Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 78 of 438
Found at i:20988491 original size:20 final size:20
Alignment explanation
Indices: 20988466--20988525 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
20988456 TTATGATTAC
20988466 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
20988486 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
20988506 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
20988526 CCCACATGAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:20997318 original size:44 final size:45
Alignment explanation
Indices: 20997212--20997345 Score: 117
Period size: 46 Copynumber: 3.0 Consensus size: 45
20997202 ATAGGACAGA
* * *
20997212 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * * *
20997258 ATAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * * *
20997302 ACAGTAATAATTCATGTAGGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
20997346 CAGGATATTG
Statistics
Matches: 70, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
44 33 0.47
45 1 0.01
46 36 0.51
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:20997561 original size:18 final size:18
Alignment explanation
Indices: 20997538--20997595 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
20997528 GTAAAGAAAT
20997538 TTATGATGTTAGATGATA
1 TTATGATGTTAGATGATA
* * *
20997556 TTATGAAG-TA-AAGAAA
1 TTATGATGTTAGATGATA
20997572 TTTATGATGTTAGATGATA
1 -TTATGATGTTAGATGATA
20997591 TTATG
1 TTATG
20997596 CATAATTATC
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
16 4 0.13
17 9 0.29
18 14 0.45
19 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (18 bp):
TTATGATGTTAGATGATA
Found at i:20997578 original size:17 final size:17
Alignment explanation
Indices: 20997516--20997578 Score: 58
Period size: 17 Copynumber: 3.7 Consensus size: 17
20997506 AGAAGAAGAT
*
20997516 AGAAATTGA-GAAGTAA
1 AGAAATTTATGAAGTAA
* *
20997532 AGAAATTTATGATGT-T
1 AGAAATTTATGAAGTAA
*
20997548 AGATGATATTATGAAGTAA
1 AGA-AAT-TTATGAAGTAA
20997567 AGAAATTTATGA
1 AGAAATTTATGA
20997579 TGTTAGATGA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
16 11 0.31
17 12 0.33
18 10 0.28
19 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.32
Consensus pattern (17 bp):
AGAAATTTATGAAGTAA
Found at i:20997612 original size:35 final size:35
Alignment explanation
Indices: 20997525--20997595 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
20997515 TAGAAATTGA
20997525 GAAGTAAAGAAATTTATGATGTTAGATGATATTAT
1 GAAGTAAAGAAATTTATGATGTTAGATGATATTAT
20997560 GAAGTAAAGAAATTTATGATGTTAGATGATATTAT
1 GAAGTAAAGAAATTTATGATGTTAGATGATATTAT
20997595 G
1 G
20997596 CATAATTATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (35 bp):
GAAGTAAAGAAATTTATGATGTTAGATGATATTAT
Found at i:21001419 original size:40 final size:39
Alignment explanation
Indices: 21001312--21001494 Score: 212
Period size: 39 Copynumber: 4.6 Consensus size: 39
21001302 CAGATGATAA
* *
21001312 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA-T
* * * *
21001352 CCGGGCTAA-ACCCGAAGGCAATTGTGCGATTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AT
* *
21001391 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTATTGAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
21001430 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTGTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC--TAAT
21001470 CCGGG-TCAAGTCCCGAAGGCATTTG
1 CCGGGCT-AAGTCCCGAAGGCATTTG
21001495 AGCAAGTAGT
Statistics
Matches: 125, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 65 0.52
40 58 0.46
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:21001445 original size:79 final size:78
Alignment explanation
Indices: 21001308--21001492 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 78
21001298 TATTCAGATG
* *
21001308 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAACCCGAAGGCAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAA-TCCGGGCTAAACCCGAAGGCAA
* *
21001373 TTGTGCGATTTATT
65 TTGTGCGAGTTACT
* * * *
21001387 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTATTGAA-CCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACT-AATCCGGGCTAA-ACCCGAAGGCA
*
21001451 TTTGTGCGAGTTACT
64 ATTGTGCGAGTTACT
*
21001466 GTAACCGGG-TCAAGTCCCGAAGGCATT
1 ATAACCGGGCT-AAGTCCCGAAGGCATT
21001493 TGAGCAAGTA
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 10 0.11
79 80 0.87
80 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATCCGGGCTAAACCCGAAGGCAAT
TGTGCGAGTTACT
Found at i:21001516 original size:79 final size:78
Alignment explanation
Indices: 21001308--21001527 Score: 225
Period size: 79 Copynumber: 2.8 Consensus size: 78
21001298 TATTCAGATG
* * *
21001308 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCCGGGCTAAACCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGC-AGT-AGTTATATCCGGGCTAATCCCGAAGGCA
* *
21001372 ATTGTGCGATTTATT
64 ATTGTGCGAGTTACT
* * *
21001387 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGC-G-AGTTATTGAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGTTA-T-ATCCGGGCTAA-TCCCGAAGGC
*
21001450 ATTTGTGCGAGTTACT
63 AATTGTGCGAGTTACT
* * *
21001466 GTAACCGGG-TCAAGTCCCGAAGGCATTTGAGCAAGTAGTTATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCT-AAGTCCCGAAGGCATTTGTGC-AGTAGTTATATCCGGGCT-AATCCCGAAGG
21001528 TACTTGGGTT
Statistics
Matches: 117, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
75 3 0.03
76 1 0.01
77 1 0.01
78 10 0.09
79 90 0.77
80 5 0.04
81 2 0.02
82 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGTTATATCCGGGCTAATCCCGAAGGCAAT
TGTGCGAGTTACT
Found at i:21004738 original size:40 final size:40
Alignment explanation
Indices: 21004679--21004886 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
21004669 CAATTGAATG
* * * *
21004679 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
21004719 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
21004759 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
21004799 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
21004839 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
21004879 ATATCCGG
1 ATATCCGG
21004887 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:21004817 original size:80 final size:80
Alignment explanation
Indices: 21004681--21004886 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
21004671 ATTGAATGAT
* * ** * * *
21004681 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
21004745 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
21004761 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
21004826 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
21004841 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
21004887 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:21012731 original size:40 final size:40
Alignment explanation
Indices: 21012672--21012879 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
21012662 CAATTGAATG
* * * *
21012672 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
21012712 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
21012752 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
21012792 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
21012832 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
21012872 ATATCCGG
1 ATATCCGG
21012880 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:21012810 original size:80 final size:80
Alignment explanation
Indices: 21012674--21012879 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
21012664 ATTGAATGAT
* * ** * * *
21012674 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
21012738 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
21012754 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
21012819 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
21012834 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
21012880 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:21022398 original size:19 final size:20
Alignment explanation
Indices: 21022374--21022411 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
21022364 GGTACCACCA
21022374 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
21022393 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
21022412 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:21022707 original size:46 final size:46
Alignment explanation
Indices: 21022640--21022805 Score: 167
Period size: 46 Copynumber: 3.6 Consensus size: 46
21022630 CGCCCCTAAG
* *
21022640 TGAACTCGAACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGCATCCATAAA
* * **
21022686 TGAACTCGGACTCAACTCAACGAGTTC-GG-ATGC-CTAGTTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGC-A--TCCAT-AAA
* * * * *
21022733 CGAACTCGGACTCAACTCAATGAGTTCAGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGCATCCATAAA
*
21022779 TGAACTCAGACTCAACTCAACGAGTTC
1 TGAACTCGGACTCAACTCAACGAGTTC
21022806 GGATGCTCAA
Statistics
Matches: 95, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 53 0.56
47 30 0.32
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGCATCCATAAA
Found at i:21022750 original size:93 final size:93
Alignment explanation
Indices: 21022641--21022811 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
21022631 GCCCCTAAGT
* *
21022641 GAACTCGAACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
21022706 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * * *
21022734 GAACTCGGACTCAACTCAATGAGTTCAGACATTTGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
21022799 CGAGTTCGGATGC
66 CGAGTTCGGATGC
21022812 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:21023264 original size:29 final size:29
Alignment explanation
Indices: 21023231--21023286 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
21023221 ATTTAATACG
21023231 AACTTTAAAAAAATTACACTTTTGCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCTA
*** *
21023260 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTAAAAAAATTACACTTTTGCCC
21023287 CTAGGCTCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (29 bp):
AACTTTAAAAAAATTACACTTTTGCCCTA
Found at i:21024248 original size:48 final size:50
Alignment explanation
Indices: 21024183--21024324 Score: 175
Period size: 48 Copynumber: 2.9 Consensus size: 50
21024173 CAGTGTTCTC
* * *
21024183 ATATCGATACCAATGCCATGTCCTAGACATGGTCTTATATGGGATCACAT
1 ATATCAATGCCAATGCCATGTCCCAGACATGGTCTTATATGGGATCACAT
* *
21024233 A-AT-GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA--ACAT
1 ATATCAATGCCAATGCCATGTCCCAGACATGGTCTTATATGGGATCACAT
* * * *
21024279 ATATCAATGCCGATGCCATATCCCAGATATGGTCTTATACGGGATC
1 ATATCAATGCCAATGCCATGTCCCAGACATGGTCTTATATGGGATC
21024325 TCATCAACCC
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
46 5 0.06
47 2 0.03
48 69 0.87
49 2 0.03
50 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (50 bp):
ATATCAATGCCAATGCCATGTCCCAGACATGGTCTTATATGGGATCACAT
Found at i:21026112 original size:41 final size:41
Alignment explanation
Indices: 21026067--21026184 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
21026057 TGAAAGATAA
21026067 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
21026108 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
21026138 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
21026179 ATGTAG
1 ATGTAG
21026185 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:21026123 original size:71 final size:71
Alignment explanation
Indices: 21026035--21026198 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
21026025 GAGATGTATC
21026035 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
21026100 AGGACA
66 AGGACA
21026106 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
21026171 AGGACA
66 AGGACA
21026177 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
21026199 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:21034844 original size:43 final size:42
Alignment explanation
Indices: 21034794--21034933 Score: 149
Period size: 43 Copynumber: 3.3 Consensus size: 42
21034784 TATCCTAGAT
* * *
21034794 ATGGTCTTACATGTTATTATATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACACG-TATTATATAACGATGCCAATGTCCCAGAC
* * *
21034837 AGGGTCTTACACGAAATCGA-ATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACG-TAT-TATATAACGATGCCAATGTCCCAGAC
* *
21034880 ATGGTCTTACACGTATTCTCA-ACACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTATTAT-ATA-ACGATGCCAATGTCCCAGAC
21034923 ATGGTCTTACA
1 ATGGTCTTACA
21034934 TTTAATCACA
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
42 3 0.04
43 77 0.95
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (42 bp):
ATGGTCTTACACGTATTATATAACGATGCCAATGTCCCAGAC
Found at i:21046104 original size:64 final size:64
Alignment explanation
Indices: 21046024--21046195 Score: 197
Period size: 67 Copynumber: 2.7 Consensus size: 64
21046014 AGACATTATG
* *
21046024 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAC-AGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGA-GATAA
* * * *
21046088 ATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
21046153 AA
63 AA
* * *
21046155 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGT
21046196 GTACGAGAGA
Statistics
Matches: 90, Mismatches: 13, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
63 9 0.10
64 26 0.29
66 22 0.24
67 30 0.33
68 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:21046141 original size:67 final size:64
Alignment explanation
Indices: 21046024--21046147 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 64
21046014 AGACATTATG
* * *
21046024 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACAGGATAT
1 ATGTAGCTAGGTCGCATGCGTGATACTATGAGGACACCATGTAGACAAGAGAGCTACAGGATAT
* *
21046088 ATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTAC
1 ATGTAGCTAGGTCGCATGCGTGATACTA--TG-AGGACACCATGTAGACAAGAGAGCTAC
21046148 GAGATAAACT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
64 25 0.48
66 2 0.04
67 25 0.48
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGCGTGATACTATGAGGACACCATGTAGACAAGAGAGCTACAGGATAT
Found at i:21048319 original size:19 final size:19
Alignment explanation
Indices: 21048295--21048339 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
21048285 AAGGGACATA
* *
21048295 GGCGTGTCTCAAGCATACG
1 GGCGTGTCCCAAGCACACG
21048314 GGCGTGTCCCAAGCACACG
1 GGCGTGTCCCAAGCACACG
21048333 GGCGTGT
1 GGCGTGT
21048340 GCATTGCCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.18, C:0.29, G:0.36, T:0.18
Consensus pattern (19 bp):
GGCGTGTCCCAAGCACACG
Found at i:21055620 original size:28 final size:28
Alignment explanation
Indices: 21055555--21055653 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
21055545 CTAGTGAGTC
* *
21055555 CGCACACTTAGTGCTATATATTC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
21055582 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
21055610 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
21055640 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21055654 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
30 19 0.30
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:21063413 original size:28 final size:28
Alignment explanation
Indices: 21063348--21063446 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
21063338 CTAGTGAGTC
* *
21063348 CGCACACTTAGTGCTATATATTC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
21063375 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
21063403 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
21063433 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21063447 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
30 19 0.30
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:21067797 original size:40 final size:39
Alignment explanation
Indices: 21067634--21067815 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
21067624 AAATTGATTG
* *
21067634 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
21067673 ATAACCGGGTTAAGACCCGAAGGCAATTGT-CTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
21067712 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
21067752 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
21067791 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
21067816 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 25, Indels: 13
0.74 0.17 0.09
Matches are distributed among these distances:
36 2 0.02
37 1 0.01
38 2 0.02
39 41 0.37
40 65 0.59
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:21075906 original size:40 final size:39
Alignment explanation
Indices: 21075741--21075924 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
21075731 AAATTGAATG
* * *
21075741 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
21075781 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
21075821 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
21075861 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
21075900 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
21075925 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:21075949 original size:80 final size:81
Alignment explanation
Indices: 21075781--21075969 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
21075771 GCTGGAAATT
* * * *
21075781 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
21075846 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
21075862 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
21075925 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
21075941 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
21075970 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:21085833 original size:42 final size:43
Alignment explanation
Indices: 21085781--21085889 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 43
21085771 ATCTGAGATG
* **
21085781 TCGTTTAAGACCATGTCTGGGACATCGGCATCG-TATCTG-ATT
1 TCGTGTAAGACCATGTCTGGGACAGAGGCATCGATAT-TGAATT
* * *
21085823 TCGTGTAAGACCCTGTCTGGGATAGAGGCATTGATATTGAATT
1 TCGTGTAAGACCATGTCTGGGACAGAGGCATCGATATTGAATT
* *
21085866 ACATGTAAGACCATGTCTGGGACA
1 TCGTGTAAGACCATGTCTGGGACA
21085890 CCGACATTGT
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 29 0.53
43 26 0.47
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGACAGAGGCATCGATATTGAATT
Found at i:21085898 original size:43 final size:42
Alignment explanation
Indices: 21085786--21085900 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 42
21085776 AGATGTCGTT
* * * *
21085786 TAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTCGTG
1 TAAGACCATGTCTGGGACACCGGCATTGTATCTGATTACATG
* * **
21085828 TAAGACCCTGTCTGGGATAGAGGCATTGATAT-TGAATTACATG
1 TAAGACCATGTCTGGGACACCGGCATTG-TATCTG-ATTACATG
*
21085871 TAAGACCATGTCTGGGACACCGACATTGTA
1 TAAGACCATGTCTGGGACACCGGCATTGTA
21085901 CCTGTTTATG
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACACCGGCATTGTATCTGATTACATG
Found at i:21096156 original size:48 final size:48
Alignment explanation
Indices: 21096098--21096285 Score: 272
Period size: 48 Copynumber: 3.9 Consensus size: 48
21096088 TCATACTGAA
**
21096098 GCCATATCCCAGATATGGTCTTACATGTA-ATCTCATATCGATGCCGAT
1 GCCATATCCCAGATATGGTCTTACA-CAAGATCTCATATCGATGCCGAT
* * *
21096146 GTCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATACTGAT
1 GCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCCGAT
* **
21096194 GCCATATCCAAGATATGGTCTTACACAAGATCTCATATC-ATGGTGAT
1 GCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCCGAT
*
21096241 GCCATATCCCAGATATGGTCTTACACAGGATCTCATATCGATGCC
1 GCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCC
21096286 ATGTCCCAGA
Statistics
Matches: 125, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
47 44 0.35
48 81 0.65
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (48 bp):
GCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCCGAT
Found at i:21096306 original size:42 final size:42
Alignment explanation
Indices: 21095969--21096307 Score: 197
Period size: 42 Copynumber: 7.7 Consensus size: 42
21095959 TCGTTTACTT
* * *
21095969 GATGCCATAGT-CCA-ACTATGGTCTTACACA-AAGTCTGACATC
1 GATGCCATA-TCCCAGAC-ATGGTCTTACACAGGA-TCTCATATC
* ** * **
21096011 GATGCCATGTCCCAGACATGGTCTTGTAC-GAAATCAGATATC
1 GATGCCATATCCCAGACATGGTCTTACACAG-GATCTCATATC
** * *
21096053 GATGCCGCATCCCAGACACGGTCTTATAC-GGAATCTCATA-C
1 GATGCCATATCCCAGACATGGTCTTACACAGG-ATCTCATATC
* * * *
21096094 TGAAGCCATATCCCAGATATGGTCTTACA-TGTAATCTCATATC
1 -GATGCCATATCCCAGACATGGTCTTACACAG-GATCTCATATC
* *
21096137 GATGCCGATGTCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATAC
1 GATG-C-----CATATCCCAGACATGGTCTTACACAGGATCTC--AT--AT-C
* * *
21096190 TGATGCCATATCCAAGATATGGTCTTACACAAGATCTCATATC
1 -GATGCCATATCCCAGACATGGTCTTACACAGGATCTCATATC
*
21096233 ATGGTGATGCCATATCCCAGATATGGTCTTACACAGGATCTCATATC
1 -----GATGCCATATCCCAGACATGGTCTTACACAGGATCTCATATC
*
21096280 GATGCCATGTCCCAGACATGGTCTTACA
1 GATGCCATATCCCAGACATGGTCTTACA
21096308 TGTATCACAA
Statistics
Matches: 242, Mismatches: 29, Indels: 52
0.75 0.09 0.16
Matches are distributed among these distances:
41 2 0.01
42 119 0.49
43 7 0.03
44 2 0.01
46 2 0.01
47 41 0.17
48 59 0.24
50 2 0.01
52 2 0.01
53 2 0.01
54 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (42 bp):
GATGCCATATCCCAGACATGGTCTTACACAGGATCTCATATC
Found at i:21096370 original size:37 final size:36
Alignment explanation
Indices: 21096279--21096417 Score: 156
Period size: 37 Copynumber: 3.8 Consensus size: 36
21096269 GATCTCATAT
21096279 CGATGCCAT-GTCCCAGAC-ATGGTCTTACATGTATCA
1 CGATGCCATAG-CCCAG-CTATGGTCTTACATGTATCA
* * **
21096315 CAATGCCATAACATAGCTATGGTCTTACATGTCATCA
1 CGATGCCATAGCCCAGCTATGGTCTTACATGT-ATCA
* * * *
21096352 TGATGCCATAGCCCAGCTATGGTCTTATACGTTATTA
1 CGATGCCATAGCCCAGCTATGGTCTTACATG-TATCA
21096389 CGATGCCATAGCCCAGCTATGGTCTTACA
1 CGATGCCATAGCCCAGCTATGGTCTTACA
21096418 CGTACCACAT
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
35 1 0.01
36 25 0.29
37 58 0.68
38 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (36 bp):
CGATGCCATAGCCCAGCTATGGTCTTACATGTATCA
Found at i:21098926 original size:28 final size:28
Alignment explanation
Indices: 21098894--21098950 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
21098884 ATCTTCGATG
* *
21098894 TCTCGTACACTAAGTGCCATACTCAATA
1 TCTCGCACACCAAGTGCCATACTCAATA
* * *
21098922 TCTCGCACACCAAGTTCCATTCTTAATA
1 TCTCGCACACCAAGTGCCATACTCAATA
21098950 T
1 T
21098951 TTTTCACACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (28 bp):
TCTCGCACACCAAGTGCCATACTCAATA
Found at i:21100327 original size:31 final size:31
Alignment explanation
Indices: 21100292--21100355 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
21100282 CCTTTTCATA
21100292 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
21100323 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
21100354 TT
1 TT
21100356 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:21100601 original size:24 final size:24
Alignment explanation
Indices: 21100562--21100689 Score: 206
Period size: 24 Copynumber: 5.4 Consensus size: 24
21100552 CTGGAGGCCT
*
21100562 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
21100587 AGCCCTTTTATTAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
21100611 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
21100634 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
21100658 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
21100681 AGCCCTTTT
1 AGCCCTTTT
21100690 GCACTTCCTC
Statistics
Matches: 96, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
23 44 0.46
24 48 0.50
25 4 0.04
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:21100624 original size:23 final size:23
Alignment explanation
Indices: 21100569--21100688 Score: 195
Period size: 23 Copynumber: 5.1 Consensus size: 23
21100559 CCTAGCCTCT
*
21100569 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
21100592 TTTTATTAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
21100616 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
21100639 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
21100663 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
21100686 TTT
1 TTT
21100689 TGCACTTCCT
Statistics
Matches: 90, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
23 47 0.52
24 43 0.48
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:21100638 original size:47 final size:47
Alignment explanation
Indices: 21100569--21100690 Score: 219
Period size: 47 Copynumber: 2.6 Consensus size: 47
21100559 CCTAGCCTCT
*
21100569 TTTAATAACTGGGGCAAAAGCCCTTTT-ATTAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGA-TAACTGGGGCATAAGCCC
21100616 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
21100663 TTTAATAACTGGGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTTG
21100691 CACTTCCTCC
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
47 72 0.99
48 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
Found at i:21100784 original size:20 final size:20
Alignment explanation
Indices: 21100735--21100785 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
21100725 GCATTTATGA
* *
21100735 ACATCTCATATGCATATCAT
1 ACATATCATGTGCATATCAT
*
21100755 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
21100775 ACATATCATGT
1 ACATATCATGT
21100786 TTATCAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:21100850 original size:25 final size:25
Alignment explanation
Indices: 21100822--21100869 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
21100812 ATATATAAAC
* *
21100822 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
21100847 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
21100870 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:21102058 original size:27 final size:27
Alignment explanation
Indices: 21102028--21102119 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
21102018 GGGCATATTC
*
21102028 GTCATTTTACCATGCAGGGG-TATTACG
1 GTCATTTTACCATACAGGGGCT-TTACG
*
21102055 GTCATTTTACCTTACAGGGGCTTTACG
1 GTCATTTTACCATACAGGGGCTTTACG
* *
21102082 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAGGGGCTTTACG
*
21102109 GTCTTTTTACC
1 GTCATTTTACC
21102120 TAATAGGGGT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCTTTACG
Found at i:21102203 original size:27 final size:27
Alignment explanation
Indices: 21102173--21102224 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
21102163 ATAAATCTAC
21102173 AAACCAAGGGCATTTC-AGTAATTTTGT
1 AAACCAAGGGCATTTCTA-TAATTTTGT
* *
21102200 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAGGGCATTTCTATAATTTT
21102225 TAGAAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGCATTTCTATAATTTTGT
Found at i:21102293 original size:27 final size:26
Alignment explanation
Indices: 21102263--21102362 Score: 137
Period size: 27 Copynumber: 3.7 Consensus size: 26
21102253 TGTAATTCAG
*
21102263 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAACT-A
* * *
21102290 GGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CTA
21102317 GGGTATTTTGGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAAACTA
21102343 GGGGTATTTTGGTAATTTTA
1 -GGGTATTTTGGTAATTTTA
21102363 GTAAACTAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
26 2 0.03
27 62 0.97
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACTA
Found at i:21102376 original size:27 final size:27
Alignment explanation
Indices: 21102265--21102377 Score: 97
Period size: 27 Copynumber: 4.2 Consensus size: 27
21102255 TAATTCAGGG
* *
21102265 GTATTTTGGTAATTTTACAAA-TTGAGG
1 GTATTTTGGTAATTTTACAAACTAGA-A
* * * *
21102292 GTATTTCGGTAATTTCACAAACCA-AGG
1 GTATTTTGGTAATTTTACAAACTAGA-A
**
21102319 GTATTTTGGTAATTTTACAAACTAGGG
1 GTATTTTGGTAATTTTACAAACTAGAA
*
21102346 GTATTTTGGTAATTTTAGTAAACTA-AA
1 GTATTTTGGTAATTTTA-CAAACTAGAA
21102373 GTATT
1 GTATT
21102378 CTAAACATGG
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 66 0.92
28 6 0.08
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACTAGAA
Found at i:21107698 original size:17 final size:17
Alignment explanation
Indices: 21107676--21107711 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
21107666 ATTGCCGTGC
* *
21107676 AACCAAGAAGAAAAAAA
1 AACCAAAAACAAAAAAA
21107693 AACCAAAAACAAAAAAA
1 AACCAAAAACAAAAAAA
21107710 AA
1 AA
21107712 ATTTGTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.81, C:0.14, G:0.06, T:0.00
Consensus pattern (17 bp):
AACCAAAAACAAAAAAA
Found at i:21109036 original size:40 final size:40
Alignment explanation
Indices: 21108951--21109101 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
21108941 AATTGAATGA
* * *
21108951 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGATA-TAC
* * *
21108991 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAT--ATAC
*
21109032 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGATATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGATATAC
*
21109071 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
21109102 ACGTGATTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
39 5 0.05
40 82 0.90
41 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATATAC
Found at i:21109115 original size:40 final size:40
Alignment explanation
Indices: 21108987--21109117 Score: 158
Period size: 40 Copynumber: 3.3 Consensus size: 40
21108977 TATGCTGGAA
* * *
21108987 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * *
21109027 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TG
*
21109067 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
21109107 ATTATATCCGG
1 ATTATATCCGG
21109118 TTATATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.03
40 72 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:21117651 original size:47 final size:47
Alignment explanation
Indices: 21117536--21117859 Score: 465
Period size: 47 Copynumber: 7.0 Consensus size: 47
21117526 TTAGGATTTT
*** *
21117536 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCC-
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
* *
21117582 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
* * *
21117629 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCTGAATGGCCT
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
* *
21117676 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
*
21117723 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
* *
21117770 ATGTGATGAACGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
21117817 ATGTGGTGAATATGA-AATGCATATATGTGATAAAGCC-AATGGC
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGC
21117860 TAGTGTGAAA
Statistics
Matches: 251, Mismatches: 26, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
45 6 0.02
46 61 0.24
47 184 0.73
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:21117657 original size:25 final size:25
Alignment explanation
Indices: 21117629--21117756 Score: 78
Period size: 25 Copynumber: 5.4 Consensus size: 25
21117619 CGAATGGCCA
21117629 ATGTGATAAATGTGAGCATGCATAT
1 ATGTGATAAATGTGAGCATGCATAT
* *
21117654 ATGTGAT-AAGGCTGA--ATGGC--CT
1 ATGTGATAAATG-TGAGCAT-GCATAT
* *
21117676 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATAAATGTGAGCATGCATAT
* * * *
21117701 ATGTGAT-GA-G-GCCGAATGGC-CA-
1 ATGTGATAAATGTG-AGCAT-GCATAT
21117723 ATGTGATAAATGTGAGCATGCATAT
1 ATGTGATAAATGTGAGCATGCATAT
21117748 ATGTGATAA
1 ATGTGATAA
21117757 GGCCGAATGG
Statistics
Matches: 76, Mismatches: 13, Indels: 28
0.65 0.11 0.24
Matches are distributed among these distances:
22 19 0.25
23 14 0.18
24 15 0.20
25 28 0.37
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (25 bp):
ATGTGATAAATGTGAGCATGCATAT
Found at i:21117825 original size:25 final size:25
Alignment explanation
Indices: 21117750--21117825 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
21117740 ATGCATATAT
21117750 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
21117775 ATGA-ACGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
21117797 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
21117822 GTGA
1 GTGA
21117826 ATATGAAATG
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.22
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:21118094 original size:45 final size:44
Alignment explanation
Indices: 21118030--21118135 Score: 127
Period size: 37 Copynumber: 2.5 Consensus size: 44
21118020 ATTCCCGGTG
*
21118030 AGACCTGATGACTACGTGTGGAGAGGTGGAGATTTTGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGA-GTGGAGATTTTGTCCGGGTA
21118075 AGACCCGATGACTAC--GT-----GTGGAGATTTTGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGAGTGGAGATTTTGTCCGGGTA
* *
21118112 AGACCCGATAACTTCGTGTGGAGA
1 AGACCCGATGACTACGTGTGGAGA
21118136 TTACGTCCGA
Statistics
Matches: 51, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
37 33 0.65
39 2 0.04
43 2 0.04
45 14 0.27
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (44 bp):
AGACCCGATGACTACGTGTGGAGAGTGGAGATTTTGTCCGGGTA
Found at i:21118144 original size:37 final size:37
Alignment explanation
Indices: 21118055--21118137 Score: 148
Period size: 37 Copynumber: 2.2 Consensus size: 37
21118045 GTGTGGAGAG
*
21118055 GTGGAGATTTTGTCCGGGTAAGACCCGATGACTACGT
1 GTGGAGATTTTGTCCGGGTAAGACCCGATAACTACGT
*
21118092 GTGGAGATTTTGTCCGGGTAAGACCCGATAACTTCGT
1 GTGGAGATTTTGTCCGGGTAAGACCCGATAACTACGT
21118129 GTGGAGATT
1 GTGGAGATT
21118138 ACGTCCGAGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.29
Consensus pattern (37 bp):
GTGGAGATTTTGTCCGGGTAAGACCCGATAACTACGT
Found at i:21119845 original size:40 final size:40
Alignment explanation
Indices: 21119415--21119836 Score: 560
Period size: 40 Copynumber: 10.6 Consensus size: 40
21119405 GAGTGAAACG
* * * *
21119415 TCCGGGCTAAATCCTGAAGAACATTTGTGCTAGTGATGTA
1 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATA
*
21119455 TTCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATA
*
21119495 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATA
* * * * *
21119535 TCTGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATG
1 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATA
21119575 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATA
* *
21119615 TCCAGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATA
* *
21119655 TTCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATA
* * * *
21119695 TCCGGACTAAATCCTGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATA
* * * *
21119735 TCCGGACTAAGTTCC-AAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATA
* * *
21119774 TCCGTGCTAAA-CGCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAATC-CCGAAGAGCATTCGTGCTAGTGATATA
* **
21119814 TCTGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAATCCCGAAGAGCA
21119837 ATCATGCTGA
Statistics
Matches: 334, Mismatches: 45, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
39 33 0.10
40 300 0.90
41 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:21123933 original size:47 final size:47
Alignment explanation
Indices: 21123880--21124394 Score: 769
Period size: 47 Copynumber: 11.0 Consensus size: 47
21123870 TTATGATTTT
** * *
21123880 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
21123927 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
21123974 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCTGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
21124021 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
21124068 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCTGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
21124115 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
21124162 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
21124209 ATGTGATGAATGTGAACATGCATATATATGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
21124256 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
21124303 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
21124350 ATGTGGTGAATATGAAAATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
21124395 TAGTGTGAAA
Statistics
Matches: 421, Mismatches: 47, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 421 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:21123987 original size:94 final size:94
Alignment explanation
Indices: 21123901--21124402 Score: 862
Period size: 94 Copynumber: 5.3 Consensus size: 94
21123891 GTGAATGTGT
21123901 ATATATGTGATAAGGCCGAATGGCCTATGTGATGAATGTGAACATGCATATATGTGATGAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCTATGTGATGAATGTGAACATGCATATATGTGATGAGGCCG
21123966 AATGGCCAATGTGATAAATGTGAGCATGC
66 AATGGCCAATGTGATAAATGTGAGCATGC
*
21123995 ATATATGTGATAAGGCTGAATGGCCTATGTGATGAATGTGAACATGCATATATGTGATGAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCTATGTGATGAATGTGAACATGCATATATGTGATGAGGCCG
21124060 AATGGCCAATGTGATAAATGTGAGCATGC
66 AATGGCCAATGTGATAAATGTGAGCATGC
*
21124089 ATATATGTGATAAGGCTGAATGGCCTATGTGATGAATGTGAACATGCATATATGTGATGAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCTATGTGATGAATGTGAACATGCATATATGTGATGAGGCCG
21124154 AATGGCCAATGTGATAAATGTGAGCATGC
66 AATGGCCAATGTGATAAATGTGAGCATGC
*
21124183 ATATATGTGATAAGGCCGAATGGCCTATGTGATGAATGTGAACATGCATATATATGATGAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCTATGTGATGAATGTGAACATGCATATATGTGATGAGGCCG
21124248 AATGGCCAATGTGATAAATGTGAGCATGC
66 AATGGCCAATGTGATAAATGTGAGCATGC
* * * *
21124277 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCTATGTGATGAATGTGAACATGCATATATGTGATGAGGCCG
* * * **
21124342 AATGGCCAATGTGGTGAATATGAAAATGC
66 AATGGCCAATGTGATAAATGTGAGCATGC
* *
21124371 ATATATGTGGTAAAGCCGAATGG-CTAGTGTGA
1 ATATATGTGATAAGGCCGAATGGCCTA-TGTGA
21124403 AATATGTAGG
Statistics
Matches: 391, Mismatches: 16, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
93 2 0.01
94 389 0.99
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (94 bp):
ATATATGTGATAAGGCCGAATGGCCTATGTGATGAATGTGAACATGCATATATGTGATGAGGCCG
AATGGCCAATGTGATAAATGTGAGCATGC
Found at i:21124026 original size:22 final size:22
Alignment explanation
Indices: 21123998--21124121 Score: 67
Period size: 22 Copynumber: 5.4 Consensus size: 22
21123988 AGCATGCATA
21123998 TATGTGATAAGGCTGAATGGCC
1 TATGTGATAAGGCTGAATGGCC
* *
21124020 TATGTGATGAATG-TGAACAT-GCATA
1 TATGTGAT-AAGGCTG-A-ATGGC--C
* *
21124045 TATGTGATGAGGCCGAATGGCC
1 TATGTGATAAGGCTGAATGGCC
* * *
21124067 AATGTGATAAATG-TGAGCAT-GCATA
1 TATGTGAT-AAGGCTGA--ATGGC--C
21124092 TATGTGATAAGGCTGAATGGCC
1 TATGTGATAAGGCTGAATGGCC
21124114 TATGTGAT
1 TATGTGAT
21124122 GAATGTGAAC
Statistics
Matches: 74, Mismatches: 14, Indels: 28
0.64 0.12 0.24
Matches are distributed among these distances:
22 27 0.36
23 14 0.19
24 14 0.19
25 19 0.26
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.29
Consensus pattern (22 bp):
TATGTGATAAGGCTGAATGGCC
Found at i:21124358 original size:25 final size:25
Alignment explanation
Indices: 21124283--21124358 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
21124273 ATGCATATAT
21124283 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
21124308 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
21124330 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
21124355 GTGA
1 GTGA
21124359 ATATGAAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:21124671 original size:37 final size:37
Alignment explanation
Indices: 21124557--21124664 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
21124547 GGAAATATAT
*
21124557 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
21124594 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
21124631 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
21124665 ACGTCCGAGC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:21128153 original size:10 final size:10
Alignment explanation
Indices: 21128138--21128165 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
21128128 ATATTATGGC
21128138 TGAATGTGAT
1 TGAATGTGAT
21128148 TGAATGTGAT
1 TGAATGTGAT
21128158 TGAATGTG
1 TGAATGTG
21128166 GCTATTACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (10 bp):
TGAATGTGAT
Found at i:21142917 original size:42 final size:41
Alignment explanation
Indices: 21142871--21143022 Score: 169
Period size: 42 Copynumber: 3.6 Consensus size: 41
21142861 GAGTTTACGT
* *
21142871 GTAAGACCATATCTGGGATATGGCATCGTTATGAGGTTTCGA
1 GTAAGACCATATCTGGGATATGGCATCGATATGA-GATTCGA
* * * * *
21142913 GTAAGACCATCTCTGGGACATGGCATTGATATGAGAATCGT
1 GTAAGACCATATCTGGGATATGGCATCGATATGAGATTCGA
* * * *
21142954 GTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCCCA
1 GTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTCGA
*
21142996 TGTAAGACTATATCTGGGATATGGCAT
1 -GTAAGACCATATCTGGGATATGGCAT
21143023 TGGTATGATT
Statistics
Matches: 89, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
41 20 0.22
42 52 0.58
43 17 0.19
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (41 bp):
GTAAGACCATATCTGGGATATGGCATCGATATGAGATTCGA
Found at i:21143001 original size:84 final size:83
Alignment explanation
Indices: 21142868--21143030 Score: 211
Period size: 84 Copynumber: 2.0 Consensus size: 83
21142858 TATGAGTTTA
* * * * * *
21142868 CGTGTAAGACCATATCTGGGATATGGCATCGTTATGAGGTTTCGAGTAAGACCATCTCTGGGACA
1 CGTGTAAGACCATAGCTGGGATATGGCATCGATATGAGGATCCCAGTAAGACCATATCTGGGACA
21142933 TGGCATTGATATGAGAAT
66 TGGCATTGATATGAGAAT
* *
21142951 CGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGA-GATCCCATGTAAGACTATATCTGGGA
1 CGTGTAAGACCATAGCTGGGATA-TGGCATCGATATGAGGATCCCA-GTAAGACCATATCTGGGA
* *
21143015 TATGGCATTGGTATGA
64 CATGGCATTGATATGA
21143031 TTCTATGTGT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
83 25 0.37
84 43 0.63
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (83 bp):
CGTGTAAGACCATAGCTGGGATATGGCATCGATATGAGGATCCCAGTAAGACCATATCTGGGACA
TGGCATTGATATGAGAAT
Found at i:21161647 original size:40 final size:40
Alignment explanation
Indices: 21161591--21161837 Score: 251
Period size: 40 Copynumber: 6.2 Consensus size: 40
21161581 CAATTGAATG
* *
21161591 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
21161632 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
21161671 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
*
21161711 ATATCCAGGCTAAGA-CCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
21161750 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
21161790 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
21161830 ATATCCGG
1 ATATCCGG
21161838 TTGTATCCGA
Statistics
Matches: 174, Mismatches: 17, Indels: 31
0.78 0.08 0.14
Matches are distributed among these distances:
38 2 0.01
39 38 0.22
40 128 0.74
41 6 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:21161759 original size:79 final size:80
Alignment explanation
Indices: 21161591--21161837 Score: 383
Period size: 79 Copynumber: 3.1 Consensus size: 80
21161581 CAATTGAATG
* * * *
21161591 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGT-GACTT-TATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG--TTATATCCGGGCTAAGACCCGAAGG
21161654 CATTCGTGCAAGTTGTT
64 CATTCGTGCAAGTTGTT
*
21161671 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCGTTATATCCAGGCTAAGA-CCGAAGGCA
1 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCGTTATATCCGGGCTAAGACCCGAAGGCA
21161735 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTGTT
21161750 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCGTTATATCCGGGCTAAGACCCGAAGGCA
** *
21161815 TTCGTGCGTGTGGTT
66 TTCGTGCAAGTTGTT
21161830 ATATCCGG
1 ATATCCGG
21161838 TTGTATCCGA
Statistics
Matches: 155, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
79 80 0.52
80 74 0.48
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCGTTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTGTT
Found at i:21163741 original size:26 final size:27
Alignment explanation
Indices: 21163661--21163793 Score: 160
Period size: 27 Copynumber: 5.0 Consensus size: 27
21163651 CCCTAATTGA
* * * *
21163661 TAAAATGATTGTTTTACCCTTATCTAG
1 TAAAATGACTGTTTTGCCCTTATGTGG
21163688 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
*
21163715 TAAAATAACTGTTTTG-CCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * *
21163741 TAGAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * *
21163768 TAAGATGACTGTTTTTCCCCTATGTG
1 TAAAATGACTGTTTTGCCCTTATGTG
21163794 ACATATATAT
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 23 0.26
27 67 0.74
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGG
Found at i:21166201 original size:27 final size:27
Alignment explanation
Indices: 21166162--21166338 Score: 192
Period size: 27 Copynumber: 6.5 Consensus size: 27
21166152 CCCTAATTGA
* *
21166162 TAAAATGATTATTTTGCCATTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
21166189 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * * * *
21166216 TAAAATGATTGTATTCCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
21166243 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * * * * *
21166270 TAGAATGACTCTTTTACCCTATTTATGA
1 TAAAATGACTATTTTGCCCT-TATGTGG
* *
21166298 TAAAATGACTATTTTACCCTTATCTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
21166325 TAAGATGACTATTT
1 TAAAATGACTATTT
21166339 ATGTATGATC
Statistics
Matches: 126, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
27 104 0.83
28 22 0.17
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:21168208 original size:21 final size:21
Alignment explanation
Indices: 21168182--21168228 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
21168172 TTTTTTTATT
* *
21168182 TTATTTTCTTTCTT-TCTTTTA
1 TTATTTTCATTATTATC-TTTA
21168203 TTATTTTCATTATTATCTTTA
1 TTATTTTCATTATTATCTTTA
21168224 TTATT
1 TTATT
21168229 ATGTAATCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (21 bp):
TTATTTTCATTATTATCTTTA
Found at i:21175056 original size:34 final size:33
Alignment explanation
Indices: 21174980--21175044 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
21174970 TAAATGCATT
* *
21174980 ACTGTACTGTTACTGTATTGGGCTAAGGCCCAC
1 ACTGTACTGATAATGTATTGGGCTAAGGCCCAC
21175013 ACTGCTACTGATAATGTATTGGGCTAAGGCCC
1 ACTG-TACTGATAATGTATTGGGCTAAGGCCC
21175045 TAACTGTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 4 0.14
34 25 0.86
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (33 bp):
ACTGTACTGATAATGTATTGGGCTAAGGCCCAC
Found at i:21181537 original size:43 final size:43
Alignment explanation
Indices: 21181385--21181549 Score: 172
Period size: 43 Copynumber: 3.8 Consensus size: 43
21181375 TTTCGTTATG
* * * *
21181385 TGATTTCGTGTAAGACCAAGCCTGGGACGTTGGCATCAATTTT
1 TGATTACGTGTAAGACCATGTCTGGGACGTTGGCATCAATATT
* * * * *
21181428 TGTTTTACGTGTAAGACCATGTCTGGGACATCGGCATC-GTATC
1 TG-ATTACGTGTAAGACCATGTCTGGGACGTTGGCATCAATATT
* * *
21181471 TGATTTCGTGTAAGACCTTGTCTGGGACAG-TGGCATCAATGTT
1 TGATTACGTGTAAGACCATGTCTGGGAC-GTTGGCATCAATATT
* *
21181514 TGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGATTACGTGTAAGACCATGTCTGGGACGTTGGCAT
21181550 TGTATATGTT
Statistics
Matches: 97, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
42 30 0.31
43 38 0.39
44 29 0.30
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (43 bp):
TGATTACGTGTAAGACCATGTCTGGGACGTTGGCATCAATATT
Found at i:21187153 original size:40 final size:40
Alignment explanation
Indices: 21187095--21187311 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
21187085 CGGATGGTAA
* *
21187095 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
21187135 CCAGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
21187175 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
21187214 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
21187254 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
21187294 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
21187312 TACTTGGTTT
Statistics
Matches: 168, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
39 56 0.33
40 111 0.66
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:21187247 original size:79 final size:79
Alignment explanation
Indices: 21187095--21187311 Score: 332
Period size: 79 Copynumber: 2.7 Consensus size: 79
21187085 CGGATGGTAA
* *
21187095 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCAGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC-GGCTAAGTCCCGAAGGCATTT
21187159 GTGCAAGTTACTATAT
64 GTGCAAGTTACTATAT
21187175 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC-GGCTAAGTCCCGAAGGCATTTG
*
21187239 TGCGAGTTACTATAT
65 TGCAAGTTACTATAT
* *
21187254 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCCGGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGCTAAGTCCCGAAGG
21187312 TACTTGGTTT
Statistics
Matches: 129, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
79 90 0.70
80 39 0.30
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGCTAAGTCCCGAAGGCATTTGT
GCAAGTTACTATAT
Found at i:21195207 original size:40 final size:40
Alignment explanation
Indices: 21195152--21195369 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
21195142 CGGATGGTAA
* * *
21195152 CCGGGCTAAATCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-T
21195192 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
*
21195232 CCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
*
21195272 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
* * * *
21195312 CCAGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATAT
*
21195352 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
21195370 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 16 0.10
40 148 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
Found at i:21202325 original size:47 final size:47
Alignment explanation
Indices: 21202271--21202401 Score: 194
Period size: 47 Copynumber: 2.8 Consensus size: 47
21202261 CTCAATCGAT
21202271 AAGTACCTATACCATGACCCGTAGCCAAATCAAGGTAACTCATC-CCG
1 AAGTACCTATACCATG-CCCGTAGCCAAATCAAGGTAACTCATCTCCG
* *
21202318 AAGTACCTATACCATTGCCCGTAGCCAAATCAAGGTAACTCCTCTCTG
1 AAGTACCTATACCA-TGCCCGTAGCCAAATCAAGGTAACTCATCTCCG
*
21202366 AA-TACCTATACCATGGCCCGTAGACAAATCAAGGTA
1 AAGTACCTATACCAT-GCCCGTAGCCAAATCAAGGTA
21202402 TTATTTGCAC
Statistics
Matches: 78, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
46 1 0.01
47 71 0.91
48 6 0.08
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.21
Consensus pattern (47 bp):
AAGTACCTATACCATGCCCGTAGCCAAATCAAGGTAACTCATCTCCG
Found at i:21209245 original size:43 final size:43
Alignment explanation
Indices: 21209136--21209241 Score: 155
Period size: 43 Copynumber: 2.5 Consensus size: 43
21209126 TCCCTAACGT
*
21209136 GGTCTTACAT-GTAATCACATATCAATGCCACTGTCCCAGACAA
1 GGTCTTAC-TCGTAATCACATATCGATGCCACTGTCCCAGACAA
*
21209179 GGTCTTACTCGTAATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACTCGTAATCACATATCGATGCCACTGTCCCAGACAA
*
21209222 GGTTTTACTCGT-A-CACATAT
1 GGTCTTACTCGTAATCACATAT
21209242 ATCGGAATCA
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
41 7 0.12
42 2 0.03
43 50 0.85
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (43 bp):
GGTCTTACTCGTAATCACATATCGATGCCACTGTCCCAGACAA
Found at i:21209907 original size:15 final size:15
Alignment explanation
Indices: 21209884--21209914 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21209874 TCAAAAATTC
21209884 CAATACAAAACATAT
1 CAATACAAAACATAT
*
21209899 CAATCCAAAACATAT
1 CAATACAAAACATAT
21209914 C
1 C
21209915 TTTCATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:21210443 original size:14 final size:14
Alignment explanation
Indices: 21210426--21210452 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21210416 AAATCACGAA
21210426 AATTTCACACATAT
1 AATTTCACACATAT
21210440 AATTTCACACATA
1 AATTTCACACATA
21210453 ATAAAAATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTTCACACATAT
Found at i:21210763 original size:48 final size:47
Alignment explanation
Indices: 21210552--21210916 Score: 254
Period size: 48 Copynumber: 7.7 Consensus size: 47
21210542 CTACACAATA
* * * *
21210552 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAT-
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATC-GTG
** * *
21210599 TTGATGCCATGTCCCAGACATGGTCTTACACT-A-ACTATCGAAATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACAC-ATC--TATCG-TG
* * * * * *
21210648 CTGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCA-CATATCCATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATC-TAT-CGTG
*
21210698 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTAT-CGTG
21210746 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC--TCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATCGT-G
* * *
21210792 CCGATG-CATGTCCTAGACAT-GTCTTACACTGTCTTACATC--TCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTATCG-TG
* * * * *
21210838 CTGATG-CATGTCCCAAACAT-GTCTTACACT-AGCTC-TCGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACATC-TATC-GTG
* *
21210884 CCGATTCCATGTCCCAGACATGGTCTTAAACTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTG
21210917 GCTCTCATAA
Statistics
Matches: 257, Mismatches: 38, Indels: 44
0.76 0.11 0.13
Matches are distributed among these distances:
43 2 0.01
44 13 0.05
45 17 0.07
46 55 0.21
47 43 0.17
48 59 0.23
49 31 0.12
50 33 0.13
51 2 0.01
52 1 0.00
53 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATCGTG
Found at i:21210831 original size:46 final size:46
Alignment explanation
Indices: 21210552--21210916 Score: 246
Period size: 46 Copynumber: 7.7 Consensus size: 46
21210542 CTACACAATA
* * * *
21210552 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATC-AAT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACAT-C-TCGTAG
** * **
21210599 TTGATGCCATGTCCCAGACATGGTCTTACACTAACTATCGAAATCG-AGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGAC-A-C-ATCTCGTA-G
* * * * * *
21210648 CTGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATC-CATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-G---ACACATCTCGTA-G
*
21210698 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGT-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC--T-CGTAG
21210746 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAG
* *
21210792 CCGATG-CATGTCCTAGACAT-GTCTTACACTGTCTTACATCTCG-AGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTA-G
* * * * * *
21210838 CTGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTC-AATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTA-G
* *
21210884 CCGATTCCATGTCCCAGACATGGTCTTAAACTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTG
21210917 GCTCTCATAA
Statistics
Matches: 260, Mismatches: 35, Indels: 46
0.76 0.10 0.13
Matches are distributed among these distances:
44 12 0.05
45 17 0.07
46 59 0.23
47 46 0.18
48 55 0.21
49 32 0.12
50 36 0.14
51 1 0.00
52 1 0.00
53 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAG
Found at i:21210935 original size:48 final size:47
Alignment explanation
Indices: 21210552--21210961 Score: 253
Period size: 48 Copynumber: 8.7 Consensus size: 47
21210542 CTACACAATA
21210552 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAT-T-
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-AATGTG
* ** * *
21210600 -TGATGCCATGTCCCAGACATGGTCTTACACTAACTATCGA-AATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATAAT-G-TG
* * * * * *
21210648 CTGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCCATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--GTG
* * *
21210698 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTC-TATACGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATA-ATGTG
* * *
21210746 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC-T--CGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGT-G
* * * *
21210792 CCGATG-CATGTCCTAGACAT-GTCTTACACTGTCT-TACAT-CTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-G-TG
* * * *
21210838 CTGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCAA--TG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--AT-AATGTG
* *
21210884 CCGATTCCATGTCCCAGACATGGTCTTAAACTGGCTCTCATAATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-G
* *
21210932 CCGATG-CATGTCCCAAAAAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
21210962 AGCACACAAA
Statistics
Matches: 291, Mismatches: 44, Indels: 56
0.74 0.11 0.14
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 16 0.05
45 19 0.07
46 56 0.19
47 60 0.21
48 63 0.22
49 35 0.12
50 36 0.12
51 4 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
Found at i:21210941 original size:94 final size:97
Alignment explanation
Indices: 21210552--21210964 Score: 378
Period size: 94 Copynumber: 4.4 Consensus size: 97
21210542 CTACACAATA
* * **
21210552 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCATCCATCAAT-TTGATGCCATGTCCC
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCAT-C-TCAATGCCGATGCCATGTCCC
* *
21210614 AGACATGGTCTTACACTAACTATCGA-AATCGAGG
64 AGACATGGTCTTACACTGACTCTC-ATAATCGAGG
* * * *
21210648 CTGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCCATGCCGATGCCATGTCCC
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCT--CATCTCAATGCCGATGCCATGTCCC
* *
21210713 AGACATGGTCTTACACTGACACCTC-T-ATACG-TG
64 AGACATGGTCTTACACTGAC-TCTCATAAT-CGAGG
* * * * *
21210746 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTC-GTAGCCGATG-CATGTCCTA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATCTCAAT-GCCGATGCCATGTCCCA
* *
21210807 GACAT-GTCTTACACTGTCT-TACAT-CTCGAGG
65 GACATGGTCTTACACTGACTCT-CATAATCGAGG
* * *
21210838 CTGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATTCCATGTCCCAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAG
* * *
21210901 ACATGGTCTTAAACTGGCTCTCATAAT-GTGG
66 ACATGGTCTTACACTGACTCTCATAATCGAGG
*
21210932 CCGATG-CATGTCCCAAAAAT-GTCTTACACTAGC
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGC
21210965 ACACAAATAA
Statistics
Matches: 260, Mismatches: 38, Indels: 40
0.77 0.11 0.12
Matches are distributed among these distances:
90 11 0.04
91 17 0.07
92 32 0.12
93 28 0.11
94 61 0.23
95 2 0.01
96 30 0.12
97 2 0.01
98 38 0.15
99 34 0.13
100 5 0.02
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (97 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGACTCTCATAATCGAGG
Found at i:21219043 original size:14 final size:14
Alignment explanation
Indices: 21219026--21219073 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
21219016 AGGTTATTGT
* *
21219026 TTTAGTGTTTAGGG
1 TTTAGAGTTTAAGG
21219040 TTTAGAGTTTAAGG
1 TTTAGAGTTTAAGG
* *
21219054 TTTAGAATTTAAGA
1 TTTAGAGTTTAAGG
21219068 TTTAGA
1 TTTAGA
21219074 AATTTTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (14 bp):
TTTAGAGTTTAAGG
Found at i:21219303 original size:28 final size:28
Alignment explanation
Indices: 21219272--21219338 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
21219262 CAGTAATTTT
21219272 TGAAAAAATAAATTAGAGAAGACGTATC
1 TGAAAAAATAAATTAGAGAAGACGTATC
21219300 TGAAAAAATAAATTAGAGAAGACGTATC
1 TGAAAAAATAAATTAGAGAAGACGTATC
*
21219328 TAAAAAAATAA
1 TGAAAAAATAA
21219339 TTTTGCGAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.58, C:0.06, G:0.15, T:0.21
Consensus pattern (28 bp):
TGAAAAAATAAATTAGAGAAGACGTATC
Found at i:21219469 original size:126 final size:126
Alignment explanation
Indices: 21219330--21219829 Score: 804
Period size: 126 Copynumber: 4.0 Consensus size: 126
21219320 GACGTATCTA
* * * * *
21219330 AAAAAATAATTTTGCGAAGTTGTTTCTGAACAAAAAGTGTTAAAAATGCTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* * *
21219395 TGTCAGCAAAAGTACTTAAAAAAGCTCCCACGTGGACGCTTGTTTTCTACAGTAATTTCTG
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTTTTTTTCTACAGTAGTTTCTG
* * * *
21219456 AAAAAATATTTTTGAGAAGATGATTCTGAACAAATAGTGTCAAAAATGCTTCAAGAAGGATGCAC
1 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* * *
21219521 TGTTAGCAAAAGTACTGAAAAAAGATCCCACGTGGACGCTTTTTTTCTACAGTAGTTTTTG
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTTTTTTTCTACAGTAGTTTCTG
21219582 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* *
21219647 TATCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGACG-TTCTTTTTCTACAGTAGTTTCTG
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTT-TTTTTCTACAGTAGTTTCTG
*
21219708 ATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* *
21219773 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACATGGACGCTCTTTTTCTACAGTAGTT
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTTTTTTTCTACAGTAGTT
21219830 CCTATTTGGC
Statistics
Matches: 345, Mismatches: 27, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
125 2 0.01
126 342 0.99
127 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (126 bp):
AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTTTTTTTCTACAGTAGTTTCTG
Found at i:21224071 original size:7 final size:7
Alignment explanation
Indices: 21224055--21224108 Score: 90
Period size: 7 Copynumber: 7.7 Consensus size: 7
21224045 TTATATGCAT
*
21224055 AATAATA
1 AATACTA
*
21224062 AATACGA
1 AATACTA
21224069 AATACTA
1 AATACTA
21224076 AATACTA
1 AATACTA
21224083 AATACTA
1 AATACTA
21224090 AATACTA
1 AATACTA
21224097 AATACTA
1 AATACTA
21224104 AATAC
1 AATAC
21224109 GAATCGACTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.59, C:0.13, G:0.02, T:0.26
Consensus pattern (7 bp):
AATACTA
Found at i:21227223 original size:8 final size:8
Alignment explanation
Indices: 21227210--21227247 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
21227200 TAGTTTTTAA
*
21227210 TTTTAATT
1 TTTTAAAT
*
21227218 TTTTAAAA
1 TTTTAAAT
21227226 TTTTAAA-
1 TTTTAAAT
21227233 TTTTAAAT
1 TTTTAAAT
21227241 TTTTAAA
1 TTTTAAA
21227248 AATCAAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTTTAAAT
Found at i:21227229 original size:23 final size:24
Alignment explanation
Indices: 21227193--21227248 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
21227183 AAAAATGAAC
* *
21227193 TTTTAAATAGTTTTTAATTTTAATT
1 TTTTAAA-AGTTTTAAATTTTAAAT
21227218 TTTTAAAA-TTTTAAATTTTAAAT
1 TTTTAAAAGTTTTAAATTTTAAAT
21227241 TTTTAAAA
1 TTTTAAAA
21227249 ATCAAGATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 21 0.72
24 1 0.03
25 7 0.24
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTTAAAAGTTTTAAATTTTAAAT
Found at i:21236053 original size:27 final size:28
Alignment explanation
Indices: 21235995--21236064 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
21235985 AAATTTGTAC
***
21235995 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCAGATTATAT
21236023 AGCACTAAGTGTGCG-AGCAGATTATAT
1 AGCACTAAGTGTGCGAAGCAGATTATAT
21236050 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
21236065 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCAGATTATAT
Found at i:21253767 original size:40 final size:40
Alignment explanation
Indices: 21253722--21253888 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
21253712 CGGAATATAA
21253722 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
21253762 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
21253802 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
21253842 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
21253881 CCGGATAT
1 CCGGATAT
21253889 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:21253872 original size:80 final size:79
Alignment explanation
Indices: 21253722--21253888 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
21253712 CGGAATATAA
* *
21253722 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
21253787 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
21253802 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
21253864 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
21253881 CCGGATAT
1 CCGGATAT
21253889 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:21254740 original size:17 final size:19
Alignment explanation
Indices: 21254717--21254762 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
21254707 AAGAAGCATG
21254717 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
21254735 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
21254753 AATCATGCTC
1 AATCATGCTC
21254763 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:21255543 original size:43 final size:44
Alignment explanation
Indices: 21255482--21255569 Score: 169
Period size: 43 Copynumber: 2.0 Consensus size: 44
21255472 ACAATAAGTA
21255482 CGGAATATAACACTTAATTATTCTTGTGA-TCGGTTTCGTGGTC
1 CGGAATATAACACTTAATTATTCTTGTGACTCGGTTTCGTGGTC
21255525 CGGAATATAACACTTAATTATTCTTGTGACTCGGTTTCGTGGTC
1 CGGAATATAACACTTAATTATTCTTGTGACTCGGTTTCGTGGTC
21255569 C
1 C
21255570 CGAAACCACT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 29 0.66
44 15 0.34
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (44 bp):
CGGAATATAACACTTAATTATTCTTGTGACTCGGTTTCGTGGTC
Found at i:21268704 original size:14 final size:14
Alignment explanation
Indices: 21268685--21268714 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21268675 AAGAGAGAAT
*
21268685 GATGATGGATGAGG
1 GATGATGAATGAGG
21268699 GATGATGAATGAGG
1 GATGATGAATGAGG
21268713 GA
1 GA
21268715 ATGAAGGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.47, T:0.20
Consensus pattern (14 bp):
GATGATGAATGAGG
Found at i:21281384 original size:43 final size:43
Alignment explanation
Indices: 21281272--21281387 Score: 151
Period size: 43 Copynumber: 2.7 Consensus size: 43
21281262 TTCAACTCAA
* * * ** *
21281272 GATTACCCGTCCAGGTTAAATCCTTTATATACTGAAATCAATG
1 GATTACCCGTCCGGGCTAAATCCATTCCATACAGAAATCAATG
* * *
21281315 GATTACCCATCCGGTCTAAATCCATTCCATACAGAGATCAATG
1 GATTACCCGTCCGGGCTAAATCCATTCCATACAGAAATCAATG
21281358 GATTACCCGTCCGGGCTAAATCCATTCCAT
1 GATTACCCGTCCGGGCTAAATCCATTCCAT
21281388 CACATTTACT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (43 bp):
GATTACCCGTCCGGGCTAAATCCATTCCATACAGAAATCAATG
Found at i:21281395 original size:146 final size:144
Alignment explanation
Indices: 21281124--21281427 Score: 344
Period size: 146 Copynumber: 2.1 Consensus size: 144
21281114 CTAGTCAATT
* * * * *
21281124 AAGATTACCCATCCAAGCTAAATCCTTTATATACGGAGATCGATGGATTGCCCCTCCTGGGCTAA
1 AAGATTACCCGTCCAAGCTAAATCCTTTATATACGGAAATCAATGGATTACCCATCCTGGGCTAA
* * * * * *
21281189 ATCCTTTACAATATAAACTAATGGATTACCTGTCCAAGCTAAATTCATTCTATCATATTTACTCG
66 ATCCATTACAATACAAACTAATGGATTACCCGTCCAAGCTAAATCCATTCCATCACATTTACTC-
21281254 AGAGAAAGTTCAACTC
130 A-AGAAAGTTCAACTC
* * * *
21281270 AAGATTACCCGTCCAGGTTAAATCCTTTATATACTGAAATCAATGGATTACCCATCC-GGTCTAA
1 AAGATTACCCGTCCAAGCTAAATCCTTTATATACGGAAATCAATGGATTACCCATCCTGGGCTAA
* **
21281334 ATCCATT-CCATACAGAGA-TCAATGGATTACCCGTCCGGGCTAAATCCATTCCATCACATTTAC
66 ATCCATTACAATACA-A-ACT-AATGGATTACCCGTCCAAGCTAAATCCATTCCATCACATTTAC
* *
21281397 TCAAGAGAGTTTAACTC
128 TCAAGAAAGTTCAACTC
* *
21281414 GAGATTACTCGTCC
1 AAGATTACCCGTCC
21281428 GGGCTGAGTC
Statistics
Matches: 133, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
144 29 0.22
145 15 0.11
146 89 0.67
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (144 bp):
AAGATTACCCGTCCAAGCTAAATCCTTTATATACGGAAATCAATGGATTACCCATCCTGGGCTAA
ATCCATTACAATACAAACTAATGGATTACCCGTCCAAGCTAAATCCATTCCATCACATTTACTCA
AGAAAGTTCAACTC
Found at i:21283609 original size:22 final size:22
Alignment explanation
Indices: 21283584--21283626 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
21283574 AGCCATATAA
21283584 AGCTTCGTACGGTGCCATCTTT
1 AGCTTCGTACGGTGCCATCTTT
*
21283606 AGCTTCGTATGGTGCCATCTT
1 AGCTTCGTACGGTGCCATCTT
21283627 ATACTCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.37
Consensus pattern (22 bp):
AGCTTCGTACGGTGCCATCTTT
Found at i:21285291 original size:19 final size:19
Alignment explanation
Indices: 21285267--21285308 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
21285257 CAGATTCATC
21285267 TCGTGAATAAATCAGAACA
1 TCGTGAATAAATCAGAACA
* *
21285286 TCGTGAATAAATTAGAATA
1 TCGTGAATAAATCAGAACA
21285305 TCGT
1 TCGT
21285309 CAACAACAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.29
Consensus pattern (19 bp):
TCGTGAATAAATCAGAACA
Found at i:21292956 original size:23 final size:23
Alignment explanation
Indices: 21292927--21293050 Score: 83
Period size: 23 Copynumber: 5.4 Consensus size: 23
21292917 CTGATGAACA
*
21292927 GTAAGCTCTATTGAGCTAAAATG
1 GTAAGCTCTATTGAGCTAAAACG
* *
21292950 GTAAGCTCTATTAAGCTGAAACG
1 GTAAGCTCTATTGAGCTAAAACG
* * * *
21292973 TTAAGCT-TTTTCGAGCT-GAACA
1 GTAAGCTCTATT-GAGCTAAAACG
* * *
21292995 GTAAGCTC-ATACGAGCTGAAATG
1 GTAAGCTCTAT-TGAGCTAAAACG
* * *
21293018 GTAAGCTCCAATGAGCTGAAAACA
1 GTAAGCTCTATTGAGCT-AAAACG
21293042 GTAAGCTCT
1 GTAAGCTCT
21293051 TTCGAACAGA
Statistics
Matches: 75, Mismatches: 20, Indels: 11
0.71 0.19 0.10
Matches are distributed among these distances:
22 18 0.24
23 45 0.60
24 12 0.16
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTAAAACG
Found at i:21292998 original size:68 final size:69
Alignment explanation
Indices: 21292921--21293080 Score: 200
Period size: 69 Copynumber: 2.3 Consensus size: 69
21292911 CATAAGCTGA
* * * *
21292921 TGAACAGTAAGCTC-TATTGAGCTAAAATGGTAAGCTCTATTAAGCTG-AAAC-GTTAAGCTTTT
1 TGAACAGTAAGCTCATA-CGAGCTAAAATGGTAAGCTCCAATAAGCTGAAAACAG-TAAGCTCTT
*
21292983 TCGAGC
64 TCGAAC
* *
21292989 TGAACAGTAAGCTCATACGAGCTGAAATGGTAAGCTCCAATGAGCTGAAAACAGTAAGCTCTTTC
1 TGAACAGTAAGCTCATACGAGCTAAAATGGTAAGCTCCAATAAGCTGAAAACAGTAAGCTCTTTC
21293054 GAAC
66 GAAC
* *
21293058 AGAACAATAAGCTCATACGAGCT
1 TGAACAGTAAGCTCATACGAGCT
21293081 GTGGTGAATC
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
68 39 0.49
69 40 0.50
70 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (69 bp):
TGAACAGTAAGCTCATACGAGCTAAAATGGTAAGCTCCAATAAGCTGAAAACAGTAAGCTCTTTC
GAAC
Found at i:21293009 original size:22 final size:22
Alignment explanation
Indices: 21292984--21293081 Score: 83
Period size: 22 Copynumber: 4.3 Consensus size: 22
21292974 TAAGCTTTTT
21292984 CGAGCTGAACAGTAAGCTCATA
1 CGAGCTGAACAGTAAGCTCATA
21293006 CGAGCTGAA-ATGGTAAGCTCCA-A
1 CGAGCTGAACA--GTAAGCT-CATA
* * *
21293029 TGAGCTGAAAACAGTAAGCTCTTT
1 CGAGCTG--AACAGTAAGCTCATA
* * *
21293053 CGAACAGAACAATAAGCTCATA
1 CGAGCTGAACAGTAAGCTCATA
21293075 CGAGCTG
1 CGAGCTG
21293082 TGGTGAATCC
Statistics
Matches: 58, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
21 1 0.02
22 26 0.45
23 15 0.26
24 13 0.22
25 2 0.03
26 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (22 bp):
CGAGCTGAACAGTAAGCTCATA
Found at i:21298973 original size:34 final size:34
Alignment explanation
Indices: 21298930--21298994 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
21298920 TTAAAGCTAG
*
21298930 TTAAAGGTTAAAAACGAAGTTTAGGGAACAATTA
1 TTAAAGGTTAAAAAAGAAGTTTAGGGAACAATTA
21298964 TTAAAGGTTAAAAAAGAAGTTTAGGGAACAA
1 TTAAAGGTTAAAAAAGAAGTTTAGGGAACAA
21298995 AATTGTTGCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.49, C:0.05, G:0.22, T:0.25
Consensus pattern (34 bp):
TTAAAGGTTAAAAAAGAAGTTTAGGGAACAATTA
Found at i:21315727 original size:20 final size:20
Alignment explanation
Indices: 21315699--21315739 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
21315689 GAAGAAAATA
*
21315699 CTTCGATTTGGTCGTAAAGG
1 CTTCAATTTGGTCGTAAAGG
*
21315719 CTTCAATTTGGTTGTAAAGG
1 CTTCAATTTGGTCGTAAAGG
21315739 C
1 C
21315740 AAACTAAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.37
Consensus pattern (20 bp):
CTTCAATTTGGTCGTAAAGG
Found at i:21325022 original size:128 final size:128
Alignment explanation
Indices: 21324794--21325052 Score: 509
Period size: 128 Copynumber: 2.0 Consensus size: 128
21324784 AATATGTTGC
*
21324794 TAATTGTAGGTTTTATCTATGTAATCACTTACCTAAATTGGGTATCAAATGTCGTAATGGTACCC
1 TAATTGTAGGTTTTATCTATGTAATAACTTACCTAAATTGGGTATCAAATGTCGTAATGGTACCC
21324859 CAAGCCAGAAACAAATGGCAAATGTGTGTGGACTTCACGAACATGAATAAATCCTACCCAAAA
66 CAAGCCAGAAACAAATGGCAAATGTGTGTGGACTTCACGAACATGAATAAATCCTACCCAAAA
21324922 TAATTGTAGGTTTTATCTATGTAATAACTTACCTAAATTGGGTATCAAATGTCGTAATGGTACCC
1 TAATTGTAGGTTTTATCTATGTAATAACTTACCTAAATTGGGTATCAAATGTCGTAATGGTACCC
21324987 CAAGCCAGAAACAAATGGCAAATGTGTGTGGACTTCACGAACATGAATAAATCCTACCCAAAA
66 CAAGCCAGAAACAAATGGCAAATGTGTGTGGACTTCACGAACATGAATAAATCCTACCCAAAA
21325050 TAA
1 TAA
21325053 AACATCTTGT
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 130 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (128 bp):
TAATTGTAGGTTTTATCTATGTAATAACTTACCTAAATTGGGTATCAAATGTCGTAATGGTACCC
CAAGCCAGAAACAAATGGCAAATGTGTGTGGACTTCACGAACATGAATAAATCCTACCCAAAA
Found at i:21326832 original size:25 final size:26
Alignment explanation
Indices: 21326777--21326857 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
21326767 TTGACACTAA
*
21326777 GTATGTGATCCGGGAGGTTCATGAAG
1 GTATGTGATCCGAGAGGTTCATGAAG
21326803 GTATGTGATCCGAGAGGTTC-TGAAG
1 GTATGTGATCCGAGAGGTTCATGAAG
*
21326828 GTATGTGACCCGAGAGGTTCATGAAG
1 GTATGTGATCCGAGAGGTTCATGAAG
21326854 GTAT
1 GTAT
21326858 CTGCAGCCAC
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
25 24 0.46
26 28 0.54
ACGTcount: A:0.25, C:0.12, G:0.36, T:0.27
Consensus pattern (26 bp):
GTATGTGATCCGAGAGGTTCATGAAG
Found at i:21328357 original size:40 final size:41
Alignment explanation
Indices: 21328271--21328366 Score: 101
Period size: 40 Copynumber: 2.4 Consensus size: 41
21328261 CAACTATGTT
* * *
21328271 TGGCACTTAGTGTGTGATTCGAAATAGCTTCGGATGTATAA
1 TGGCACTTAGTGTGCGATTAGAAATAGCTTCGGATCTATAA
*
21328312 -AGCACTTAGTGTGCGACTTAG-AATAGCTTC-GA-CTATAA
1 TGGCACTTAGTGTGCGA-TTAGAAATAGCTTCGGATCTATAA
*
21328350 GTGGCACTAAGTGTGCG
1 -TGGCACTTAGTGTGCG
21328367 GTACCAAGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
38 5 0.11
39 2 0.04
40 36 0.78
41 3 0.07
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (41 bp):
TGGCACTTAGTGTGCGATTAGAAATAGCTTCGGATCTATAA
Found at i:21329750 original size:41 final size:43
Alignment explanation
Indices: 21329699--21329822 Score: 119
Period size: 44 Copynumber: 2.9 Consensus size: 43
21329689 GTGCGAATTG
**
21329699 AAATAACTTCGGTTTTATGTG-T-CACTAAGTGTGCGATACCA
1 AAATAACTTCGGTTCAATGTGATGCACTAAGTGTGCGATACCA
* * *
21329740 AAATAGCTTCGGTTCAATGTGATGGCACTAAGTGTGCGATATCG
1 AAATAACTTCGGTTCAATGTGAT-GCACTAAGTGTGCGATACCA
** * *
21329784 TTATAGCTTCGGTTACACAT-TTATGCACTAAGTGTGCGA
1 AAATAACTTCGGTT-CA-ATGTGATGCACTAAGTGTGCGA
21329823 GTTATTAAAG
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
41 18 0.26
42 1 0.01
44 44 0.63
45 5 0.07
46 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (43 bp):
AAATAACTTCGGTTCAATGTGATGCACTAAGTGTGCGATACCA
Found at i:21329790 original size:44 final size:44
Alignment explanation
Indices: 21329721--21329822 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 44
21329711 TTTTATGTGT
21329721 CACTAAGTGTGCGATACCAAAATAGCTTCGGTT-CA-ATGTGATGG
1 CACTAAGTGTGCGATACCAAAATAGCTTCGGTTACACAT-TGAT-G
* *** *
21329765 CACTAAGTGTGCGATATCGTTATAGCTTCGGTTACACATTTATG
1 CACTAAGTGTGCGATACCAAAATAGCTTCGGTTACACATTGATG
21329809 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
21329823 GTTATTAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
44 44 0.86
45 5 0.10
46 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (44 bp):
CACTAAGTGTGCGATACCAAAATAGCTTCGGTTACACATTGATG
Found at i:21333932 original size:22 final size:22
Alignment explanation
Indices: 21333891--21333949 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
21333881 ATTTTAATAA
* *
21333891 TTGTTTTAGTA-TCATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
21333912 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
21333934 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
21333950 AATTTATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.48
22 10 0.30
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.68
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:21333948 original size:20 final size:22
Alignment explanation
Indices: 21333904--21333949 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
21333894 TTTTAGTATC
* *
21333904 ATTTTTATTTGTTTTAATATTT
1 ATTTTTATGTGTTTTAATATAT
21333926 ATTTTTATGT-TTTTAA-ATAT
1 ATTTTTATGTGTTTTAATATAT
21333946 ATTT
1 ATTT
21333950 AATTTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 6 0.27
22 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (22 bp):
ATTTTTATGTGTTTTAATATAT
Found at i:21333966 original size:26 final size:24
Alignment explanation
Indices: 21333920--21333979 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
21333910 ATTTGTTTTA
*
21333920 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
21333944 ATATTTAATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
21333970 TTTTTTATTT
1 ATATTTATTT
21333980 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:21333979 original size:25 final size:26
Alignment explanation
Indices: 21333923--21333980 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
21333913 TGTTTTAATA
*
21333923 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTTAAATATAT
* *
21333948 TTAATTTATTATATTTTTAAAT-TTT
1 TTTATTTATTATATTTTTAAATATAT
21333973 TTTATTTA
1 TTTATTTA
21333981 ATGAAATAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 15 0.54
26 13 0.46
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (26 bp):
TTTATTTATTATATTTTTAAATATAT
Found at i:21335962 original size:31 final size:31
Alignment explanation
Indices: 21335924--21335987 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
21335914 CCTTTTCACA
*
21335924 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
**
21335955 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
21335986 TT
1 TT
21335988 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:21336070 original size:42 final size:42
Alignment explanation
Indices: 21336011--21336102 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
21336001 TGGCCCATAG
**
21336011 GCCCATTTCAATATCACAT-ATAATGTCAATGAAAGAATGCAA
1 GCCCATTTCAATATCACATGA-AATACCAATGAAAGAATGCAA
* *
21336053 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
*
21336095 ACCCATTT
1 GCCCATTT
21336103 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
Found at i:21336274 original size:23 final size:23
Alignment explanation
Indices: 21336244--21336385 Score: 214
Period size: 23 Copynumber: 6.1 Consensus size: 23
21336234 CCTTGCCTCT
*
21336244 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
21336267 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
21336290 TTTTGATCACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
21336314 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
21336338 TTTAATAACT-GGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
21336360 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
21336383 TTT
1 TTT
21336386 TGCACTTCCT
Statistics
Matches: 110, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
22 22 0.20
23 45 0.41
24 43 0.39
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:21336310 original size:24 final size:24
Alignment explanation
Indices: 21336242--21336386 Score: 217
Period size: 24 Copynumber: 6.2 Consensus size: 24
21336232 GGCCTTGCCT
*
21336242 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
21336266 C-TTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
21336289 CTTTTGATCACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
21336313 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
21336337 C-TTTAATAACT-GGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
21336359 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
21336382 CTTTT
1 CTTTT
21336387 GCACTTCCTC
Statistics
Matches: 111, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
22 22 0.20
23 42 0.38
24 47 0.42
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:21336458 original size:9 final size:9
Alignment explanation
Indices: 21336444--21336500 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
21336434 ATCTAATGTG
21336444 CATATCATA
1 CATATCATA
*
21336453 CATATCATGTG
1 CATATCA--TA
21336464 CATATCATA
1 CATATCATA
* *
21336473 CATGTCATGTG
1 CATATCA--TA
21336484 CATATCATA
1 CATATCATA
21336493 CATATCAT
1 CATATCAT
21336501 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:21336462 original size:20 final size:20
Alignment explanation
Indices: 21336439--21336502 Score: 119
Period size: 20 Copynumber: 3.2 Consensus size: 20
21336429 TGAACATCTA
21336439 ATGTGCATATCATACATATC
1 ATGTGCATATCATACATATC
*
21336459 ATGTGCATATCATACATGTC
1 ATGTGCATATCATACATATC
21336479 ATGTGCATATCATACATATC
1 ATGTGCATATCATACATATC
21336499 ATGT
1 ATGT
21336503 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATGTGCATATCATACATATC
Found at i:21336469 original size:11 final size:11
Alignment explanation
Indices: 21336439--21336491 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
21336429 TGAACATCTA
21336439 ATGTGCATATC
1 ATGTGCATATC
*
21336450 A--TACATATC
1 ATGTGCATATC
21336459 ATGTGCATATC
1 ATGTGCATATC
* *
21336470 A--TACATGTC
1 ATGTGCATATC
21336479 ATGTGCATATC
1 ATGTGCATATC
21336490 AT
1 AT
21336492 ACATATCATG
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.47
11 17 0.53
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (11 bp):
ATGTGCATATC
Found at i:21336578 original size:25 final size:24
Alignment explanation
Indices: 21336539--21336586 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
21336529 ATATATAAAC
* *
21336539 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAATGGTCA-TTTTA
21336564 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
21336587 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (24 bp):
CCTAGGGGCAAAATGGTCATTTTA
Found at i:21337882 original size:27 final size:27
Alignment explanation
Indices: 21337850--21338067 Score: 184
Period size: 27 Copynumber: 8.0 Consensus size: 27
21337840 TGGTAAATCA
* *
21337850 ACAAACCAAAGGTATTTCAGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
** * **
21337877 GTAAACCAATGGTATTTCTATAATTTTT
1 ACAAACCAAGGGTATTTCGGTAA-TTTT
* * * *
21337905 AGAAAGTCAAGGGTATTTCTGTAACTTT
1 ACAAA-CCAAGGGTATTTCGGTAATTTT
** * * *
21337933 GTAAATCAGGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
*** *
21337960 ACAAATTGAGGGTATTTCGGTAATTTC
1 ACAAACCAAGGGTATTTCGGTAATTTT
* *
21337987 ACAAACCAACGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
* *
21338014 ACAAACTAAGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
**
21338041 ACAAACCAAGGGTATTTTAGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
21338068 GTAAATCGAG
Statistics
Matches: 155, Mismatches: 34, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
27 127 0.82
28 13 0.08
29 15 0.10
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (27 bp):
ACAAACCAAGGGTATTTCGGTAATTTT
Found at i:21338001 original size:54 final size:54
Alignment explanation
Indices: 21337943--21338081 Score: 197
Period size: 54 Copynumber: 2.6 Consensus size: 54
21337933 GTAAATCAGG
21337943 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAC
1 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAC
* * * * *
21337997 GGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACCAAG
1 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAC
* ** *
21338051 GGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGTATTTTGGTAATTTTACAAATTGAGGGTA
21338082 AAACAGTAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 74 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAC
Found at i:21338089 original size:27 final size:27
Alignment explanation
Indices: 21338059--21338139 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
21338049 AGGGTATTTT
* *
21338059 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTATGTAAGTCGAGGGTAAAAC
*
21338086 AGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTATGTAAGTCGAGGGTAAAAC
*
21338113 -GATAATTATGTAAGCCGAGGGTAAAAC
1 AG-TAATTATGTAAGTCGAGGGTAAAAC
21338140 GGGGGTAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 1 0.02
27 48 0.98
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.26
Consensus pattern (27 bp):
AGTAATTATGTAAGTCGAGGGTAAAAC
Done.