Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 63 of 276
Found at i:19569600 original size:20 final size:20
Alignment explanation
Indices: 19569577--19569626 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
19569567 TTAAATTCTA
19569577 AAAGATAAATACAA-ATAATT
1 AAAGATAAATA-AAGATAATT
*
19569597 AAAGATAATTAAAGATAATT
1 AAAGATAAATAAAGATAATT
*
19569617 AAAGTTAAAT
1 AAAGATAAAT
19569627 GAAAATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:19569604 original size:10 final size:10
Alignment explanation
Indices: 19569577--19569620 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
19569567 TTAAATTCTA
*
19569577 AAAGATAAAT
1 AAAGATAATT
19569587 ACAA-ATAATT
1 A-AAGATAATT
19569597 AAAGATAATT
1 AAAGATAATT
19569607 AAAGATAATT
1 AAAGATAATT
19569617 AAAG
1 AAAG
19569621 TTAAATGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 2 0.06
10 27 0.87
11 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (10 bp):
AAAGATAATT
Found at i:19569634 original size:20 final size:19
Alignment explanation
Indices: 19569589--19569634 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
19569579 AGATAAATAC
*
19569589 AAATAATTAAAGATAATTA
1 AAATAATTAAAGATAATGA
*
19569608 AAGATAATTAAAGTTAAATGA
1 AA-ATAATTAAAGAT-AATGA
19569629 AAATAA
1 AAATAA
19569635 ATCCTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 15 0.65
21 6 0.26
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (19 bp):
AAATAATTAAAGATAATGA
Found at i:19588903 original size:6 final size:6
Alignment explanation
Indices: 19588894--19588923 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
19588884 AAAAAATTAT
19588894 AATAAA AATAAA AATAAA AATAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA
19588924 TAATTAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:19588908 original size:18 final size:18
Alignment explanation
Indices: 19588885--19588929 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
19588875 AAAAAACTAA
*
19588885 AAAAATTATAATAAAAAT
1 AAAAATTAAAATAAAAAT
*
19588903 AAAAATAAAAATAAAAAT
1 AAAAATTAAAATAAAAAT
19588921 AAATAATTA
1 AAA-AATTA
19588930 GTTTTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAATTAAAATAAAAAT
Found at i:19592350 original size:11 final size:10
Alignment explanation
Indices: 19592315--19592353 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
19592305 ATCTAATTCT
19592315 AAAAATTATAA
1 AAAAATT-TAA
*
19592326 AAATATTTAA
1 AAAAATTTAA
19592336 AAAAATTTAA
1 AAAAATTTAA
*
19592346 GAAAATTT
1 AAAAATTT
19592354 TTATATATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 19 0.76
11 6 0.24
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:19593290 original size:20 final size:20
Alignment explanation
Indices: 19593255--19593292 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19593245 GCTGACAAAA
**
19593255 CAGTCACTCAGGTTTCAATT
1 CAGTCACTCAACTTTCAATT
19593275 CAGTCACTCAACTTTCAA
1 CAGTCACTCAACTTTCAA
19593293 AAAATAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (20 bp):
CAGTCACTCAACTTTCAATT
Found at i:19600457 original size:10 final size:10
Alignment explanation
Indices: 19600438--19600469 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
19600428 TTTTAGTATT
19600438 TTAT-TTTAA
1 TTATCTTTAA
19600447 TTATCTTTAA
1 TTATCTTTAA
19600457 TTATCTTTAA
1 TTATCTTTAA
19600467 TTA
1 TTA
19600470 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:19604938 original size:81 final size:80
Alignment explanation
Indices: 19604801--19604995 Score: 309
Period size: 81 Copynumber: 2.4 Consensus size: 80
19604791 TTATTCGGAT
*
19604801 GATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
*
19604866 CATTTGCGCTAGTGAC
65 CATTTGCGCGAGTGAC
19604882 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
* * *
19604947 TATTTGTGCGAGTTAC
65 CATTTGCGCGAGTGAC
* *
19604963 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GATATCCGGGCTAAGACCCGAAGGCATTTGTGC
19604996 GATTTGCTAT
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 7 0.07
81 99 0.93
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
GATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
ATTTGCGCGAGTGAC
Found at i:19605008 original size:40 final size:40
Alignment explanation
Indices: 19604802--19604995 Score: 298
Period size: 40 Copynumber: 4.8 Consensus size: 40
19604792 TATTCGGATG
*
19604802 ATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* * *
19604843 ATATCCGGGTTAAGTCCCGAAGGCATTTGCGCTAGTGACG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
19604883 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* * *
19604924 ATATCCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
19604964 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
19604996 GATTTGCTAT
Statistics
Matches: 139, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
40 80 0.58
41 59 0.42
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:19610198 original size:9 final size:8
Alignment explanation
Indices: 19610184--19610229 Score: 56
Period size: 9 Copynumber: 5.2 Consensus size: 8
19610174 ATTTTAAATT
19610184 TTATTTCTA
1 TTATTT-TA
19610193 TTATTTCTA
1 TTATTT-TA
19610202 TTATTATTA
1 TTATT-TTA
19610211 TTATTATTA
1 TTATT-TTA
19610220 TTATTTTA
1 TTATTTTA
19610228 TT
1 TT
19610230 TCTTATTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
8 5 0.14
9 30 0.83
10 1 0.03
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (8 bp):
TTATTTTA
Found at i:19610206 original size:3 final size:3
Alignment explanation
Indices: 19610191--19610229 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
19610181 ATTTTATTTC
19610191 TAT TAT T-T CTAT TAT TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
19610230 TCTTATTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 3 0.09
3 29 0.88
4 1 0.03
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:19610459 original size:21 final size:22
Alignment explanation
Indices: 19610433--19610476 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
19610423 GCCCTAGACT
*
19610433 AGCCTTA-ACCTACAGCCAAAC
1 AGCCTTACACATACAGCCAAAC
*
19610454 AGCCTTACACATGCAGCCAAAC
1 AGCCTTACACATACAGCCAAAC
19610476 A
1 A
19610477 CCACTTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.39, C:0.36, G:0.11, T:0.14
Consensus pattern (22 bp):
AGCCTTACACATACAGCCAAAC
Found at i:19613096 original size:98 final size:98
Alignment explanation
Indices: 19612915--19613101 Score: 218
Period size: 98 Copynumber: 1.9 Consensus size: 98
19612905 TTAAGAACGC
* * * *
19612915 GTTGGGCTGAGTAACCGGGGTATGGTGTTTGGCTGTCATCACTCTTCGCGTAAAAAAGGTTCGAC
1 GTTGGGCTGAGTAACCGGGGTATGGTGCTTGGCTATCATCACTCTTCGCATAAAAAAGGTTCAAC
* * *
19612980 ATGTTCTTAGGAAGAATAA-AAAATAAAAAGTAT
66 A-GTACATAGGAAAAATAATAAAATAAAAAGTAT
* * *
19613013 GTTGGGCTGAGTAACCGGGGTTTGGTGCTTGGCTATCATCACTCTTTGCAT-CAAAAGGTTCAAC
1 GTTGGGCTGAGTAACCGGGGTATGGTGCTTGGCTATCATCACTCTTCGCATAAAAAAGGTTCAAC
*
19613077 A-TACATACGTACATAAATAATAAAA
66 AGTACATA-GGA-A-AAATAATAAAA
19613102 AAATAAAAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
95 4 0.05
96 2 0.03
97 13 0.18
98 51 0.69
99 4 0.05
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (98 bp):
GTTGGGCTGAGTAACCGGGGTATGGTGCTTGGCTATCATCACTCTTCGCATAAAAAAGGTTCAAC
AGTACATAGGAAAAATAATAAAATAAAAAGTAT
Found at i:19614456 original size:21 final size:21
Alignment explanation
Indices: 19614430--19614477 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
19614420 GAACCCAAGG
19614430 TGGAATGAGACAACTGGAGGC
1 TGGAATGAGACAACTGGAGGC
19614451 TGGAATGAGACAACTGGAGGC
1 TGGAATGAGACAACTGGAGGC
19614472 TGGAAT
1 TGGAAT
19614478 CTACCAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.12, G:0.38, T:0.17
Consensus pattern (21 bp):
TGGAATGAGACAACTGGAGGC
Found at i:19627543 original size:12 final size:12
Alignment explanation
Indices: 19627526--19627555 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19627516 TAATGGTGCC
19627526 TTGTGTAAATGT
1 TTGTGTAAATGT
19627538 TTGTGTAAATGT
1 TTGTGTAAATGT
*
19627550 GTGTGT
1 TTGTGT
19627556 TAGAAAGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (12 bp):
TTGTGTAAATGT
Found at i:19632677 original size:31 final size:30
Alignment explanation
Indices: 19632641--19632700 Score: 102
Period size: 31 Copynumber: 2.0 Consensus size: 30
19632631 AAACTCTAAT
19632641 GAAAGAGAGTCATACTCTGCTTGGCTAAGA
1 GAAAGAGAGTCATACTCTGCTTGGCTAAGA
*
19632671 GNAAAGAGTGTCATACTCTGCTTGGCTAAG
1 G-AAAGAGAGTCATACTCTGCTTGGCTAAG
19632701 GGTAAAACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.25
Consensus pattern (30 bp):
GAAAGAGAGTCATACTCTGCTTGGCTAAGA
Found at i:19644116 original size:22 final size:23
Alignment explanation
Indices: 19644075--19644118 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
19644065 GAAGAAAAAC
19644075 TCTTTGATTAGTTGTAAAATTTT
1 TCTTTGATTAGTTGTAAAATTTT
19644098 TCTTTGA-T-GTTAGTAAAATTT
1 TCTTTGATTAGTT-GTAAAATTT
19644119 GGTTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 3 0.15
22 10 0.50
23 7 0.35
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.55
Consensus pattern (23 bp):
TCTTTGATTAGTTGTAAAATTTT
Found at i:19650034 original size:16 final size:16
Alignment explanation
Indices: 19650004--19650046 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
19649994 CATAAATATC
*
19650004 GAATGAGAT-TAACTT
1 GAATGATATGTAACTT
19650019 GAATGATATGTAACTT
1 GAATGATATGTAACTT
19650035 GAATGATATGTA
1 GAATGATATGTA
19650047 TACATAAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.35
Consensus pattern (16 bp):
GAATGATATGTAACTT
Found at i:19650371 original size:22 final size:22
Alignment explanation
Indices: 19650340--19650383 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19650330 AATTATTAAC
*
19650340 ATAATGAATTTTAAATAATTTT
1 ATAATAAATTTTAAATAATTTT
* *
19650362 ATAATAAATTTTGATTAATTTT
1 ATAATAAATTTTAAATAATTTT
19650384 GATCATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
ATAATAAATTTTAAATAATTTT
Found at i:19651358 original size:22 final size:22
Alignment explanation
Indices: 19651330--19651371 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
19651320 CGGTAAGATG
19651330 TTTGATTAAGTAAAACCATGGC
1 TTTGATTAAGTAAAACCATGGC
*
19651352 TTTGATTAGGTAAAACCATG
1 TTTGATTAAGTAAAACCATG
19651372 AATAAGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (22 bp):
TTTGATTAAGTAAAACCATGGC
Found at i:19656252 original size:13 final size:13
Alignment explanation
Indices: 19656234--19656263 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19656224 TTCCTGTAAA
19656234 CATTTCATACAAC
1 CATTTCATACAAC
*
19656247 CATTTCATATAAC
1 CATTTCATACAAC
19656260 CATT
1 CATT
19656264 CCATCTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (13 bp):
CATTTCATACAAC
Found at i:19656459 original size:47 final size:47
Alignment explanation
Indices: 19656357--19656523 Score: 230
Period size: 46 Copynumber: 3.6 Consensus size: 47
19656347 TGATGTCATA
* * *
19656357 GTATCTTTCAACTATGGTTTTACTCGTTTT-CTGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATG
* ** *
19656403 GTATCTTTCAACCATGGTCTTATTCATTTTCCCATCATGTTGCCAAG
1 GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATG
* *
19656450 GTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATG
*
19656496 GTATCTTTCAACCATGGTCTTACACATT
1 GTATCTTTCAACCATGGTCTTACTCATT
19656524 CTATATCAGA
Statistics
Matches: 105, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
46 66 0.63
47 39 0.37
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (47 bp):
GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATG
Found at i:19670038 original size:21 final size:20
Alignment explanation
Indices: 19669990--19670030 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
19669980 ACTCAATCCT
*
19669990 CCCTTCCTAGTGTTTGTTTA
1 CCCTTTCTAGTGTTTGTTTA
19670010 CCCTTTCTAGTGTTTGTTTA
1 CCCTTTCTAGTGTTTGTTTA
19670030 C
1 C
19670031 TTCTTTCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.24, G:0.15, T:0.51
Consensus pattern (20 bp):
CCCTTTCTAGTGTTTGTTTA
Found at i:19673160 original size:16 final size:16
Alignment explanation
Indices: 19673141--19673172 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
19673131 GACTATTGAG
19673141 TGCTTCATTTATTGTC
1 TGCTTCATTTATTGTC
19673157 TGCTTCATTTATTGTC
1 TGCTTCATTTATTGTC
19673173 CTTAAACACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.19, G:0.12, T:0.56
Consensus pattern (16 bp):
TGCTTCATTTATTGTC
Found at i:19676815 original size:125 final size:126
Alignment explanation
Indices: 19676652--19676882 Score: 294
Period size: 127 Copynumber: 1.8 Consensus size: 126
19676642 TAGAATAAAT
*
19676652 GTTTTTAATTTAATAAAAAATGATAATTATTAATATATATTTATATC-CATTATAA-TATATATT
1 GTTTTTAA-TTAATAAAAAATGATAATTATTAATATATAATTATATCTC-TTATAATTATATATT
* * *
19676715 -AATTATTATCAGCTTTA-TATAGAGTTAGGATTAGTATTAATTTAATCATATTTTATTTGATAA
64 AAATT-TTATCA-ATTTAGCATAGAATTAGGATTAGTATTAATTTAATCATATTTTATTTGATAA
* *
19676778 GTTTTTAA-TAATAATAAGATGATAATCT-TTAGTATATAATTATATCTCTTATAATTTATATAT
1 GTTTTTAATTAATAA-AAAATGATAAT-TATTAATATATAATTATATCTCTTATAA-TTATATAT
*
19676841 TAAATTTTATCAATTTAGCATAGAATTAGGATTAGTTTTAAT
63 TAAATTTTATCAATTTAGCATAGAATTAGGATTAGTATTAAT
19676883 AATATTTTAT
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
124 6 0.07
125 32 0.35
126 14 0.15
127 35 0.38
128 4 0.04
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (126 bp):
GTTTTTAATTAATAAAAAATGATAATTATTAATATATAATTATATCTCTTATAATTATATATTAA
ATTTTATCAATTTAGCATAGAATTAGGATTAGTATTAATTTAATCATATTTTATTTGATAA
Found at i:19676922 original size:17 final size:18
Alignment explanation
Indices: 19676900--19676936 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
19676890 TATTTTTGTT
19676900 TTAATAAATTAATA-GCA
1 TTAATAAATTAATATGCA
19676917 TTAATAAATTAATATGCA
1 TTAATAAATTAATATGCA
19676935 TT
1 TT
19676937 TATTTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (18 bp):
TTAATAAATTAATATGCA
Found at i:19677524 original size:18 final size:17
Alignment explanation
Indices: 19677494--19677529 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
19677484 TTTTTTTCTC
19677494 TATTAAATTTTTAATTT
1 TATTAAATTTTTAATTT
*
19677511 TATTCAATTATTTAATTT
1 TATTAAATT-TTTAATTT
19677529 T
1 T
19677530 TCAGTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTAAATTTTTAATTT
Found at i:19677527 original size:25 final size:25
Alignment explanation
Indices: 19677494--19677557 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
19677484 TTTTTTTCTC
* *
19677494 TATTAAATTTTTAATTTTATTCAAT
1 TATTTAATTTTTAAGTTTATTCAAT
* *
19677519 TATTTAATTTTTCAGTTTATTGAAT
1 TATTTAATTTTTAAGTTTATTCAAT
19677544 TATTAATAATTTTT
1 TATT--TAATTTTT
19677558 GTGAATTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 25 0.76
27 8 0.24
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (25 bp):
TATTTAATTTTTAAGTTTATTCAAT
Found at i:19680335 original size:16 final size:17
Alignment explanation
Indices: 19680304--19680336 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19680294 TTCATAAGTA
19680304 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
19680321 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
19680337 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:19680682 original size:46 final size:46
Alignment explanation
Indices: 19680632--19681814 Score: 2210
Period size: 46 Copynumber: 25.7 Consensus size: 46
19680622 TGCCATAGCG
* * * *
19680632 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCA-TTTCATATCACGTTGCCATGGTA
19680678 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
* * *
19680724 TCTTTCAACCATGGCCTTATTCATTTCCCT-TCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTT-CATATCACGTTGCCATGGTA
19680770 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
* * *
19680816 TCTTTCAACCATGGCCTTATTCATTTCCCT-TCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTT-CATATCACGTTGCCATGGTA
19680862 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
19680908 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
19680954 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
19681000 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
19681046 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
19681092 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
19681138 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
19681184 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
19681230 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
19681276 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
19681322 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
19681368 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
19681414 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
19681460 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
19681506 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
19681552 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
19681598 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
19681644 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
19681690 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
19681736 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
**
19681782 TCTTTCAACCATGGTCTTACACATTTCATATCA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCA
19681815 GAGAGCACAC
Statistics
Matches: 1114, Mismatches: 18, Indels: 10
0.98 0.02 0.01
Matches are distributed among these distances:
45 8 0.01
46 1102 0.99
47 4 0.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
Found at i:19684021 original size:30 final size:30
Alignment explanation
Indices: 19683954--19684021 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
19683944 CACCCTTAAA
* *
19683954 ATATTTGCACTATTAGTCCTTCAAATTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
* *
19683984 ATATTTACACT-TTAATCCTTCCAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
19684013 AGTATTTAC
1 A-TATTTAC
19684022 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:19685733 original size:99 final size:96
Alignment explanation
Indices: 19685542--19685733 Score: 228
Period size: 99 Copynumber: 2.0 Consensus size: 96
19685532 TCATCCTTTC
* * * * *
19685542 TTTTTTGCATTTTATAAAAAATGGTTAAATATCATTTTTTTATCTTTGTATTATATCTAAAATCA
1 TTTTTTGCATTTTATAAAAAATGATCAAATATCATTTTTGTACCTTTGTATTATATCCAAAATCA
*
19685607 AGATTTAATCTTTATACTTGAACTTTTATCA
66 AGATTTAATCTCTATACTTGAACTTTTATCA
19685638 TTTTTTGCATTTTATAGAAAAATGATCAAATATCATTTTTGGT-CCTTT-TACTACTATATCCAA
1 TTTTTTGCATTTTATA-AAAAATGATCAAATATCATTTTT-GTACCTTTGTA-T--TATATCCAA
* * *
19685701 AATTAAGATCTT-ATCTCTATATTTGAATTTTTA
61 AATCAAGAT-TTAATCTCTATACTTGAACTTTTA
19685734 CAACAATTTG
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
96 18 0.22
97 26 0.32
98 1 0.01
99 34 0.42
100 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (96 bp):
TTTTTTGCATTTTATAAAAAATGATCAAATATCATTTTTGTACCTTTGTATTATATCCAAAATCA
AGATTTAATCTCTATACTTGAACTTTTATCA
Found at i:19687020 original size:12 final size:13
Alignment explanation
Indices: 19687004--19687041 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
19686994 AAGTAATGCA
19687004 AGGTATAATATAT
1 AGGTATAATATAT
*
19687017 -GGTAAAATATAT
1 AGGTATAATATAT
19687029 AGTGTATAATATA
1 AG-GTATAATATA
19687042 ATTTGTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 11 0.52
13 1 0.05
14 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (13 bp):
AGGTATAATATAT
Found at i:19687098 original size:21 final size:19
Alignment explanation
Indices: 19687052--19687109 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 19
19687042 ATTTGTAAAC
*
19687052 AAAATATATAATAATATGA
1 AAAATATATAATAATATAA
**
19687071 ATCATATGATAAGTAATATAA
1 AAAATAT-ATAA-TAATATAA
19687092 AAAATATAATAA-AATATA
1 AAAATAT-ATAATAATATA
19687110 TATAATGTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
19 11 0.35
20 4 0.13
21 16 0.52
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (19 bp):
AAAATATATAATAATATAA
Found at i:19687276 original size:19 final size:19
Alignment explanation
Indices: 19687252--19687297 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
19687242 CCCTTTTTAA
19687252 AAATAAAAATTACACAATT
1 AAATAAAAATTACACAATT
* *
19687271 AAATAATAA-TACATAATT
1 AAATAAAAATTACACAATT
*
19687289 TAA-AAAAAT
1 AAATAAAAAT
19687298 AAAAATAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 4 0.18
18 10 0.45
19 8 0.36
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (19 bp):
AAATAAAAATTACACAATT
Found at i:19687280 original size:3 final size:3
Alignment explanation
Indices: 19687272--19687410 Score: 53
Period size: 3 Copynumber: 46.3 Consensus size: 3
19687262 TACACAATTA
* * *
19687272 AAT AAT AAT ACAT AAT -TT AA- AAA AAT AAA AAT AAT ATAT AAT AA-
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * *
19687316 AAT ATAT AAT AA- AAT -AT AATT TAT AAGT AA- AAT -AG AAT AAT AAA
1 AAT A-AT AAT AAT AAT AAT AA-T AAT AA-T AAT AAT AAT AAT AAT AAT
* * *
19687360 AAT AAT -AT GAT GGAT AAT AA- AAT AAT ATAT AACT AAT AAA AAT AAAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT A-AT AA-T AAT AAT AAT -AAT
19687407 AAT A
1 AAT A
19687411 TTTAAGGTAT
Statistics
Matches: 104, Mismatches: 14, Indels: 36
0.68 0.09 0.23
Matches are distributed among these distances:
2 16 0.15
3 62 0.60
4 26 0.25
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:19687298 original size:23 final size:21
Alignment explanation
Indices: 19687271--19687334 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
19687261 TTACACAATT
*
19687271 AAATAATAATACATAATTTAAAA
1 AAATAATAATA-AT-ATATAAAA
* *
19687294 AAATAAAAATAATATATAATA
1 AAATAATAATAATATATAAAA
*
19687315 AAATATATAATAAAATATAA
1 AAATA-ATAATAATATATAA
19687335 TTTATAAGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 11 0.31
22 14 0.40
23 10 0.29
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATAATAATAATATATAAAA
Found at i:19687321 original size:12 final size:12
Alignment explanation
Indices: 19687304--19687333 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
19687294 AAATAAAAAT
19687304 AATATATAATAA
1 AATATATAATAA
19687316 AATATATAATAA
1 AATATATAATAA
19687328 AATATA
1 AATATA
19687334 ATTTATAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AATATATAATAA
Found at i:19687358 original size:17 final size:16
Alignment explanation
Indices: 19687293--19687410 Score: 60
Period size: 17 Copynumber: 6.9 Consensus size: 16
19687283 ATAATTTAAA
19687293 AAAATAAAAATAAT-AT
1 AAAAT-AAAATAATAAT
*
19687309 ATAATAAAATATATAAT
1 AAAATAAAATA-ATAAT
* *
19687326 AAAATATAATTTATAAGT
1 AAAATA-AAATAATAA-T
* *
19687344 AAAATAGAATAATAAA
1 AAAATAAAATAATAAT
** *
19687360 AATAATATGATGGATAAT
1 AA-AATAAAAT-AATAAT
19687378 AAAATAATATATAACTAAT
1 AAAATAA-A-ATAA-TAAT
19687397 AAAA-ATAAATAATA
1 AAAATA-AAATAATA
19687411 TTTAAGGTAT
Statistics
Matches: 77, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
15 6 0.08
16 10 0.13
17 31 0.40
18 19 0.25
19 11 0.14
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (16 bp):
AAAATAAAATAATAAT
Found at i:19687401 original size:20 final size:21
Alignment explanation
Indices: 19687350--19687404 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
19687340 AAGTAAAATA
19687350 GAATAATAAAAATAATATGAT
1 GAATAATAAAAATAATATGAT
*
19687371 GGATAAT-AAAATAATAT-AT
1 GAATAATAAAAATAATATGAT
19687390 -AACTAATAAAAATAA
1 GAA-TAATAAAAATAA
19687405 ATAATATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.03
19 6 0.20
20 17 0.57
21 6 0.20
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (21 bp):
GAATAATAAAAATAATATGAT
Found at i:19689134 original size:60 final size:60
Alignment explanation
Indices: 19689036--19689157 Score: 208
Period size: 60 Copynumber: 2.0 Consensus size: 60
19689026 AAAAATTACG
*
19689036 TATACAGTCCTAAATACAAGTTTACAGGTCCCTAAAAATGATTTAAGAACTAATAGAGGC
1 TATACAGTCCTAAATACAAGTTTACAGGTCCCTAAAAATGATTTAAGAAATAATAGAGGC
* * *
19689096 TATATAGTCCTAAATACGAGTTTACAGGTCCTTAAAAATGATTTAAGAAATAATAGAGGC
1 TATACAGTCCTAAATACAAGTTTACAGGTCCCTAAAAATGATTTAAGAAATAATAGAGGC
19689156 TA
1 TA
19689158 ATTTGAAATA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.29
Consensus pattern (60 bp):
TATACAGTCCTAAATACAAGTTTACAGGTCCCTAAAAATGATTTAAGAAATAATAGAGGC
Found at i:19695277 original size:17 final size:19
Alignment explanation
Indices: 19695241--19695277 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
19695231 AGGAATGGAG
19695241 GAGAGGAGACCAACGTGAAA
1 GAGAGGAGA-CAACGTGAAA
19695261 GAGAGGAGA-AA-GTGAAA
1 GAGAGGAGACAACGTGAAA
19695278 AAAACTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
20 9 0.53
ACGTcount: A:0.49, C:0.08, G:0.38, T:0.05
Consensus pattern (19 bp):
GAGAGGAGACAACGTGAAA
Found at i:19698745 original size:11 final size:10
Alignment explanation
Indices: 19698710--19698748 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
19698700 ATCTAATTCT
19698710 AAAAATTATAA
1 AAAAATT-TAA
*
19698721 AAATATTTAA
1 AAAAATTTAA
19698731 AAAAATTTAA
1 AAAAATTTAA
*
19698741 GAAAATTT
1 AAAAATTT
19698749 TTATATATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 19 0.76
11 6 0.24
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:19699685 original size:20 final size:20
Alignment explanation
Indices: 19699650--19699687 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19699640 GCTGACAAAA
**
19699650 CAGTCACTCAGGTTTCAATT
1 CAGTCACTCAACTTTCAATT
19699670 CAGTCACTCAACTTTCAA
1 CAGTCACTCAACTTTCAA
19699688 AAAATAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (20 bp):
CAGTCACTCAACTTTCAATT
Found at i:19707384 original size:30 final size:31
Alignment explanation
Indices: 19707335--19707398 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
19707325 CTTAAAAGAG
*
19707335 ATAAACTATATATAGATTTAAAAGAAAATAT
1 ATAAACTATAAATAGATTTAAAAGAAAATAT
*
19707366 ATAAAC-ATAAATTGATTTAAAAGAAAATAT
1 ATAAACTATAAATAGATTTAAAAGAAAATAT
19707396 ATA
1 ATA
19707399 CATAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.81
31 6 0.19
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.31
Consensus pattern (31 bp):
ATAAACTATAAATAGATTTAAAAGAAAATAT
Found at i:19707404 original size:28 final size:29
Alignment explanation
Indices: 19707349--19707404 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
19707339 ACTATATATA
19707349 GATTTAAAAGAAAATATATAAACATAAATT
1 GATTTAAAAGAAAATATAT-AACATAAATT
19707379 GATTTAAAAGAAAATATAT-ACATAAA
1 GATTTAAAAGAAAATATATAACATAAA
19707405 ATAATACGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 7 0.27
30 19 0.73
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.29
Consensus pattern (29 bp):
GATTTAAAAGAAAATATATAACATAAATT
Found at i:19711625 original size:24 final size:25
Alignment explanation
Indices: 19711598--19711645 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
19711588 ATTTATATAA
19711598 TAAAACAAAA-AAATTAAAAAAAAC
1 TAAAACAAAAGAAATTAAAAAAAAC
19711622 TAAAACAAAATGAAATTAAAAAAA
1 TAAAACAAAA-GAAATTAAAAAAA
19711646 TAGTTCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 10 0.45
26 12 0.55
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.15
Consensus pattern (25 bp):
TAAAACAAAAGAAATTAAAAAAAAC
Found at i:19725260 original size:48 final size:46
Alignment explanation
Indices: 19725189--19725279 Score: 155
Period size: 48 Copynumber: 1.9 Consensus size: 46
19725179 ACCCTATAAT
19725189 CAACTATAATTCAAAAGTCATGCATTCGCACTTCATTTTCATAAAGTG
1 CAACTATAATTCAAAAGTCATGCA--CGCACTTCATTTTCATAAAGTG
*
19725237 CAACTATAATTCAAAAGTCATGCACTCACTTCATTTTCATAAA
1 CAACTATAATTCAAAAGTCATGCACGCACTTCATTTTCATAAA
19725280 ATGGCATCCA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
46 18 0.43
48 24 0.57
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (46 bp):
CAACTATAATTCAAAAGTCATGCACGCACTTCATTTTCATAAAGTG
Found at i:19729488 original size:16 final size:17
Alignment explanation
Indices: 19729457--19729490 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
19729447 TATTTGTTTG
19729457 ATTATAAAAAAACTTCT
1 ATTATAAAAAAACTTCT
*
19729474 ATTAT-AAACAACTTCT
1 ATTATAAAAAAACTTCT
19729490 A
1 A
19729491 CCAAATAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTATAAAAAAACTTCT
Found at i:19730328 original size:16 final size:16
Alignment explanation
Indices: 19730307--19730339 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19730297 TTCCAACATC
*
19730307 CATGTGACACCTCCTA
1 CATGTGACACCCCCTA
19730323 CATGTGACACCCCCTA
1 CATGTGACACCCCCTA
19730339 C
1 C
19730340 TCGTATCCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.42, G:0.12, T:0.21
Consensus pattern (16 bp):
CATGTGACACCCCCTA
Found at i:19731322 original size:31 final size:31
Alignment explanation
Indices: 19731287--19731356 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
19731277 CTTGTCACTT
* *
19731287 GTAGCTGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTGATCAA
* * *
19731318 GTAGCCGGAGCTACCATTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTATTCACTGATCAA
19731349 GTAGCCGA
1 GTAGCCGA
19731357 TGATCAGGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTGATCAA
Found at i:19731362 original size:15 final size:15
Alignment explanation
Indices: 19731342--19731371 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19731332 CATTTTTCAC
19731342 TGATCAAGTAGCCGA
1 TGATCAAGTAGCCGA
*
19731357 TGATCAGGTAGCCGA
1 TGATCAAGTAGCCGA
19731372 AGCTACCGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (15 bp):
TGATCAAGTAGCCGA
Found at i:19731378 original size:46 final size:46
Alignment explanation
Indices: 19731311--19731402 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
19731301 CACTATTCAC
* *
19731311 TGATCAGGTAGCCGGAGCTACCATTTTTCACTGATCAAGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTGATCAAGTAGCCGA
* *
19731357 TGATCAGGTAGCCGAAGCTACCGCTTTTCACTGATCAGGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTGATCAAGTAGCCGA
19731403 AGCTACCACT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (46 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCACTGATCAAGTAGCCGA
Found at i:19731395 original size:31 final size:31
Alignment explanation
Indices: 19731357--19731415 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
19731347 AAGTAGCCGA
*
19731357 TGATCAGGTAGCCGAAGCTACCGCTTTTCAC
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAC
19731388 TGATCAGGTAGCCGAAGCTACCACTTTT
1 TGATCAGGTAGCCGAAGCTACCACTTTT
19731416 TACTTGTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (31 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCAC
Found at i:19731569 original size:50 final size:50
Alignment explanation
Indices: 19731395--19731571 Score: 255
Period size: 50 Copynumber: 3.5 Consensus size: 50
19731385 CACTGATCAG
* * *
19731395 GTAGCCGAAGCTACCACTTTTTACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
19731446 GTAGCCAAAGCTATCACTTATCATTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * * *
19731496 GTAGTCGAAGCTATCACTTATCACTTTCACTTATCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
19731546 GTAGCTGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
19731572 GTTGTCATGG
Statistics
Matches: 113, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 92 0.81
51 21 0.19
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:19734039 original size:26 final size:26
Alignment explanation
Indices: 19734011--19734059 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
19734001 AACAACAAAA
* *
19734011 AAAATCTATTCTAAAAA-GAAAAGGG
1 AAAACCTAATCTAAAAATGAAAAGGG
19734036 AAAACCTAATCTAAAAATGAAAAG
1 AAAACCTAATCTAAAAATGAAAAG
19734060 AAAAGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.18
Consensus pattern (26 bp):
AAAACCTAATCTAAAAATGAAAAGGG
Found at i:19737095 original size:33 final size:33
Alignment explanation
Indices: 19737022--19737099 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
19737012 ATAGGTATAC
* *
19737022 GTGTAAGACCATAGCTAGGCTATAGCATCCTGA
1 GTGTAAGACCATAACTAGGCTATAGCATACTGA
* *
19737055 -TGATAAGACCATAACTGGGTTATAGCATTAC-GA
1 GTG-TAAGACCATAACTAGGCTATAGCA-TACTGA
19737088 GTGTAAGACCAT
1 GTGTAAGACCAT
19737100 GTCAGTACCA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
32 2 0.05
33 32 0.84
34 4 0.11
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (33 bp):
GTGTAAGACCATAACTAGGCTATAGCATACTGA
Found at i:19741882 original size:21 final size:22
Alignment explanation
Indices: 19741857--19741901 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
19741847 GCACCAGTCG
19741857 AGTTAAAAGAATTA-AAGACAC
1 AGTTAAAAGAATTACAAGACAC
* *
19741878 AGTTATAAGAATTACTAGACAC
1 AGTTAAAAGAATTACAAGACAC
19741900 AG
1 AG
19741902 GGTTTATCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.22
Consensus pattern (22 bp):
AGTTAAAAGAATTACAAGACAC
Found at i:19750427 original size:20 final size:20
Alignment explanation
Indices: 19750404--19750461 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 20
19750394 AATTTTAAAA
19750404 TTTTATCAAAATTTATAAGG
1 TTTTATCAAAATTTATAAGG
19750424 TTTTATCAAAATATT-TAAGG
1 TTTTATCAAAAT-TTATAAGG
*
19750444 ATTTATCTAAGAATTTAT
1 TTTTATC-AA-AATTTAT
19750462 CAAAATATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 23 0.70
21 6 0.18
22 4 0.12
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (20 bp):
TTTTATCAAAATTTATAAGG
Found at i:19750662 original size:20 final size:20
Alignment explanation
Indices: 19750613--19750668 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
19750603 AATTTATAAG
*
19750613 AATTCCTAAAGTTATACCAA
1 AATTTCTAAAGTTATACCAA
19750633 AATATT-TAAAGATT-TACCAA
1 AAT-TTCTAAAG-TTATACCAA
*
19750653 AATTTCTAAAATTATA
1 AATTTCTAAAGTTATA
19750669 TTAAAATATC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
19 4 0.13
20 23 0.77
21 3 0.10
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.36
Consensus pattern (20 bp):
AATTTCTAAAGTTATACCAA
Found at i:19750829 original size:20 final size:20
Alignment explanation
Indices: 19750806--19750918 Score: 84
Period size: 20 Copynumber: 5.7 Consensus size: 20
19750796 TGGTGAACCT
*
19750806 TTAGAAATATTGTTAAATCC
1 TTAGAAATATTGATAAATCC
* * **
19750826 TTAGAAATTTTAATAAAGGC
1 TTAGAAATATTGATAAATCC
*
19750846 TTAAAAATATTGATAAA-CAC
1 TTAGAAATATTGATAAATC-C
** * *
19750866 TTAGAAATACAGGTAAATCT
1 TTAGAAATATTGATAAATCC
* * * *
19750886 TTAGATATTTTGGTAAATCT
1 TTAGAAATATTGATAAATCC
19750906 TTAGAAATATTGA
1 TTAGAAATATTGA
19750919 ATTTTGGTAA
Statistics
Matches: 70, Mismatches: 21, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
20 69 0.99
21 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.37
Consensus pattern (20 bp):
TTAGAAATATTGATAAATCC
Found at i:19751120 original size:20 final size:20
Alignment explanation
Indices: 19751054--19751120 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
19751044 AAACTCTTGA
*
19751054 AAATTTTGGTAAATACTTAG
1 AAATTTTGGTAAATCCTTAG
* *
19751074 ATATTTTGGTATAA-CCTTAT
1 AAATTTTGGTA-AATCCTTAG
* *
19751094 AATTTTTGCTAAATCCTTAG
1 AAATTTTGGTAAATCCTTAG
19751114 AAATTTT
1 AAATTTT
19751121 AGTATGCTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.05
20 33 0.89
21 2 0.05
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (20 bp):
AAATTTTGGTAAATCCTTAG
Found at i:19751211 original size:20 final size:20
Alignment explanation
Indices: 19751196--19751239 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
19751186 ATCCTTAAAT
*
19751196 ATTTTTATATAACCTTAGAA
1 ATTTTGATATAACCTTAGAA
*
19751216 ATTTTGGTATAACCTTAG-A
1 ATTTTGATATAACCTTAGAA
19751235 ATTTT
1 ATTTT
19751240 ATTTTACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.48
Consensus pattern (20 bp):
ATTTTGATATAACCTTAGAA
Found at i:19751328 original size:20 final size:20
Alignment explanation
Indices: 19751303--19751367 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
19751293 TCGAGAAGAA
*
19751303 ATTTTATAAAATCCTTATAT
1 ATTTTATAAAATCCTTAAAT
* *
19751323 ATTTTA-ATATAGCCTTAGAA-
1 ATTTTATA-AAATCCTTA-AAT
19751343 ATTTTGAT-AAATCCTTAAAT
1 ATTTT-ATAAAATCCTTAAAT
19751363 ATTTT
1 ATTTT
19751368 GATAGAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
19 3 0.09
20 30 0.86
21 2 0.06
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (20 bp):
ATTTTATAAAATCCTTAAAT
Found at i:19751368 original size:20 final size:20
Alignment explanation
Indices: 19751311--19751371 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
19751301 AAATTTTATA
* *
19751311 AAATCCTTATATATTTTAAT
1 AAATCCTTAAATATTTTGAT
* *
19751331 ATAGCCTTAGAA-ATTTTGAT
1 AAATCCTTA-AATATTTTGAT
19751351 AAATCCTTAAATATTTTGAT
1 AAATCCTTAAATATTTTGAT
19751371 A
1 A
19751372 GAATATTATA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 2 0.06
20 30 0.91
21 1 0.03
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (20 bp):
AAATCCTTAAATATTTTGAT
Found at i:19751385 original size:40 final size:40
Alignment explanation
Indices: 19751299--19751394 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
19751289 TTGATCGAGA
* * * *
19751299 AGAAATTTT-ATAAAATCCTTATATATTTTAATATAGCCTT
1 AGAAATTTTGAT-AAATCCTTAAATATTTTAATAGAACATT
* *
19751339 AGAAATTTTGATAAATCCTTAAATATTTTGATAGAATATT
1 AGAAATTTTGATAAATCCTTAAATATTTTAATAGAACATT
* *
19751379 ATAAATTTTGAAAAAT
1 AGAAATTTTGATAAAT
19751395 GCTTTGATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 45 0.96
41 2 0.04
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (40 bp):
AGAAATTTTGATAAATCCTTAAATATTTTAATAGAACATT
Found at i:19751386 original size:20 final size:19
Alignment explanation
Indices: 19751341--19751394 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
19751331 ATAGCCTTAG
*
19751341 AAATTTTGATAAATCCTTA
1 AAATTTTGATAAATCATTA
19751360 AATATTTTGATAGAAT-ATTA
1 AA-ATTTTGATA-AATCATTA
*
19751380 TAAATTTTGAAAAAT
1 -AAATTTTGATAAAT
19751395 GCTTTGATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 5 0.17
20 20 0.67
21 5 0.17
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (19 bp):
AAATTTTGATAAATCATTA
Found at i:19753555 original size:18 final size:18
Alignment explanation
Indices: 19753516--19753556 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
19753506 AACATATTCT
* *
19753516 CATATTCAGAATCAGATG
1 CATATTCAGAATCAAATA
*
19753534 CATATTCAGATTCAAATA
1 CATATTCAGAATCAAATA
19753552 CATAT
1 CATAT
19753557 ACAGTCACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (18 bp):
CATATTCAGAATCAAATA
Found at i:19755363 original size:12 final size:12
Alignment explanation
Indices: 19755346--19755373 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
19755336 ACCAAAACAG
19755346 GTTTTTAGCGGC
1 GTTTTTAGCGGC
19755358 GTTTTTAGCGGC
1 GTTTTTAGCGGC
19755370 GTTT
1 GTTT
19755374 GAATGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.32, T:0.46
Consensus pattern (12 bp):
GTTTTTAGCGGC
Found at i:19755425 original size:39 final size:40
Alignment explanation
Indices: 19755379--19755470 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 40
19755369 CGTTTGAATG
* *
19755379 AAAAACGCCACTAAAGAACTAGCATTAGCAGTGCTT-CTA
1 AAAAACGCCACTAAAGAACGAGCATTAGCAGCGCTTACTA
* * *
19755418 AAAAACGCCGCTAAAGATCGAGCATTAGCAGCGCTTATTA
1 AAAAACGCCACTAAAGAACGAGCATTAGCAGCGCTTACTA
19755458 AAAAACGCCACTA
1 AAAAACGCCACTA
19755471 TAGGTTCATC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 32 0.70
40 14 0.30
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.18
Consensus pattern (40 bp):
AAAAACGCCACTAAAGAACGAGCATTAGCAGCGCTTACTA
Found at i:19755524 original size:40 final size:40
Alignment explanation
Indices: 19755417--19755549 Score: 135
Period size: 40 Copynumber: 3.3 Consensus size: 40
19755407 CAGTGCTTCT
* * *
19755417 AAAAAACGCCGCTAAAGATCGAGCATTAGCAGCGCTTATT-
1 AAAAAACGCCGCTAAAGATCGACCTTTAGCGGCGCTT-TTC
* * * *
19755457 AAAAAACGCCACTATAGGTTC-ATCTTTAGCGGCGCTTTTC
1 AAAAAACGCCGCTA-AAGATCGACCTTTAGCGGCGCTTTTC
* * *
19755497 AAAAAACGCCGCTAATGCTCGACCTTTAGCGGCGCTTTAC
1 AAAAAACGCCGCTAAAGATCGACCTTTAGCGGCGCTTTTC
19755537 AAAAAAACGCCGC
1 -AAAAAACGCCGC
19755550 AAAAAATTTA
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
39 6 0.08
40 56 0.72
41 16 0.21
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAGATCGACCTTTAGCGGCGCTTTTC
Found at i:19755673 original size:40 final size:40
Alignment explanation
Indices: 19755588--19755693 Score: 112
Period size: 40 Copynumber: 2.6 Consensus size: 40
19755578 CCTTTAGTGG
19755588 CTTTAGCGGCGC-TTTTTAAAAACGCCGCTAAAGATCAAGT
1 CTTTAGCGG-GCTTTTTTAAAAACGCCGCTAAAGATCAAGT
* * * *
19755628 -ATTAGCGGTGCTTTTTTAAAAACGCCGCTAATGTTCGA-T
1 CTTTAGCGG-GCTTTTTTAAAAACGCCGCTAAAGATCAAGT
19755667 CTTTAGC-GGCATTTTTTGAAAAACGCC
1 CTTTAGCGGGC-TTTTTT-AAAAACGCC
19755694 AAAAAAATTA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
38 2 0.04
39 17 0.30
40 37 0.66
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (40 bp):
CTTTAGCGGGCTTTTTTAAAAACGCCGCTAAAGATCAAGT
Found at i:19755924 original size:22 final size:22
Alignment explanation
Indices: 19755899--19755944 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
19755889 GAGTTATTAT
* *
19755899 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAAGGG
* *
19755921 TTTAGGGATTATGGTTTAAGGG
1 TTTAAGGATTATGGATTAAGGG
19755943 TT
1 TT
19755945 GTGGTTTAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.46
Consensus pattern (22 bp):
TTTAAGGATTATGGATTAAGGG
Found at i:19755938 original size:14 final size:14
Alignment explanation
Indices: 19755904--19755952 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
19755894 ATTATTTTAA
*
19755904 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
19755918 GGGTTTAGGGATTAT
1 -GGTTTAGGGATTAT
*
19755933 GGTTTAAGGG-TTGT
1 GGTTT-AGGGATTAT
19755947 GGTTTA
1 GGTTTA
19755953 AGGTTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 1 0.03
14 13 0.42
15 17 0.55
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:19755953 original size:14 final size:15
Alignment explanation
Indices: 19755911--19755955 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
19755901 TAAGGTTTAT
19755911 GGATTATGGGTTT-AG
1 GGATTAT-GGTTTAAG
19755926 GGATTATGGTTTAAG
1 GGATTATGGTTTAAG
*
19755941 GG-TTGTGGTTTAAG
1 GGATTATGGTTTAAG
19755955 G
1 G
19755956 TTTAAGTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (15 bp):
GGATTATGGTTTAAG
Found at i:19755993 original size:36 final size:36
Alignment explanation
Indices: 19755936--19756004 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
19755926 GGATTATGGT
*
19755936 TTAAGGGTTGTGGTTTAAGGTTTAAGTGTTAGGGGG
1 TTAAGGGTTGTGGGTTAAGGTTTAAGTGTTAGGGGG
* * *
19755972 TTAAGGGTTAG-GGGTTCAGGTTTATGTTTTAGG
1 TTAAGGGTT-GTGGGTTAAGGTTTAAGTGTTAGG
19756005 ATTTATAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
36 27 0.96
37 1 0.04
ACGTcount: A:0.19, C:0.01, G:0.39, T:0.41
Consensus pattern (36 bp):
TTAAGGGTTGTGGGTTAAGGTTTAAGTGTTAGGGGG
Found at i:19756016 original size:14 final size:14
Alignment explanation
Indices: 19755999--19756046 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
19755989 AGGTTTATGT
*
19755999 TTTAGGATTTATAG
1 TTTAGGATTTAGAG
*
19756013 TTTAGGGTTTAGAG
1 TTTAGGATTTAGAG
* *
19756027 ATTAGGAGTTTAGGG
1 TTTAGGA-TTTAGAG
19756042 TTTAG
1 TTTAG
19756047 ATTAATTAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (14 bp):
TTTAGGATTTAGAG
Found at i:19756163 original size:14 final size:14
Alignment explanation
Indices: 19756146--19756184 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
19756136 ATCATTATAG
19756146 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
*
19756160 TTTAGGGTATATGA
1 TTTAGGGTTTATGA
*
19756174 TTTAGAGTTTA
1 TTTAGGGTTTA
19756185 AAGTGTATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:19756226 original size:15 final size:15
Alignment explanation
Indices: 19756208--19756255 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
19756198 ATTATTTTAA
19756208 GGTTTATGGATTATG
1 GGTTTATGGATTATG
19756223 GGTTTA-GAGATTAT-
1 GGTTTATG-GATTATG
* *
19756237 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
19756252 GGTT
1 GGTT
19756256 GGGGTTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:19756228 original size:22 final size:21
Alignment explanation
Indices: 19756203--19756252 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
19756193 GAGTTATTAT
*
19756203 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
*
19756225 TTT-AGAGATTATGGTTTATGG
1 TTTAAG-GATTATGGATTATGG
19756246 TTTAAGG
1 TTTAAGG
19756253 GTTGGGGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:19756261 original size:14 final size:15
Alignment explanation
Indices: 19756244--19756284 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
19756234 TATGGTTTAT
19756244 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
*
19756258 GGTTTAAGGCTTAGG
1 GGTTTAAGGGTTAGG
19756273 GG-TTAAGGGTTA
1 GGTTTAAGGGTTA
19756285 AGTGTTAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.20, C:0.02, G:0.44, T:0.34
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:19756275 original size:21 final size:21
Alignment explanation
Indices: 19756237--19756276 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19756227 TAGAGATTAT
* *
19756237 GGTTTATGGTTTAAGGGTTGG
1 GGTTTAAGGCTTAAGGGTTGG
*
19756258 GGTTTAAGGCTTAGGGGTT
1 GGTTTAAGGCTTAAGGGTT
19756277 AAGGGTTAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.03, G:0.42, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGCTTAAGGGTTGG
Found at i:19766330 original size:39 final size:39
Alignment explanation
Indices: 19766286--19766364 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
19766276 TCTTTTATTC
19766286 TTTCAATTTCATTCATAATCATGCTATATAGATGGTTGT
1 TTTCAATTTCATTCATAATCATGCTATATAGATGGTTGT
19766325 TTTCAATTTCATTCATAATCATGCTATATAGATGGTTGT
1 TTTCAATTTCATTCATAATCATGCTATATAGATGGTTGT
19766364 T
1 T
19766365 ATTAGATTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.47
Consensus pattern (39 bp):
TTTCAATTTCATTCATAATCATGCTATATAGATGGTTGT
Found at i:19769268 original size:33 final size:34
Alignment explanation
Indices: 19769206--19769277 Score: 78
Period size: 33 Copynumber: 2.1 Consensus size: 34
19769196 AAACAATAAA
19769206 AATACAATATTAAGATATATATAATG-TATACAT
1 AATACAATATTAAGATATATATAATGATATACAT
* *
19769239 AATATAATATTAA-A-ATATTTACATGGTATATACAT
1 AATACAATATTAAGATATATATA-AT-G-ATATACAT
19769274 AATA
1 AATA
19769278 ATGTAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
31 6 0.18
32 3 0.09
33 13 0.39
35 11 0.33
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.38
Consensus pattern (34 bp):
AATACAATATTAAGATATATATAATGATATACAT
Found at i:19769811 original size:39 final size:39
Alignment explanation
Indices: 19769763--19769841 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
19769753 AAAAAAGTTG
* *
19769763 ATCCCACTCCTCCATGCTACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
*
19769802 ATCCTACTCCCCCATGCCACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
19769841 A
1 A
19769842 GACCATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.24, C:0.27, G:0.05, T:0.44
Consensus pattern (39 bp):
ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
Found at i:19771342 original size:44 final size:44
Alignment explanation
Indices: 19771274--19771375 Score: 159
Period size: 44 Copynumber: 2.3 Consensus size: 44
19771264 ATCTGTTATT
* *
19771274 TTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATTTGTCATC
1 TTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATATGTCATC
* *
19771318 TTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATATGTTATC
1 TTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATATGTCATC
*
19771362 TTCGATCTACTCTC
1 TTCGATCTGCTCTC
19771376 TGCTTATTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (44 bp):
TTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATATGTCATC
Found at i:19771387 original size:22 final size:22
Alignment explanation
Indices: 19771357--19771400 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
19771347 GCCAAATATG
19771357 TTATCTTCGATCTACTCTCTGC
1 TTATCTTCGATCTACTCTCTGC
*
19771379 TTATTTTCGATCTACTCTCTGC
1 TTATCTTCGATCTACTCTCTGC
19771401 CGCTACAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.14, C:0.30, G:0.09, T:0.48
Consensus pattern (22 bp):
TTATCTTCGATCTACTCTCTGC
Found at i:19771425 original size:66 final size:66
Alignment explanation
Indices: 19771318--19771444 Score: 209
Period size: 66 Copynumber: 1.9 Consensus size: 66
19771308 ATTTGTCATC
*
19771318 TTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATATGTTATCTTCGATCTACTCTCTGCTTAT
1 TTCGATCTACTCTCCGCCACTACAGAGACGCCAAATATGTTATCTTCGATCTACTCTCTGCTTAT
19771383 T
66 T
* * * *
19771384 TTCGATCTACTCTCTGCCGCTACAGAGACGCCAAATCTGTTATTTTCGATCTACTCTCTGC
1 TTCGATCTACTCTCCGCCACTACAGAGACGCCAAATATGTTATCTTCGATCTACTCTCTGC
19771445 CGCTACAGAG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.35
Consensus pattern (66 bp):
TTCGATCTACTCTCCGCCACTACAGAGACGCCAAATATGTTATCTTCGATCTACTCTCTGCTTAT
T
Found at i:19771442 original size:44 final size:44
Alignment explanation
Indices: 19771374--19772002 Score: 829
Period size: 44 Copynumber: 14.6 Consensus size: 44
19771364 CGATCTACTC
* * *
19771374 TCTGCTTATTTTCGATCTACTCTCTGCCGCTACAGAGACGCCAAA
1 TCTG-TTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA
* * *
19771419 TCTGTTATTTTCGATCTACTCTCTGCCGCTACAGAGACGCCAAA
1 TCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA
* * *
19771463 TCTGTTATTTTCGATCTACTCTCTGCCGCTACAGAGACGCCAAA
1 TCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA
* *
19771507 TCTGTTATCTTCGATCTGCTCTCCGCCACTATAGAGACGCCAAA
1 TCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA
*
19771551 TTTGTTATCTTCGA-------T----CGCTACAGAGACGCCAAA
1 TCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA
* * *
19771584 TCTATTATCTTCGATCTTCTCTCCGCAGCTACAGAGACGCCAAA
1 TCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA
*
19771628 TCTGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAA
1 TCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA
* * *
19771672 TCTGCTATCTTCGATCTGCTCTCCACCGCTATAGAGACGCCAAA
1 TCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA
* *
19771716 TCTGTTATCTTCGATCTGCTCTCCGCCACTATAGAGACGCCAAA
1 TCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA
* * *
19771760 TCTGTTATCTTCGATCTACTCTCTGCCGCTACAGAGATGCCAAA
1 TCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA
*
19771804 TC----ATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAA
1 TCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA
* *
19771844 TCTGTTATCTTCGATCTGCTCTCCGTCGCTACAAAGACGCCAAA
1 TCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA
* *
19771888 TCTGTTATCTTCGATCTACTCTCCGCCGCTACAGAGATGCCAAA
1 TCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA
* ** *
19771932 TCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAA
1 TCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA
* *
19771976 TCTGTCATCTTTGATCTGCTCTCCGCC
1 TCTGTTATCTTCGATCTGCTCTCCGCC
19772003 ATCTTCGATC
Statistics
Matches: 528, Mismatches: 41, Indels: 31
0.88 0.07 0.05
Matches are distributed among these distances:
33 28 0.05
37 1 0.00
40 37 0.07
44 458 0.87
45 4 0.01
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (44 bp):
TCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA
Found at i:19771462 original size:110 final size:110
Alignment explanation
Indices: 19771265--19771488 Score: 342
Period size: 110 Copynumber: 2.0 Consensus size: 110
19771255 GGAACACCGA
* * *
19771265 TCTG-TTATTTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATTTGTCATCTTCGATCTGCT
1 TCTGCTTATTTTCGATCTACTCTCTGCCAATACAGAGACGCCAAATCTGTCATCTTCGATCTACT
19771329 CTCCGCCACTACAGAGACGCCAAATATGTTATCTTCGATCTACTC
66 CTCCGCCACTACAGAGACGCCAAATATGTTATCTTCGATCTACTC
** * *
19771374 TCTGCTTATTTTCGATCTACTCTCTGCCGCTACAGAGACGCCAAATCTGTTATTTTCGATCTACT
1 TCTGCTTATTTTCGATCTACTCTCTGCCAATACAGAGACGCCAAATCTGTCATCTTCGATCTACT
* * * *
19771439 CTCTGCCGCTACAGAGACGCCAAATCTGTTATTTTCGATCTACTC
66 CTCCGCCACTACAGAGACGCCAAATATGTTATCTTCGATCTACTC
19771484 TCTGC
1 TCTGC
19771489 CGCTACAGAG
Statistics
Matches: 103, Mismatches: 11, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
109 4 0.04
110 99 0.96
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.34
Consensus pattern (110 bp):
TCTGCTTATTTTCGATCTACTCTCTGCCAATACAGAGACGCCAAATCTGTCATCTTCGATCTACT
CTCCGCCACTACAGAGACGCCAAATATGTTATCTTCGATCTACTC
Found at i:19771803 original size:132 final size:132
Alignment explanation
Indices: 19771566--19772606 Score: 1144
Period size: 132 Copynumber: 7.8 Consensus size: 132
19771556 TATCTTCGAT
* * *
19771566 CGCTACAGAGACGCCAAATCTATTATCTTCGATCTTCTCTCCGCAGCTACAGAGACGCCAAATCT
1 CGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCT
** * *
19771631 GTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCC
66 GTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCT
*
19771696 AC
131 GC
* * *
19771698 CGCTATAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTATAGAGACGCCAAATCT
1 CGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCT
* * *
19771763 GTTATCTTCGATCTACTCTCTGCCGCTACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCC
66 GTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCT
*
19771824 GT
131 GC
* *
19771826 CGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGCTACAAAGACGCCAAATCT
1 CGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCT
* * *
19771891 GTTATCTTCGATCTACTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCT
66 GTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCT
19771956 GC
131 GC
** * * * * * *
19771958 CAATACAGAGATGCCAAATCTGTCATCTTTGATCTGCTCTCCGCCATCTTC-GATCTGCTCTCTG
1 CGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC-GCTACAGA---G---AC-G
* * ** ** * * * * * *** * **
19772022 CC-ACTACAGAGA-CACCAAATCTGTTATATTCGATCTGCT-CTTTGCCGCTGCAGAGACGTCAA
58 CCAAAT-CTGTTATCTTC-GATCTGCTCT-CT-G--CCGCTACAGAGACGC--CA-A-A--TCTG
* * * *
19772084 ATCTGTTATCTTCGATCTGTTCTCCGC
111 TTAT-----CTTCGATCTGCTCTCTGC
* * *
19772111 CGCTACAGAGACGCCAAATCTGTTATTTTCGATCTACTCTCTGCCGCTACAGAGACGCCAAATCT
1 CGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCT
* * * *
19772176 GTTATCTTCGATCTGCTCTCTGCCACTACAGAGACACCAAATCTGTTATATTCGATCTGCTCTTT
66 GTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCT
19772241 GC
131 GC
* * *
19772243 CGCTGCAGAGACGTCAAATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAAATCT
1 CGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCT
* * * *
19772308 GTTATCTTCGATCTGCTCTCTGCCACTACAGAGACACCAAATCTGTTATATTCGATCTGCTCTTT
66 GTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCT
19772373 GC
131 GC
* * *
19772375 CGCTGCAGAGACGTCAAATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAAATCT
1 CGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCT
* * * *
19772440 GTTATCTTCGATCTGCTCTCTGCCACTACAGAGACACCAAATCTGTTATATTCGATCTGCTCTTT
66 GTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCT
19772505 GC
131 GC
* * *
19772507 CGCTGCAGAGACGTCAAATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAAATCT
1 CGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCT
19772572 GTTATCTTCGATCTGCTCTCTGCCGCTACAGAGAC
66 GTTATCTTCGATCTGCTCTCTGCCGCTACAGAGAC
19772607 ACTTAATCAT
Statistics
Matches: 779, Mismatches: 97, Indels: 66
0.83 0.10 0.07
Matches are distributed among these distances:
128 120 0.15
132 527 0.68
133 3 0.00
135 1 0.00
137 4 0.01
138 5 0.01
139 13 0.02
140 1 0.00
141 3 0.00
142 7 0.01
143 8 0.01
144 3 0.00
145 2 0.00
146 14 0.02
147 5 0.01
148 4 0.01
150 1 0.00
152 3 0.00
153 55 0.07
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (132 bp):
CGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCT
GTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCT
GC
Found at i:19772007 original size:21 final size:21
Alignment explanation
Indices: 19771981--19772024 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
19771971 CCAAATCTGT
*
19771981 CATCTTTGATCTGCTCTCCGC
1 CATCTTCGATCTGCTCTCCGC
*
19772002 CATCTTCGATCTGCTCTCTGC
1 CATCTTCGATCTGCTCTCCGC
19772023 CA
1 CA
19772025 CTACAGAGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.11, C:0.39, G:0.14, T:0.36
Consensus pattern (21 bp):
CATCTTCGATCTGCTCTCCGC
Found at i:19772042 original size:65 final size:65
Alignment explanation
Indices: 19771938--19772062 Score: 196
Period size: 65 Copynumber: 1.9 Consensus size: 65
19771928 CAAATCTGTT
** * *
19771938 ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTCATCTTTGATCTGCTCTCCGCC
1 ATCTTCGATCTGCTCTCTGCCAATACAGAGACACCAAATCTGTCATATTCGATCTGCTCTCCGCC
* *
19772003 ATCTTCGATCTGCTCTCTGCCACTACAGAGACACCAAATCTGTTATATTCGATCTGCTCT
1 ATCTTCGATCTGCTCTCTGCCAATACAGAGACACCAAATCTGTCATATTCGATCTGCTCT
19772063 TTGCCGCTGC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (65 bp):
ATCTTCGATCTGCTCTCTGCCAATACAGAGACACCAAATCTGTCATATTCGATCTGCTCTCCGCC
Found at i:19772076 original size:44 final size:44
Alignment explanation
Indices: 19772003--19772606 Score: 902
Period size: 44 Copynumber: 13.7 Consensus size: 44
19771993 GCTCTCCGCC
* *
19772003 ATCTTCGATCTGCTCTCTGCCACTACAGAGACACCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
* * * *
19772047 ATATTCGATCTGCTCTTTGCCGCTGCAGAGACGTCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
* *
19772091 ATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
* *
19772135 ATTTTCGATCTACTCTCTGCCGCTACAGAGACGCCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
* *
19772179 ATCTTCGATCTGCTCTCTGCCACTACAGAGACACCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
* * * *
19772223 ATATTCGATCTGCTCTTTGCCGCTGCAGAGACGTCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
* *
19772267 ATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
* *
19772311 ATCTTCGATCTGCTCTCTGCCACTACAGAGACACCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
* * * *
19772355 ATATTCGATCTGCTCTTTGCCGCTGCAGAGACGTCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
* *
19772399 ATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
* *
19772443 ATCTTCGATCTGCTCTCTGCCACTACAGAGACACCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
* * * *
19772487 ATATTCGATCTGCTCTTTGCCGCTGCAGAGACGTCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
* *
19772531 ATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
19772575 ATCTTCGATCTGCTCTCTGCCGCTACAGAGAC
1 ATCTTCGATCTGCTCTCTGCCGCTACAGAGAC
19772607 ACTTAATCAT
Statistics
Matches: 494, Mismatches: 66, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 494 1.00
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
Found at i:19772085 original size:109 final size:109
Alignment explanation
Indices: 19771894--19772111 Score: 301
Period size: 109 Copynumber: 2.0 Consensus size: 109
19771884 CAAATCTGTT
* ** *
19771894 ATCTTCGATCTACTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCC
1 ATCTTCGATCTACTCTCCGCCACTACAGAGACACCAAATCTGTTATATTCGATCTGCTCTCTGCC
* *
19771959 AATACAGAGATGCCAAATCTGTCATCTTTGATCTGCTCTCCGCC
66 AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCCGCC
* * *
19772003 ATCTTCGATCTGCTCTCTGCCACTACAGAGACACCAAATCTGTTATATTCGATCTGCTCTTTGCC
1 ATCTTCGATCTACTCTCCGCCACTACAGAGACACCAAATCTGTTATATTCGATCTGCTCTCTGCC
** * * * *
19772068 GCTGCAGAGACGTCAAATCTGTTATCTTCGATCTGTTCTCCGCC
66 AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCCGCC
19772112 GCTACAGAGA
Statistics
Matches: 94, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
109 94 1.00
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.32
Consensus pattern (109 bp):
ATCTTCGATCTACTCTCCGCCACTACAGAGACACCAAATCTGTTATATTCGATCTGCTCTCTGCC
AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCCGCC
Found at i:19772128 original size:153 final size:153
Alignment explanation
Indices: 19771850--19772151 Score: 417
Period size: 153 Copynumber: 2.0 Consensus size: 153
19771840 CAAATCTGTT
* * * *
19771850 ATCTTCGATCTGCTCTCCGTCGCTACAAAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCC
1 ATCTTCGATCTGCTCTCCGCCACTACAAAGACACCAAATCTGTTATATTCGATCTACTCTCCGCC
* * *
19771915 GCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTG
66 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTG
*
19771980 TCATCTTT-GATCTGCTCTCCGCC
131 TCAT-TTTCGATCTACTCTCCGCC
* * * **
19772003 ATCTTCGATCTGCTCTCTGCCACTACAGAGACACCAAATCTGTTATATTCGATCTGCTCTTTGCC
1 ATCTTCGATCTGCTCTCCGCCACTACAAAGACACCAAATCTGTTATATTCGATCTACTCTCCGCC
* * * **
19772068 GCTGCAGAGACGTCAAATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAAATCTG
66 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTG
*
19772133 TTATTTTCGATCTACTCTC
131 TCATTTTCGATCTACTCTC
19772152 TGCCGCTACA
Statistics
Matches: 129, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
152 3 0.02
153 126 0.98
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.32
Consensus pattern (153 bp):
ATCTTCGATCTGCTCTCCGCCACTACAAAGACACCAAATCTGTTATATTCGATCTACTCTCCGCC
GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTG
TCATTTTCGATCTACTCTCCGCC
Found at i:19772144 original size:197 final size:197
Alignment explanation
Indices: 19771805--19772200 Score: 594
Period size: 197 Copynumber: 2.0 Consensus size: 197
19771795 GATGCCAAAT
* * * * *
19771805 CATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGT
1 CATCTTCGATCTGCTCTCCGCCACTACAGAGACACCAAATCTGTTATATTCGATCTGCTCTCCGC
*
19771870 CGCTACAAAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCCGCTACAGAGATGCCAAATCT
66 CGCTACAAAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCCGCTACAGAGACGCCAAATCT
* * *
19771935 GTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTCATCTTTGATCTGCTCTCC
131 GTTATCTTCGATCTACTCTCTGCCAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCC
19772000 GC
196 GC
* **
19772002 CATCTTCGATCTGCTCTCTGCCACTACAGAGACACCAAATCTGTTATATTCGATCTGCTCTTTGC
1 CATCTTCGATCTGCTCTCCGCCACTACAGAGACACCAAATCTGTTATATTCGATCTGCTCTCCGC
* * * **
19772067 CGCTGCAGAGACGTCAAATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAAATCT
66 CGCTACAAAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCCGCTACAGAGACGCCAAATCT
* ** * *
19772132 GTTATTTTCGATCTACTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCT
131 GTTATCTTCGATCTACTCTCTGCCAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCC
19772197 GC
196 GC
19772199 CA
1 CA
19772201 CTACAGAGAC
Statistics
Matches: 177, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
197 177 1.00
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (197 bp):
CATCTTCGATCTGCTCTCCGCCACTACAGAGACACCAAATCTGTTATATTCGATCTGCTCTCCGC
CGCTACAAAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCCGCTACAGAGACGCCAAATCT
GTTATCTTCGATCTACTCTCTGCCAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCC
GC
Found at i:19772939 original size:61 final size:65
Alignment explanation
Indices: 19772825--19772943 Score: 192
Period size: 61 Copynumber: 1.9 Consensus size: 65
19772815 GTATCCATAC
19772825 TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGCT
1 TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGCT
* *
19772890 TTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGTTCCTAACTAAATG
1 TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATG
19772944 AATGGTTATG
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
61 29 0.56
62 1 0.02
63 1 0.02
64 1 0.02
65 20 0.38
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.34
Consensus pattern (65 bp):
TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGCT
Found at i:19773485 original size:66 final size:65
Alignment explanation
Indices: 19773378--19773509 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 65
19773368 CCAGATATCG
*
19773378 CAGCACGAGCTTTACTATTCTAATTTTTCGAACACTCTTTCGAGCTAAATGTGTGTTCAAGAGAT
1 CAGCACGAGCTTCACTATTCTAATTTTTCGAACACTCTTTCGAGCTAAATGTGTGTTCAAGAGAT
*
19773443 CNAGCACGAGCTTCACTATTCTAATTTTTCGAAGACTCTTTCGAGCTAAATGTGTGTTCAAGAGA
1 C-AGCACGAGCTTCACTATTCTAATTTTTCGAACACTCTTTCGAGCTAAATGTGTGTTCAAGAGA
19773508 T
65 T
19773509 C
1 C
19773510 CCCCGTATTT
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 1 0.02
66 63 0.98
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.34
Consensus pattern (65 bp):
CAGCACGAGCTTCACTATTCTAATTTTTCGAACACTCTTTCGAGCTAAATGTGTGTTCAAGAGAT
Found at i:19785480 original size:44 final size:44
Alignment explanation
Indices: 19785399--19785745 Score: 336
Period size: 44 Copynumber: 7.8 Consensus size: 44
19785389 GCCACTAAAC
* * * * * *
19785399 CTTATCTCCCTAAAGTTGTAGGGGAGCAGGTTGAAGATACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAAT
* * * * * *
19785443 CTTAGCTCTCTGAAGTTACAGTAGAGCAGACTAAAGATAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CAAAT
* * *
19785488 CTCATCTCCCTGAAGTTGCAGTGGAGCA-AGTTGAAGATACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGATACAAAT
* * * ** * *
19785532 CTTAGCTCCCTGAATTTGCAGTAGAATAGACTAAAGATAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CAAAT
* * * *
19785577 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTAGAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAAT
* * * * *
19785621 ATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAAT
* * *
19785665 CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CAAAT
*
19785710 CTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
19785746 CCTGAAAATG
Statistics
Matches: 241, Mismatches: 57, Indels: 9
0.79 0.19 0.03
Matches are distributed among these distances:
44 138 0.57
45 103 0.43
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAAT
Found at i:19785554 original size:89 final size:89
Alignment explanation
Indices: 19785395--19785745 Score: 384
Period size: 89 Copynumber: 3.9 Consensus size: 89
19785385 AATAGCCACT
* * * * *
19785395 AAACCTTATCTCCCTAAAGTTGTAGGGGAGCAGGTTGAAGATACAAGTCTTAGCTCTCTGAAGTT
1 AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAGATACAAATCTTAGCTCCCTGAAGTT
*
19785460 ACAGTAGAGCAGACTAAAGATAGC
66 GCAGTAGAGCAGACTAAAGATAGC
* * * *
19785484 AAACCTCATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATACAAGTCTTAGCTCCCTGAATTT
1 AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAGATACAAATCTTAGCTCCCTGAAGTT
**
19785549 GCAGTAGAATAGACTAAAGATAGC
66 GCAGTAGAGCAGACTAAAGATAGC
* * * * * *
19785573 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTAGAAATATTATCTCCCTGAAGTT
1 AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAGATACAAATCTTAGCTCCCTGAAGTT
* ** * *
19785638 GCAGTGGAGCAGGTTGAAGTTA-C
66 GCAGTAGAGCAGACTAAAGATAGC
** * * * *
19785661 AAGTCTTATCTCCCTAAAGTTGCAGCGGAGC-AGACTAAAGATAGCAAATCTTATCTCCCTGAAG
1 AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAG-TTGAAGATA-CAAATCTTAGCTCCCTGAAG
*
19785725 TTGCAGT-GAAGCAGATTAAAG
64 TTGCAGTAG-AGCAGACTAAAG
19785746 CCTGAAAATG
Statistics
Matches: 222, Mismatches: 37, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
87 1 0.00
88 35 0.16
89 186 0.84
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (89 bp):
AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAGATACAAATCTTAGCTCCCTGAAGTT
GCAGTAGAGCAGACTAAAGATAGC
Found at i:19785647 original size:133 final size:133
Alignment explanation
Indices: 19785491--19785738 Score: 397
Period size: 133 Copynumber: 1.9 Consensus size: 133
19785481 AGCAAACCTC
* * *
19785491 ATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATACAAGTCTTAGCTCCCTGAATTTGCAGTAG
1 ATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATACAAGTCTTAGCTCCCTAAAGTTGCAGCAG
* *
19785556 AATAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTAGAAAT
66 AACAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGCAGTGAAGCAGGTTGAAGTTAGAAAT
19785621 ATT
131 ATT
* * * *
19785624 ATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGCGG
1 ATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATACAAGTCTTAGCTCCCTAAAGTTGCAGCAG
* *
19785689 AGCAGACTAAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAG
66 AACAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGCAGTGAAGCAG
19785739 ATTAAAGCCT
Statistics
Matches: 104, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 104 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (133 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATACAAGTCTTAGCTCCCTAAAGTTGCAGCAG
AACAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGCAGTGAAGCAGGTTGAAGTTAGAAAT
ATT
Found at i:19786354 original size:23 final size:23
Alignment explanation
Indices: 19786323--19786373 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
19786313 AGAACAAAAT
*
19786323 AAAAAAAAAGAG-AAAGCAATTC
1 AAAAAAAAAGAGCAAAGAAATTC
19786345 ACAAAAAAAAGAGCAAAGAAATTC
1 A-AAAAAAAAGAGCAAAGAAATTC
19786369 AAAAA
1 AAAAA
19786374 GAAATCGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 1 0.04
23 15 0.58
24 10 0.38
ACGTcount: A:0.71, C:0.10, G:0.12, T:0.08
Consensus pattern (23 bp):
AAAAAAAAAGAGCAAAGAAATTC
Found at i:19787185 original size:12 final size:12
Alignment explanation
Indices: 19787135--19787193 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
19787125 CATTTTTGCT
19787135 ATATTATTATTA
1 ATATTATTATTA
*
19787147 AAATTA--ATTA
1 ATATTATTATTA
*
19787157 ATTAATTAATATT-
1 A-T-ATTATTATTA
19787170 ATATTATTATTA
1 ATATTATTATTA
*
19787182 ATATCATTATTA
1 ATATTATTATTA
19787194 TTTCTTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
10 5 0.13
11 8 0.21
12 21 0.55
13 1 0.03
14 3 0.08
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATTATTATTA
Found at i:19787356 original size:3 final size:3
Alignment explanation
Indices: 19787348--19787395 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
19787338 TGTTTCTGCC
*
19787348 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT GAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19787396 CATCATCACC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:19787561 original size:11 final size:12
Alignment explanation
Indices: 19787510--19787562 Score: 58
Period size: 11 Copynumber: 4.5 Consensus size: 12
19787500 ATTTTTTTTG
19787510 TTATTTCATTTA
1 TTATTTCATTTA
*
19787522 TTA-TTCTTTTA
1 TTATTTCATTTA
19787533 TTA-TTCTATTTA
1 TTATTTC-ATTTA
19787545 TTTATTTCATTT-
1 -TTATTTCATTTA
19787557 TTATTT
1 TTATTT
19787563 TTGTTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
11 19 0.53
12 7 0.19
13 7 0.19
14 3 0.08
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (12 bp):
TTATTTCATTTA
Found at i:19792463 original size:22 final size:22
Alignment explanation
Indices: 19792438--19792501 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
19792428 ATCATTCTGT
*
19792438 ACTTCAGTGCCTACTGTTTTGC
1 ACTTCAGTGCTTACTGTTTTGC
** * *
19792460 ACTTTGGTGCTTAGTGATTTGC
1 ACTTCAGTGCTTACTGTTTTGC
* *
19792482 TCTTCTGTGCTTACTGTTTT
1 ACTTCAGTGCTTACTGTTTT
19792502 ATTAGTGCAC
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (22 bp):
ACTTCAGTGCTTACTGTTTTGC
Found at i:19796705 original size:24 final size:23
Alignment explanation
Indices: 19796676--19796724 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
19796666 AAAAATAAAA
19796676 ATTATT-GTTTTTAAATTATTTATT
1 ATTATTAGTTTTTAAA-TA-TTATT
*
19796700 ATTATTATTTTTTAAATATTATT
1 ATTATTAGTTTTTAAATATTATT
19796723 AT
1 AT
19796725 AAAAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 7 0.30
24 8 0.35
25 8 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
ATTATTAGTTTTTAAATATTATT
Found at i:19796738 original size:41 final size:39
Alignment explanation
Indices: 19796688--19796770 Score: 105
Period size: 42 Copynumber: 2.1 Consensus size: 39
19796678 TATTGTTTTT
* *
19796688 AAATTATTTA-TTATTATTATTTTTTAAATATTATTATAAA
1 AAATTATTTAGTTATTATAATTTTTTAAA-AATATTA-AAA
*
19796728 AAATTAATTTAGTTTTTATAATTTTTTAAAAATATTAAAA
1 AAATT-ATTTAGTTATTATAATTTTTTAAAAATATTAAAA
19796768 AAA
1 AAA
19796771 GTTTTGCTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 11 0.29
41 11 0.29
42 16 0.42
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (39 bp):
AAATTATTTAGTTATTATAATTTTTTAAAAATATTAAAA
Found at i:19798371 original size:30 final size:30
Alignment explanation
Indices: 19798325--19798418 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
19798315 TTTTATTATG
*
19798325 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
19798356 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
19798386 CCATTATTTGATACCCATATATTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
19798416 CCA
1 CCA
19798419 TAAATATGGA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 52 0.88
31 7 0.12
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:19798380 original size:15 final size:15
Alignment explanation
Indices: 19798335--19798412 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
19798325 CCAATATCTC
*
19798335 GATACCCATATCTTT
1 GATACCCATATATTT
**
19798350 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
19798365 GATACCCATATCTTT
1 GATACCCATATATTT
**
19798380 GACTTTCCAT-TATTT
1 GA-TACCCATATATTT
19798395 GATACCCATATATTT
1 GATACCCATATATTT
19798410 GAT
1 GAT
19798413 TTTCCATAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
14 9 0.19
15 30 0.62
16 9 0.19
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:19807564 original size:20 final size:19
Alignment explanation
Indices: 19807541--19807580 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
19807531 TTTTTTACAT
19807541 TATTTTTCTCTCTTTTT-TTC
1 TATTTTTC-CT-TTTTTATTC
19807561 TATTTTTCCTTTTTTATTC
1 TATTTTTCCTTTTTTATTC
19807580 T
1 T
19807581 TTCTTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 6 0.32
20 8 0.42
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.75
Consensus pattern (19 bp):
TATTTTTCCTTTTTTATTC
Found at i:19807575 original size:19 final size:20
Alignment explanation
Indices: 19807541--19807580 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
19807531 TTTTTTACAT
*
19807541 TATTTTTCTCTCTTTTTTTC
1 TATTTTTCTCTCTTTTATTC
*
19807561 TATTTTTC-CTTTTTTATTC
1 TATTTTTCTCTCTTTTATTC
19807580 T
1 T
19807581 TTCTTTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.75
Consensus pattern (20 bp):
TATTTTTCTCTCTTTTATTC
Found at i:19807982 original size:13 final size:13
Alignment explanation
Indices: 19807964--19808010 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
19807954 TCCGACGAAT
19807964 AAAACAAAAACTA
1 AAAACAAAAACTA
*
19807977 AAAACAAAAACCA
1 AAAACAAAAACTA
**
19807990 AAAACAAAGTCTA
1 AAAACAAAAACTA
19808003 AAAACAAA
1 AAAACAAA
19808011 TTTATAGTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.74, C:0.17, G:0.02, T:0.06
Consensus pattern (13 bp):
AAAACAAAAACTA
Found at i:19807985 original size:6 final size:6
Alignment explanation
Indices: 19807964--19807997 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
19807954 TCCGACGAAT
19807964 AAAACA AAAACTA AAAACA AAAACCA AAAACA AA
1 AAAACA AAAAC-A AAAACA AAAA-CA AAAACA AA
19807998 GTCTAAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 14 0.54
7 12 0.46
ACGTcount: A:0.79, C:0.18, G:0.00, T:0.03
Consensus pattern (6 bp):
AAAACA
Found at i:19811633 original size:3 final size:3
Alignment explanation
Indices: 19811625--19811672 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
19811615 ATACTAATTA
* *
19811625 AAT AAT AAT AGAG AA- AAT AAAT AAT AAC AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT A-AT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
19811671 AA
1 AA
19811673 AGAAAATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
2 2 0.05
3 32 0.82
4 5 0.13
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:19811789 original size:3 final size:3
Alignment explanation
Indices: 19811781--19811958 Score: 275
Period size: 3 Copynumber: 58.3 Consensus size: 3
19811771 TAATCAAAAC
19811781 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19811829 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
19811877 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TTGA CATA AGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A -ATA A-TA
* * * * *
19811925 GTA ATA CTA GTA ACA ATA ATA ATA ATG ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
19811959 CAGTAGCAAA
Statistics
Matches: 161, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
3 156 0.97
4 4 0.02
5 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19813036 original size:14 final size:14
Alignment explanation
Indices: 19813017--19813046 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19813007 TTTATTATAT
19813017 CTACTGTTCATCTG
1 CTACTGTTCATCTG
19813031 CTACTGTTCATCTG
1 CTACTGTTCATCTG
19813045 CT
1 CT
19813047 TCTTGTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.30, G:0.13, T:0.43
Consensus pattern (14 bp):
CTACTGTTCATCTG
Found at i:19824119 original size:17 final size:18
Alignment explanation
Indices: 19824097--19824137 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
19824087 ATGTAGTTCG
* *
19824097 TATTTTTAG-AAAACCTT
1 TATTTTTAGTAAAAACTA
19824114 TA-TTTTAGTAAAAACTA
1 TATTTTTAGTAAAAACTA
19824131 TATTTTT
1 TATTTTT
19824138 TAGATATCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 6 0.30
17 10 0.50
18 4 0.20
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (18 bp):
TATTTTTAGTAAAAACTA
Done.