAGATT
56800740 GAAGACGACG
Statistics
Matches: 214, Mismatches: 27, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
129 1 0.00
130 10 0.05
131 200 0.93
132 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (131 bp):
TATCTCTCTGAGCAGCAGTGGAATAGGTTGAAAATTACAGACCTTATCTCCCTAAGCAACAGCGG
AGCAAATCAAAGAATTCGAATCTTATCTTCCCAAGCAGTAGGGAAGCAGATTTAAGCCACAAACT
C
Found at i:56800785 original size:306 final size:306
Alignment explanation
Indices: 56800189--56801067 Score: 1319
Period size: 306 Copynumber: 2.9 Consensus size: 306
56800179 TTGTAGACCT
* *
56800189 TATCTC-CTTGAGCATCAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGTAGTAGTG
1 TATCTCTC-TGAGCAGCAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
* * *
56800253 GAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAATAGGGAAGCAGATTTAAGCCACAAAT
65 GAGCAGATCGAAGACGTCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAAT
* * * *
56800318 CCTATCTC-CTTGGACAGCATTGGAATAGGTTAAAGA--CTAG-TCTTATCTCCTTGAGCAGCAG
130 CCTATCTCTC-TGGACAGCAGTGGAATAGGTTGAAGATTGTAGACCTTATCTCCTTGAGCAGCAG
* *
56800379 TGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCG
194 TGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACG
*
56800444 AATCTTATCTTCCCCAGGAGTAGGGAAGTAGATTTAAGCCACAAACTC
259 AATCTTATCTTCCCCAGGAGTAGGGAAGTAGATTTAAGCCACAAACCC
* * *
56800492 TATCTCTCTGAGCAGCAGTGGGGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAATAGTGG
1 TATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGG
* *
56800557 AGCAAATCAAAGA-GTTCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAAT
66 AGCAGATCGAAGACG-TCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAAT
* *
56800621 CCTATCTCTCTGGACAGCAGTGGAATAGGTTGAAGATTGTAGACCTTATCTCCCTGAGCAGCAGC
130 CCTATCTCTCTGGACAGCAGTGGAATAGGTTGAAGATTGTAGACCTTATCTCCTTGAGCAGCAGT
* *
56800686 GGAGTAGGTTAAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA
195 GGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGA
56800751 ATCTTATCTTCCCCAGGAGTAGGGAAGTAGATTTAAGCCACAAACCC
260 ATCTTATCTTCCCCAGGAGTAGGGAAGTAGATTTAAGCCACAAACCC
* * *
56800798 TATCTCTCTG-GACAGCAATGGAATAGGTTGAAAATTGCATATCTTATCTCCCTAAGCAGTAGTG
1 TATCTCTCTGAG-CAGCAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
* *
56800862 GAGCAGATCGAAGACGGT-GAATCTTATCTTCCCTAGGAGTAGGGAAGTAGATTTAAGCCACAAA
65 GAGCAGATCGAAGAC-GTCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAA
* * * * * *
56800926 CCCTATCTCTCTAGACAGCAGTGGAATAGGTTGAAGATTGTAGACATTATCTCCTTAAACAGTAG
129 TCCTATCTCTCTGGACAGCAGTGGAATAGGTTGAAGATTGTAGACCTTATCTCCTTGAGCAGCAG
** *
56800991 TGGAGTAGGTTGAAAATTAAAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGAC-ATC
194 TGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA-C
56801055 GAATCTTA-CTTCC
258 GAATCTTATCTTCC
56801068 TAGACGATGC
Statistics
Matches: 522, Mismatches: 44, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
302 1 0.00
303 147 0.28
304 2 0.00
305 10 0.02
306 360 0.69
307 1 0.00
308 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (306 bp):
TATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGG
AGCAGATCGAAGACGTCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAATC
CTATCTCTCTGGACAGCAGTGGAATAGGTTGAAGATTGTAGACCTTATCTCCTTGAGCAGCAGTG
GAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAA
TCTTATCTTCCCCAGGAGTAGGGAAGTAGATTTAAGCCACAAACCC
Found at i:56800803 original size:131 final size:132
Alignment explanation
Indices: 56800667--56801004 Score: 495
Period size: 131 Copynumber: 2.6 Consensus size: 132
56800657 TTGTAGACCT
* * * *
56800667 TATCTCCCTGAG-CAGCAGCGGAGTAGGTTAAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
1 TATCTCTCTGAGACAGCAGTGGAATAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
56800731 GAGCAGATTGAAGACGACGAATCTTATCTTCCCCAGGAGTAGGGAAGTAGATTTAAGCCACAAAC
66 GAGCAGATTGAAGACGACGAATCTTATCTTCCCCAGGAGTAGGGAAGTAGATTTAAGCCACAAAC
56800796 CC
131 CC
* *
56800798 TATCTCTCTG-GACAGCAATGGAATAGGTTGAAAATTGCATATCTTATCTCCCTAAGCAGTAGTG
1 TATCTCTCTGAGACAGCAGTGGAATAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
* ** *
56800862 GAGCAGATCGAAGACGGTGAATCTTATCTTCCCTAGGAGTAGGGAAGTAGATTTAAGCCACAAAC
66 GAGCAGATTGAAGACGACGAATCTTATCTTCCCCAGGAGTAGGGAAGTAGATTTAAGCCACAAAC
56800927 CC
131 CC
* * * *
56800929 TATCTCTCT-AGACAGCAGTGGAATAGGTTGAAGATTGTAGA-CATTATCTCCTTAAACAGTAGT
1 TATCTCTCTGAGACAGCAGTGGAATAGGTTGAAAATTGCAGATC-TTATCTCCCTAAGCAGTAGT
* *
56800992 GGAGTAGGTTGAA
65 GGAGCAGATTGAA
56801005 AATTAAAGAT
Statistics
Matches: 185, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
130 2 0.01
131 183 0.99
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
TATCTCTCTGAGACAGCAGTGGAATAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATTGAAGACGACGAATCTTATCTTCCCCAGGAGTAGGGAAGTAGATTTAAGCCACAAAC
CC
Found at i:56801111 original size:50 final size:50
Alignment explanation
Indices: 56801054--56801217 Score: 172
Period size: 50 Copynumber: 3.3 Consensus size: 50
56801044 TCGAAGACAT
*
56801054 CGAATCTTACTTCCTAGACGATGCAGTGGAATAGATTGAAGTCACAACGA
1 CGAATCTTACTTCCTAGACGATGCAGTGGAAAAGATTGAAGTCACAACGA
* * ** * ** *
56801104 TGAATCTTGCTTCCCCGAC-ATTACAGTTCAAAAGATTGAAG-CTACAGC-A
1 CGAATCTTACTTCCTAGACGA-TGCAGTGGAAAAGATTGAAGTC-ACAACGA
* *
56801153 GCGAATCTTACCTCCTAGACGATGCAGTGGAAAAGATTGAAGTCACAACGG
1 -CGAATCTTACTTCCTAGACGATGCAGTGGAAAAGATTGAAGTCACAACGA
*
56801204 CGAATCTTGCTTCC
1 CGAATCTTACTTCC
56801218 ACGGCATTAC
Statistics
Matches: 87, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
49 3 0.03
50 82 0.94
51 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (50 bp):
CGAATCTTACTTCCTAGACGATGCAGTGGAAAAGATTGAAGTCACAACGA
Found at i:56801227 original size:100 final size:99
Alignment explanation
Indices: 56801054--56801332 Score: 359
Period size: 99 Copynumber: 2.8 Consensus size: 99
56801044 TCGAAGACAT
* **
56801054 CGAATCTTACTTCCTAGACGATGCAGTGGAATAGATTGAAGTCACAACGATGAATCTTGCTTCCC
1 CGAATCTTACTTCCTAGACGATGCAGTGGAAAAGATTGAAGTCACAACGGCGAATCTTGCTTCCC
*
56801119 CGACATTACAGTTCAAAAGATTGAAGCTACAGCAG
66 CGACATTACAGTT-AAAAGATTGAAGCTACAACAG
* *
56801154 CGAATCTTACCTCCTAGACGATGCAGTGGAAAAGATTGAAGTCACAACGGCGAATCTTGCTTCCA
1 CGAATCTTACTTCCTAGACGATGCAGTGGAAAAGATTGAAGTCACAACGGCGAATCTTGCTTCCC
* *
56801219 CGGCATTACAGTTAAAAGATTGAAGCTACAATAG
66 CGACATTACAGTTAAAAGATTGAAGCTACAACAG
* * * * *
56801253 CAAATCTTACTTCCCT-GAC-AGTGTAG-GAGAACAGATTAAAG-CTACAATGGCGAATCTTGCT
1 CGAATCTTACTT-CCTAGACGA-TGCAGTG-GAAAAGATTGAAGTC-ACAACGGCGAATCTTGCT
*
56801314 TCCCCGACATCACAGTTAA
62 TCCCCGACATTACAGTTAA
56801333 GCAGATTAAA
Statistics
Matches: 158, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
98 3 0.02
99 80 0.51
100 75 0.47
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (99 bp):
CGAATCTTACTTCCTAGACGATGCAGTGGAAAAGATTGAAGTCACAACGGCGAATCTTGCTTCCC
CGACATTACAGTTAAAAGATTGAAGCTACAACAG
Found at i:56801338 original size:50 final size:49
Alignment explanation
Indices: 56801105--56801349 Score: 165
Period size: 50 Copynumber: 4.9 Consensus size: 49
56801095 TCACAACGAT
* * ***
56801105 GAATCTTGCTTCCCCGACATTACAGTTCAAAAGATTGAAGCTACAGCAGC
1 GAATCTTGCTTCCCCGACATTACAGTT-AACAGATTAAAGCTACAATGGC
* * ** * * * * *
56801155 GAATCTTACCTCCTAGACGA-TGCAGTGGAAAAGATTGAAG-TCACAACGGC
1 GAATCTTGCTTCCCCGAC-ATTACAGT-TAACAGATTAAAGCT-ACAATGGC
* * * * *
56801205 GAATCTTGCTTCCACGGCATTACAGTTAAAAGATTGAAGCTACAATAGC
1 GAATCTTGCTTCCCCGACATTACAGTTAACAGATTAAAGCTACAATGGC
* * * *
56801254 AAATCTTACTTCCCTGACAGTGTAGGAG--AACAGATTAAAGCTACAATGGC
1 GAATCTTGCTTCCCCGACA-T-TA-CAGTTAACAGATTAAAGCTACAATGGC
* *
56801304 GAATCTTGCTTCCCCGACATCACAGTTAAGCAGATTAAAGTTACAA
1 GAATCTTGCTTCCCCGACATTACAGTTAA-CAGATTAAAGCTACAA
56801350 GTTCCAAATC
Statistics
Matches: 152, Mismatches: 32, Indels: 22
0.74 0.16 0.11
Matches are distributed among these distances:
47 2 0.01
48 1 0.01
49 37 0.24
50 107 0.70
51 3 0.02
52 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (49 bp):
GAATCTTGCTTCCCCGACATTACAGTTAACAGATTAAAGCTACAATGGC
Found at i:56802988 original size:20 final size:19
Alignment explanation
Indices: 56802941--56802988 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
56802931 TTGTTATGAT
56802941 TTTA-TTTATAATATATTC
1 TTTATTTTATAATATATTC
* *
56802959 TTAATATTTATAGATATATTG
1 TTTAT-TTTATA-ATATATTC
56802980 TTTATTTTA
1 TTTATTTTA
56802989 AAACTTTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTATTTTATAATATATTC
Found at i:56807342 original size:17 final size:17
Alignment explanation
Indices: 56807316--56807350 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
56807306 AGTTTTTGTC
56807316 TTCATCTTTTGT-ATTA
1 TTCATCTTTTGTCATTA
56807332 TTCAGTCTTTTGTCATTA
1 TTCA-TCTTTTGTCATTA
56807350 T
1 T
56807351 AGTAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 8 0.47
18 5 0.29
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (17 bp):
TTCATCTTTTGTCATTA
Found at i:56807799 original size:42 final size:42
Alignment explanation
Indices: 56807706--56807951 Score: 262
Period size: 42 Copynumber: 5.8 Consensus size: 42
56807696 CAAACAAAAA
* * * *** ** *
56807706 CGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAGAAA
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTACTAAG
*
56807748 CGCCTCTAAAGAACATGGTCTTTAGCGGCGTTTTTTACTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTACTAAG
* * * *
56807790 CGCCGCTAAAGAACATGGTCTTTCGGGGCATTTATTTTCTAATG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTT-TTTACTAA-G
56807834 -GCCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTT-CTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTT-TTTACTAAG
* * *
56807875 CGCCGCTGAAGAGCATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTACTAAG
** * *
56807917 CGCCGCTAAAGAACATTATCTTTAACGGCGCTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
56807952 ATACAAAAAC
Statistics
Matches: 173, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
41 4 0.02
42 129 0.75
43 39 0.23
44 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTACTAAG
Found at i:56807854 original size:85 final size:83
Alignment explanation
Indices: 56807748--56807951 Score: 275
Period size: 85 Copynumber: 2.4 Consensus size: 83
56807738 TAGAAAGAAA
*
56807748 CGCCTCTAAAGAACATGGTCTTTAGCGGCGTTTTTTACTAAGCGCCGCTAAAGAACATGGTCTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTT-CTAAGCGCCGCTAAAGAACATGGTCTTT
* *
56807813 CGGGGCATTTATTTTCTAATG
65 AGCGGCATTT-TTTTCTAA-G
* *
56807834 -GCCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTCTAAGCGCCGCTGAAGAGCATGGTCTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTT-TTTCTAAGCGCCGCTAAAGAACATGGTCTTT
*
56807898 AGCGGCGTTTTTTTCTAAG
65 AGCGGCATTTTTTTCTAAG
** * *
56807917 CGCCGCTAAAGAACATTATCTTTAACGGCGCTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
56807952 ATACAAAAAC
Statistics
Matches: 106, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
83 3 0.03
84 36 0.34
85 64 0.60
86 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (83 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTA
GCGGCATTTTTTTCTAAG
Found at i:56808296 original size:21 final size:21
Alignment explanation
Indices: 56808267--56808310 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
56808257 TTTTGCTCTG
*
56808267 CTCTACTTCTCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
* *
56808288 CTCTGCTTCCCTCGCTGCCGC
1 CTCTACTTCCCTCGCTGCAGC
56808309 CT
1 CT
56808311 TTGTTTTAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.05, C:0.48, G:0.16, T:0.32
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCAGC
Found at i:56809548 original size:16 final size:16
Alignment explanation
Indices: 56809527--56809562 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
56809517 ATTAATTGAA
* *
56809527 ATAAAATTGTAAATTG
1 ATAAAATTGAAAATCG
56809543 ATAAAATTGAAAATCG
1 ATAAAATTGAAAATCG
56809559 ATAA
1 ATAA
56809563 TTATAAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.11, T:0.31
Consensus pattern (16 bp):
ATAAAATTGAAAATCG
Found at i:56811068 original size:44 final size:44
Alignment explanation
Indices: 56811010--56811097 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
56811000 TTAAAACATT
*
56811010 TTTGCGGCGTTTTAAGCAAAGCACCACAAACTATAAGTCAAAAC
1 TTTGCGGCGTTTTAAACAAAGCACCACAAACTATAAGTCAAAAC
* * *
56811054 TTTGCGGCGTTTTAAACTAAGCGCCACTAACTATAAGTCAAAAC
1 TTTGCGGCGTTTTAAACAAAGCACCACAAACTATAAGTCAAAAC
56811098 GCAGTCGCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (44 bp):
TTTGCGGCGTTTTAAACAAAGCACCACAAACTATAAGTCAAAAC
Found at i:56811833 original size:14 final size:14
Alignment explanation
Indices: 56811810--56811848 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
56811800 TCTAAATCTT
*
56811810 AAACCTCAAAAACC
1 AAACCCCAAAAACC
**
56811824 AAACCCCAAACCCC
1 AAACCCCAAAAACC
56811838 AAACCCCAAAA
1 AAACCCCAAAA
56811849 CCCCAAACAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.54, C:0.44, G:0.00, T:0.03
Consensus pattern (14 bp):
AAACCCCAAAAACC
Found at i:56811851 original size:8 final size:7
Alignment explanation
Indices: 56811822--56811856 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
56811812 ACCTCAAAAA
56811822 CCAAACC
1 CCAAACC
56811829 CCAAACC
1 CCAAACC
56811836 CCAAACC
1 CCAAACC
56811843 CCAAAACC
1 CC-AAACC
56811851 CCAAAC
1 CCAAAC
56811857 ACTAAAAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.46, C:0.54, G:0.00, T:0.00
Consensus pattern (7 bp):
CCAAACC
Found at i:56811863 original size:15 final size:15
Alignment explanation
Indices: 56811822--56811863 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
56811812 ACCTCAAAAA
*
56811822 CCAAAC-CCCAAACC
1 CCAAACACCAAAACC
*
56811836 CCAAACCCCAAAACC
1 CCAAACACCAAAACC
*
56811851 CCAAACACTAAAA
1 CCAAACACCAAAA
56811864 GTCAAAACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.50, C:0.48, G:0.00, T:0.02
Consensus pattern (15 bp):
CCAAACACCAAAACC
Found at i:56812347 original size:13 final size:14
Alignment explanation
Indices: 56812331--56812390 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
56812321 AATTAATCAA
56812331 AACCCTAAAT-CCT
1 AACCCTAAATCCCT
56812344 AACCC-AAATCCCT
1 AACCCTAAATCCCT
56812357 AACCCCT-AATCCCT
1 AA-CCCTAAATCCCT
*
56812371 AACCCCT-AACCCCT
1 AA-CCCTAAATCCCT
56812385 AACCCT
1 AACCCT
56812391 TAAACCATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
12 4 0.09
13 14 0.33
14 25 0.58
ACGTcount: A:0.33, C:0.48, G:0.00, T:0.18
Consensus pattern (14 bp):
AACCCTAAATCCCT
Found at i:56812363 original size:7 final size:7
Alignment explanation
Indices: 56812353--56812389 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
56812343 TAACCCAAAT
56812353 CCCTAAC
1 CCCTAAC
*
56812360 CCCTAAT
1 CCCTAAC
56812367 CCCTAAC
1 CCCTAAC
56812374 CCCTAAC
1 CCCTAAC
56812381 CCCTAAC
1 CCCTAAC
56812388 CC
1 CC
56812390 TTAAACCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.27, C:0.57, G:0.00, T:0.16
Consensus pattern (7 bp):
CCCTAAC
Found at i:56812369 original size:14 final size:14
Alignment explanation
Indices: 56812341--56812389 Score: 73
Period size: 14 Copynumber: 3.6 Consensus size: 14
56812331 AACCCTAAAT
*
56812341 CCTAA-CCCAAATC
1 CCTAACCCCTAATC
56812354 CCTAACCCCTAATC
1 CCTAACCCCTAATC
*
56812368 CCTAACCCCTAACC
1 CCTAACCCCTAATC
56812382 CCTAACCC
1 CCTAACCC
56812390 TTAAACCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
13 5 0.15
14 28 0.85
ACGTcount: A:0.31, C:0.53, G:0.00, T:0.16
Consensus pattern (14 bp):
CCTAACCCCTAATC
Found at i:56812779 original size:18 final size:18
Alignment explanation
Indices: 56812756--56812791 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
56812746 ATTGAATTTT
56812756 AATT-AATATAAATAAACA
1 AATTAAATATAAA-AAACA
56812774 AATTAAATATAAAAAACA
1 AATTAAATATAAAAAACA
56812792 TATAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
AATTAAATATAAAAAACA
Found at i:56812799 original size:18 final size:19
Alignment explanation
Indices: 56812760--56812799 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
56812750 AATTTTAATT
*
56812760 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
*
56812779 AATATAAA-AAACATATAA
1 AATATAAATAAACAAATAA
56812797 AAT
1 AAT
56812800 GATTTTGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:56813164 original size:113 final size:113
Alignment explanation
Indices: 56812898--56813554 Score: 488
Period size: 113 Copynumber: 5.8 Consensus size: 113
56812888 TCGGGAAAAG
* ** * * ** *
56812898 CGCCGCTAATACTAT-GTTTCAGCAGCGTTTTCCTGTATGCACCACTAATTCCAGTATACATCAA
1 CGCCGCTAATACTATAGTTT-AGCGGCGTTTTCCAATAAGCGCCACTAATTATAATATACATCAA
* * ** * * ** * * *
56812962 GAACTAAACGCTGTATTTTCGTTAATACCTTTTGGTGGCGCTTACCACAAA
65 G-ACCAAACTCTGCGTTTTGGTTAAGATATTTT-GCGGTGCTTTCCACAAA
* * * * ** *
56813013 GCGCCGCAAATAGTA-AGCATTAGCAGCGTTTTGAAATAAGCGCCACTAACTT-TAATATACGTC
1 -CGCCGCTAATACTATAG-TTTAGCGGCGTTTTCCAATAAGCGCCACTAA-TTATAATATACATC
* * *
56813076 AAGGCCAAACTCTGCGTTTTGGTTAGGATACTTTGCGGTGCTTTCCACAAA
63 AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGTGCTTTCCACAAA
* * *
56813127 CGCCGCTACTACTATAGTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAG
1 CGCCGCTAATACTATAGTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTATAATATACATCAAG
* * * *
56813192 ACCAAACTCCGCGTTTTGGTTAAGATATTTTGAGGCGCTTACCACCAAA
66 ACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGTGCTTTCCA-CAAA
* * * * * * *
56813241 TGCTGCTATTACTAT-GCTTTAGTGGCGTTTTCC-TTAAACGCCACTAATTATAGTATACATCAA
1 CGCCGCTAATACTATAG-TTTAGCGGCGTTTTCCAATAAGCGCCACTAATTATAATATACATCAA
* * * * *
56813304 GACCAAAACGCTGCGTTTTGGTTAAGATGTTTTGCGGTG-TTTAACACTCAG
65 GACC-AAACTCTGCGTTTTGGTTAAGATATTTTGCGGTGCTTT-CCAC-AAA
** ** * *
56813355 CGCCGCTAATACTATACATTAGCGGCGTTTTCTTTATAAGCGCCACTACTTGTAATATACATCAA
1 CGCCGCTAATACTATAGTTTAGCGGCGTTTTC-CAATAAGCGCCACTAATTATAATATACATCAA
* * * * *
56813420 GACCAAACTCTGCGTTTTGGTTAACATCTTTTGCGGCGC-TTCCGCTAAG
65 GACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGTGCTTTCCAC-AAA
* * * * * * *
56813469 CACCGCTAATACTAT-GCATTACCAGCGTTTGTTC-GTAAGCGCCACTAATTCTAATATACATCA
1 CGCCGCTAATACTATAG-TTTAGCGGCGTTT-TCCAATAAGCGCCACTAATTATAATATACATCA
*
56813532 AGACCAGAA-TGCTGCGTGTTGGT
64 AGACCA-AACT-CTGCGTTTTGGT
56813555 CTTGAGATTT
Statistics
Matches: 435, Mismatches: 88, Indels: 38
0.78 0.16 0.07
Matches are distributed among these distances:
112 2 0.00
113 154 0.35
114 147 0.34
115 53 0.12
116 75 0.17
117 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (113 bp):
CGCCGCTAATACTATAGTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTATAATATACATCAAG
ACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGTGCTTTCCACAAA
Found at i:56813337 original size:114 final size:113
Alignment explanation
Indices: 56812898--56813573 Score: 524
Period size: 114 Copynumber: 5.9 Consensus size: 113
56812888 TCGGGAAAAG
* * ** * * *
56812898 CGCCGCTAATACTATG-TTTCAGCAGCGTTTTCCTGTATGCACCACTAATTCCAGTATACATCAA
1 CGCCGCTAATACTATGCATT-AGCGGCGTTTTCCT-TAAACGCCACTAATTCTAATATACATCAA
* * ** * * ** *
56812962 GAACTAAACGCTGTATTTTCGTTAATACCTTTTGGTGGCGCTTACCA-CAAA
64 G-ACCAAACTCTGCGTTTTGGTTAAGATATTTT-GCGGCGCTTACCACCAAA
* * * * *** * *
56813013 GCGCCGCAAATAGTAAGCATTAGCAGCGTTTTGAAATAAGCGCCACTAACTT-TAATATACGTCA
1 -CGCCGCTAATACTATGCATTAGCGGCGTTTT-CCTTAAACGCCACTAA-TTCTAATATACATCA
* * * * *
56813077 AGGCCAAACTCTGCGTTTTGGTTAGGATACTTTGCGGTGCTTTCCA-CAAA
63 AGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACCACCAAA
* * * * *
56813127 CGCCGCTACTACTATAG-TTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAA
1 CGCCGCTAATACTAT-GCATTAGCGGCGTTTTCC-TTAAACGCCACTAATTCTAATATACATCAA
* *
56813191 GACCAAACTCCGCGTTTTGGTTAAGATATTTTGAGGCGCTTACCACCAAA
64 GACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACCACCAAA
* * * * * * *
56813241 TGCTGCTATTACTATGCTTTAGTGGCGTTTTCCTTAAACGCCACTAATTATAGTATACATCAAGA
1 CGCCGCTAATACTATGCATTAGCGGCGTTTTCCTTAAACGCCACTAATTCTAATATACATCAAGA
* * * * * *
56813306 CCAAAACGCTGCGTTTTGGTTAAGATGTTTTGCGGTGTTTAACACTC-AG
66 CC-AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACCAC-CAAA
* * * *
56813355 CGCCGCTAATACTATACATTAGCGGCGTTTTCTTTATAAGCGCCACTACTTGTAATATACATCAA
1 CGCCGCTAATACTATGCATTAGCGGCGTTTTCCTTA-AA-CGCCACTAATTCTAATATACATCAA
* * * * *
56813420 GACCAAACTCTGCGTTTTGGTTAACATCTTTTGCGGCGCTT-CCGCTAAG
64 GACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACCACCAAA
* * * * * *
56813469 CACCGCTAATACTATGCATTACCAGCGTTTGTTCGTAAGCGCCACTAATTCTAATATACATCAAG
1 CGCCGCTAATACTATGCATTAGCGGCGTTT-TCCTTAAACGCCACTAATTCTAATATACATCAAG
* * *
56813534 ACCAGAA-TGCTGCGTGTTGGTCT-TGAGATTTTGCGGCGCT
65 ACCA-AACT-CTGCGTTTTGGT-TAAGATATTTTGCGGCGCT
56813574 GTGTGGTAAA
Statistics
Matches: 451, Mismatches: 92, Indels: 36
0.78 0.16 0.06
Matches are distributed among these distances:
112 2 0.00
113 146 0.32
114 168 0.37
115 59 0.13
116 72 0.16
117 4 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (113 bp):
CGCCGCTAATACTATGCATTAGCGGCGTTTTCCTTAAACGCCACTAATTCTAATATACATCAAGA
CCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACCACCAAA
Found at i:56813569 original size:229 final size:227
Alignment explanation
Indices: 56812998--56813554 Score: 552
Period size: 229 Copynumber: 2.4 Consensus size: 227
56812988 ACCTTTTGGT
* * * * * *** *
56812998 GGCGCTTACCA-CAAAGCGCCGCAAATAGTAAGCATTAGCAGCGTTTTGAAATAAGCGCCACTAA
1 GGCGCTTACCACCAAA-CACCGCTAATACTATGCATTACCAGCGTTTT-CCGTAAACGCCACTAA
* * * * * *
56813062 CTT-TAATATACGTCAAGGCC-AAACTCTGCGTTTTGGTTAGGA-TACTTTGCGGTGCTTT-CCA
64 -TTATAATATACATCAAGACCAAAACGCTGCGTGTTGGTTAAGAGT--TTTGCGGTG-TTTAACA
* * * ** *
56813123 C-AAACGCCGCTACTACTATAGTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACC
125 CTCAGCGCCGCTAATACTATACATTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACA
*
56813187 TCAAGACCAAACTCCGCGTTTTGGTTAAGATATTTTGA
190 TCAAGACCAAACTCCGCGTTTTGGTTAACATATTTTGA
** * * * *** *
56813225 GGCGCTTACCACCAAATGCTGCTATTACTATGCTTTAGTGGCGTTTTCCTTAAACGCCACTAATT
1 GGCGCTTACCACCAAACACCGCTAATACTATGCATTACCAGCGTTTTCCGTAAACGCCACTAATT
* *
56813290 ATAGTATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATGTTTTGCGGTGTTTAACACTCAG
66 ATAATATACATCAAGACCAAAACGCTGCGTGTTGGTTAAGA-GTTTTGCGGTGTTTAACACTCAG
** * *
56813355 CGCCGCTAATACTATACATTAGCGGCGTTTTCTTTATAAGCGCCACTACTTGTAATATACATCAA
130 CGCCGCTAATACTATACATTAGCGGCGTTTTC-CAATAAGCGCCACTAATTCTAATATACATCAA
* * *
56813420 GACCAAACTCTGCGTTTTGGTTAACATCTTTTGC
194 GACCAAACTCCGCGTTTTGGTTAACATATTTTGA
* * * * *
56813454 GGCGCTT-CCGCTAAGCACCGCTAATACTATGCATTACCAGCGTTTGTTCGTAAGCGCCACTAAT
1 GGCGCTTACCACCAAACACCGCTAATACTATGCATTACCAGCGTTT-TCCGTAAACGCCACTAAT
* * *
56813518 TCTAATATACATCAAGACCAGAATGCTGCGTGTTGGT
65 TATAATATACATCAAGACCAAAACGCTGCGTGTTGGT
56813555 CTTGAGATTT
Statistics
Matches: 269, Mismatches: 52, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
225 2 0.01
226 29 0.11
227 65 0.24
228 61 0.23
229 112 0.42
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (227 bp):
GGCGCTTACCACCAAACACCGCTAATACTATGCATTACCAGCGTTTTCCGTAAACGCCACTAATT
ATAATATACATCAAGACCAAAACGCTGCGTGTTGGTTAAGAGTTTTGCGGTGTTTAACACTCAGC
GCCGCTAATACTATACATTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACATCAAGA
CCAAACTCCGCGTTTTGGTTAACATATTTTGA
Found at i:56822057 original size:18 final size:18
Alignment explanation
Indices: 56822034--56822108 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 18
56822024 AAAAGTTGTG
56822034 ATAATTATATATTTAAAA
1 ATAATTATATATTTAAAA
**
56822052 ATAATTATA-ATTTAATTT
1 ATAATTATATATTTAA-AA
* *
56822070 ACAATTAT-TAGTTAAAA
1 ATAATTATATATTTAAAA
* *
56822087 ATATTTTATTTATTTAAAA
1 ATA-ATTATATATTTAAAA
56822106 ATA
1 ATA
56822109 GAACTATTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
17 8 0.18
18 25 0.57
19 11 0.25
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
ATAATTATATATTTAAAA
Found at i:56835207 original size:14 final size:14
Alignment explanation
Indices: 56835188--56835222 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
56835178 ATTATAATCA
56835188 ACCTTTCAGCTTTC
1 ACCTTTCAGCTTTC
*
56835202 ACCTTTCATCTTTC
1 ACCTTTCAGCTTTC
*
56835216 ATCTTTC
1 ACCTTTC
56835223 TTAACTCTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.14, C:0.34, G:0.03, T:0.49
Consensus pattern (14 bp):
ACCTTTCAGCTTTC
Found at i:56842007 original size:24 final size:24
Alignment explanation
Indices: 56841979--56842030 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
56841969 TTTGTAGAAG
*
56841979 ATTTAGTATTTATTAT-TATAATAT
1 ATTTAGCATTTATT-TGTATAATAT
*
56842003 ATTTAGCATTTATTTGTATAATTT
1 ATTTAGCATTTATTTGTATAATAT
56842027 ATTT
1 ATTT
56842031 CACCTACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.60
Consensus pattern (24 bp):
ATTTAGCATTTATTTGTATAATAT
Found at i:56842204 original size:17 final size:17
Alignment explanation
Indices: 56842178--56842212 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
56842168 AGTTTTTGTC
56842178 TTCATCTTTTGT-ATTA
1 TTCATCTTTTGTCATTA
56842194 TTCATTCTTTTGTCATTA
1 TTCA-TCTTTTGTCATTA
56842212 T
1 T
56842213 AGTAAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 8 0.47
18 5 0.29
ACGTcount: A:0.17, C:0.14, G:0.06, T:0.63
Consensus pattern (17 bp):
TTCATCTTTTGTCATTA
Found at i:56844536 original size:26 final size:26
Alignment explanation
Indices: 56844497--56844552 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
56844487 ACTGAACCGG
*
56844497 TTTTTTATTTAATTTTTAAATAATTTA
1 TTTTTTATTGAATTTTT-AATAATTTA
56844524 TTTTTT-TTGAATTTTTAATAATTTA
1 TTTTTTATTGAATTTTTAATAATTTA
56844549 TTTT
1 TTTT
56844553 ATCAAACCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 13 0.46
26 9 0.32
27 6 0.21
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (26 bp):
TTTTTTATTGAATTTTTAATAATTTA
Found at i:56844899 original size:14 final size:15
Alignment explanation
Indices: 56844880--56844918 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
56844870 TTGTTTCACT
56844880 GAAAATGACTTTC-G
1 GAAAATGACTTTCTG
56844894 GAAAATGA-TTTCTG
1 GAAAATGACTTTCTG
56844908 GAAAATGACTT
1 GAAAATGACTT
56844919 ACTTTTCCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.17
14 17 0.74
15 2 0.09
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (15 bp):
GAAAATGACTTTCTG
Found at i:56845396 original size:15 final size:16
Alignment explanation
Indices: 56845376--56845413 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 16
56845366 TAATTGTAAT
56845376 AAATATTTAGTATT-A
1 AAATATTTAGTATTGA
56845391 AAATA-TTAGTATTGA
1 AAATATTTAGTATTGA
56845406 ATAATATT
1 A-AATATT
56845414 ATTTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.40
15 7 0.35
16 4 0.20
17 1 0.05
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (16 bp):
AAATATTTAGTATTGA
Found at i:56845408 original size:28 final size:26
Alignment explanation
Indices: 56845377--56845451 Score: 62
Period size: 28 Copynumber: 2.7 Consensus size: 26
56845367 AATTGTAATA
56845377 AATATTTAGTATTAAAATATTAGTATTG
1 AATATTTA-TATTAAAATATTA-TATTG
* *
56845405 AATAATATTAT-TTAAAATTATTATTTTT
1 AAT-AT-TTATATTAAAA-TATTATATTG
*
56845433 AAAATTTACTATTAAAATA
1 AATATTTA-TATTAAAATA
56845452 AAATTTAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
26 3 0.08
27 5 0.13
28 20 0.51
29 8 0.21
30 3 0.08
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (26 bp):
AATATTTATATTAAAATATTATATTG
Found at i:56845470 original size:18 final size:18
Alignment explanation
Indices: 56845432--56845467 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
56845422 TTATTATTTT
*
56845432 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
56845450 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
56845468 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:56845498 original size:9 final size:9
Alignment explanation
Indices: 56845484--56845525 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
56845474 ATTAAAAATA
56845484 AATTATATT
1 AATTATATT
56845493 AATTATATT
1 AATTATATT
56845502 AATTATATT
1 AATTATATT
56845511 AA-TA-ATT
1 AATTATATT
*
56845518 TATTATAT
1 AATTATAT
56845526 GACTAAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 4 0.13
8 4 0.13
9 22 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
AATTATATT
Found at i:56845505 original size:18 final size:16
Alignment explanation
Indices: 56845468--56845525 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
56845458 AAATATTAAA
*
56845468 TAATT-TATTAAAAAT
1 TAATTATATTAATAAT
*
56845483 AAATTATATTAATTATAT
1 TAATTATATTAA-TA-AT
56845501 TAATTATATTAATAAT
1 TAATTATATTAATAAT
*
56845517 TTATTATAT
1 TAATTATAT
56845526 GACTAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 4 0.11
16 16 0.44
17 3 0.08
18 13 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTATATTAATAAT
Found at i:56845855 original size:15 final size:16
Alignment explanation
Indices: 56845835--56845872 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 16
56845825 TAATTGTAAT
56845835 AAATATTTAGTATT-A
1 AAATATTTAGTATTGA
56845850 AAATA-TTAGTATTGA
1 AAATATTTAGTATTGA
56845865 ATAATATT
1 A-AATATT
56845873 ATTTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.40
15 7 0.35
16 4 0.20
17 1 0.05
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (16 bp):
AAATATTTAGTATTGA
Found at i:56845867 original size:28 final size:26
Alignment explanation
Indices: 56845836--56845910 Score: 62
Period size: 28 Copynumber: 2.7 Consensus size: 26
56845826 AATTGTAATA
56845836 AATATTTAGTATTAAAATATTAGTATTG
1 AATATTTA-TATTAAAATATTA-TATTG
* *
56845864 AATAATATTAT-TTAAAATTATTATTTTT
1 AAT-AT-TTATATTAAAA-TATTATATTG
*
56845892 AAAATTTACTATTAAAATA
1 AATATTTA-TATTAAAATA
56845911 AAATTTAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
26 3 0.08
27 5 0.13
28 20 0.51
29 8 0.21
30 3 0.08
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (26 bp):
AATATTTATATTAAAATATTATATTG
Found at i:56845903 original size:459 final size:459
Alignment explanation
Indices: 56845344--56846261 Score: 1836
Period size: 459 Copynumber: 2.0 Consensus size: 459
56845334 ATACTACAAA
56845344 ACACTTATTATTAATATATTTATAATTGTAATAAATATTTAGTATTAAAATATTAGTATTGAATA
1 ACACTTATTATTAATATATTTATAATTGTAATAAATATTTAGTATTAAAATATTAGTATTGAATA
56845409 ATATTATTTAAAATTATTATTTTTAAAATTTACTATTAAAATAAAATTTAAATATTAAATAATTT
66 ATATTATTTAAAATTATTATTTTTAAAATTTACTATTAAAATAAAATTTAAATATTAAATAATTT
56845474 ATTAAAAATAAATTATATTAATTATATTAATTATATTAATAATTTATTATATGACTAAATATAAA
131 ATTAAAAATAAATTATATTAATTATATTAATTATATTAATAATTTATTATATGACTAAATATAAA
56845539 TAATTAAATACGTATGTTTAATAATATTAAAAAATAGAATATTTTATATTAATATTTTAAATATT
196 TAATTAAATACGTATGTTTAATAATATTAAAAAATAGAATATTTTATATTAATATTTTAAATATT
56845604 TTTAAAAATAAAAATAAAAATTATTATCAATATAATAATATTAAACTTGATTTAAGTTAATTTTT
261 TTTAAAAATAAAAATAAAAATTATTATCAATATAATAATATTAAACTTGATTTAAGTTAATTTTT
56845669 ATATAAAAGTAAAATTATCTATTTAGGAGCTCTTTTTTGGAAAATGACTTACGCTTTTCAAAAGG
326 ATATAAAAGTAAAATTATCTATTTAGGAGCTCTTTTTTGGAAAATGACTTACGCTTTTCAAAAGG
56845734 GTAAGTAATTTTACAAGGAAAAAGGCTTATTTTTCGTTGACCTATAAGTCATTTTCCATTGACCA
391 GTAAGTAATTTTACAAGGAAAAAGGCTTATTTTTCGTTGACCTATAAGTCATTTTCCATTGACCA
56845799 AGCT
456 AGCT
56845803 ACACTTATTATTAATATATTTATAATTGTAATAAATATTTAGTATTAAAATATTAGTATTGAATA
1 ACACTTATTATTAATATATTTATAATTGTAATAAATATTTAGTATTAAAATATTAGTATTGAATA
56845868 ATATTATTTAAAATTATTATTTTTAAAATTTACTATTAAAATAAAATTTAAATATTAAATAATTT
66 ATATTATTTAAAATTATTATTTTTAAAATTTACTATTAAAATAAAATTTAAATATTAAATAATTT
56845933 ATTAAAAATAAATTATATTAATTATATTAATTATATTAATAATTTATTATATGACTAAATATAAA
131 ATTAAAAATAAATTATATTAATTATATTAATTATATTAATAATTTATTATATGACTAAATATAAA
56845998 TAATTAAATACGTATGTTTAATAATATTAAAAAATAGAATATTTTATATTAATATTTTAAATATT
196 TAATTAAATACGTATGTTTAATAATATTAAAAAATAGAATATTTTATATTAATATTTTAAATATT
56846063 TTTAAAAATAAAAATAAAAATTATTATCAATATAATAATATTAAACTTGATTTAAGTTAATTTTT
261 TTTAAAAATAAAAATAAAAATTATTATCAATATAATAATATTAAACTTGATTTAAGTTAATTTTT
56846128 ATATAAAAGTAAAATTATCTATTTAGGAGCTCTTTTTTGGAAAATGACTTACGCTTTTCAAAAGG
326 ATATAAAAGTAAAATTATCTATTTAGGAGCTCTTTTTTGGAAAATGACTTACGCTTTTCAAAAGG
56846193 GTAAGTAATTTTACAAGGAAAAAGGCTTATTTTTCGTTGACCTATAAGTCATTTTCCATTGACCA
391 GTAAGTAATTTTACAAGGAAAAAGGCTTATTTTTCGTTGACCTATAAGTCATTTTCCATTGACCA
56846258 AGCT
456 AGCT
56846262 GTTTTCTGTG
Statistics
Matches: 459, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
459 459 1.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (459 bp):
ACACTTATTATTAATATATTTATAATTGTAATAAATATTTAGTATTAAAATATTAGTATTGAATA
ATATTATTTAAAATTATTATTTTTAAAATTTACTATTAAAATAAAATTTAAATATTAAATAATTT
ATTAAAAATAAATTATATTAATTATATTAATTATATTAATAATTTATTATATGACTAAATATAAA
TAATTAAATACGTATGTTTAATAATATTAAAAAATAGAATATTTTATATTAATATTTTAAATATT
TTTAAAAATAAAAATAAAAATTATTATCAATATAATAATATTAAACTTGATTTAAGTTAATTTTT
ATATAAAAGTAAAATTATCTATTTAGGAGCTCTTTTTTGGAAAATGACTTACGCTTTTCAAAAGG
GTAAGTAATTTTACAAGGAAAAAGGCTTATTTTTCGTTGACCTATAAGTCATTTTCCATTGACCA
AGCT
Found at i:56845929 original size:18 final size:18
Alignment explanation
Indices: 56845891--56845926 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
56845881 TTATTATTTT
*
56845891 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
56845909 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
56845927 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:56845957 original size:9 final size:9
Alignment explanation
Indices: 56845943--56845984 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
56845933 ATTAAAAATA
56845943 AATTATATT
1 AATTATATT
56845952 AATTATATT
1 AATTATATT
56845961 AATTATATT
1 AATTATATT
56845970 AA-TA-ATT
1 AATTATATT
*
56845977 TATTATAT
1 AATTATAT
56845985 GACTAAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 4 0.13
8 4 0.13
9 22 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
AATTATATT
Found at i:56845964 original size:18 final size:16
Alignment explanation
Indices: 56845927--56845984 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
56845917 AAATATTAAA
*
56845927 TAATT-TATTAAAAAT
1 TAATTATATTAATAAT
*
56845942 AAATTATATTAATTATAT
1 TAATTATATTAA-TA-AT
56845960 TAATTATATTAATAAT
1 TAATTATATTAATAAT
*
56845976 TTATTATAT
1 TAATTATAT
56845985 GACTAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 4 0.11
16 16 0.44
17 3 0.08
18 13 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTATATTAATAAT
Found at i:56846390 original size:24 final size:24
Alignment explanation
Indices: 56846363--56846410 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
56846353 TATAATCAAC
*
56846363 CCTTAACAT-TTCACCTTTCATCTT
1 CCTTAAC-TCTTCACATTTCATCTT
*
56846387 CCTTAACTCTTCACATTTTATCTT
1 CCTTAACTCTTCACATTTCATCTT
56846411 ATTGTAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.21, C:0.31, G:0.00, T:0.48
Consensus pattern (24 bp):
CCTTAACTCTTCACATTTCATCTT
Done.