Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 18 of 221
Found at i:5292562 original size:9 final size:9
Alignment explanation
Indices: 5292440--5292564 Score: 75
Period size: 9 Copynumber: 14.0 Consensus size: 9
5292430 CTTCTAATAC
5292440 ATTTTT-TA
1 ATTTTTATA
*
5292448 AGTTTTACTA
1 ATTTTTA-TA
5292458 A-TTTTAT-
1 ATTTTTATA
*
5292465 TTTTTTATA
1 ATTTTTATA
5292474 ATTTATTAT-
1 ATTT-TTATA
5292483 ATTTTTATA
1 ATTTTTATA
* *
5292492 ATATTTACA
1 ATTTTTATA
5292501 AGTTTTTTTATA
1 A---TTTTTATA
* *
5292513 ACTTTAAT-
1 ATTTTTATA
*
5292521 ATTCTTTTTA
1 ATT-TTTATA
*
5292531 ATTTTTTTA
1 ATTTTTATA
5292540 A-TTTT-TA
1 ATTTTTATA
5292547 ATTTTTATA
1 ATTTTTATA
5292556 ATTTTTATA
1 ATTTTTATA
5292565 CACAATGCGT
Statistics
Matches: 92, Mismatches: 12, Indels: 25
0.71 0.09 0.19
Matches are distributed among these distances:
7 3 0.03
8 26 0.28
9 46 0.50
10 10 0.11
12 7 0.08
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.66
Consensus pattern (9 bp):
ATTTTTATA
Found at i:5295998 original size:102 final size:102
Alignment explanation
Indices: 5295872--5296075 Score: 277
Period size: 102 Copynumber: 2.0 Consensus size: 102
5295862 TAGGGATAAG
* *
5295872 GTAACTTTTGACCCTGCACTTTTTTTTAGCCACTTTAACCTTTGAA-CTTAAAAACCGTTATTCA
1 GTAACTTTTGACCCTGAACTTTTTTTTAGCCACTTTAACCCTT-AAGCTTAAAAACCGTTATTCA
* *
5295936 TTTAAGCTCATTTGCAATGACTGTGAAAAAAATGGGGA
65 TTTAAGCTCATTTACAATGACTGTGAAAAAAATAGGGA
* * * * *
5295974 GTAACTTTTGACCCCTGAAC-TTTTTTTATCCACTTTGACCCTTAAGCTTGAAAAGCTTTATTCA
1 GTAACTTTTGA-CCCTGAACTTTTTTTTAGCCACTTTAACCCTTAAGCTTAAAAACCGTTATTCA
* *
5296038 TTTAAGCTCATTTATAATGATTGTGAAAAAAATAGGGA
65 TTTAAGCTCATTTACAATGACTGTGAAAAAAATAGGGA
5296076 TAATATAAAT
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
101 2 0.02
102 80 0.90
103 7 0.08
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (102 bp):
GTAACTTTTGACCCTGAACTTTTTTTTAGCCACTTTAACCCTTAAGCTTAAAAACCGTTATTCAT
TTAAGCTCATTTACAATGACTGTGAAAAAAATAGGGA
Found at i:5296618 original size:138 final size:138
Alignment explanation
Indices: 5296463--5296739 Score: 554
Period size: 138 Copynumber: 2.0 Consensus size: 138
5296453 CTTGGCTTTT
5296463 TAGATTTTTATGATTTTTAATAATTAAAAAAAGTAACATTTTAGATTTTTCAAGTTTAGGGATCA
1 TAGATTTTTATGATTTTTAATAATTAAAAAAAGTAACATTTTAGATTTTTCAAGTTTAGGGATCA
5296528 AAATGGACTTAGTTGTCAATTTTAAGTGCCACAATGAATAAAAAATGTACAGGTACTAAAGCGAA
66 AAATGGACTTAGTTGTCAATTTTAAGTGCCACAATGAATAAAAAATGTACAGGTACTAAAGCGAA
5296593 CCTAGTTG
131 CCTAGTTG
5296601 TAGATTTTTATGATTTTTAATAATTAAAAAAAGTAACATTTTAGATTTTTCAAGTTTAGGGATCA
1 TAGATTTTTATGATTTTTAATAATTAAAAAAAGTAACATTTTAGATTTTTCAAGTTTAGGGATCA
5296666 AAATGGACTTAGTTGTCAATTTTAAGTGCCACAATGAATAAAAAATGTACAGGTACTAAAGCGAA
66 AAATGGACTTAGTTGTCAATTTTAAGTGCCACAATGAATAAAAAATGTACAGGTACTAAAGCGAA
5296731 CCTAGTTG
131 CCTAGTTG
5296739 T
1 T
5296740 CAAGTTTAGT
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 139 1.00
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (138 bp):
TAGATTTTTATGATTTTTAATAATTAAAAAAAGTAACATTTTAGATTTTTCAAGTTTAGGGATCA
AAATGGACTTAGTTGTCAATTTTAAGTGCCACAATGAATAAAAAATGTACAGGTACTAAAGCGAA
CCTAGTTG
Found at i:5299809 original size:35 final size:36
Alignment explanation
Indices: 5299763--5299868 Score: 92
Period size: 34 Copynumber: 2.9 Consensus size: 36
5299753 TTTTCTCATA
* *
5299763 AAAATAATAAAAAATTATAAATATCAGAAAATATCT-
1 AAAATAATAAAAAATTATAAATAT-AAAAAATATATG
*
5299799 AAAAT-AT-AAAAATGATTAAATATAAAAAATATATG
1 AAAATAATAAAAAATTA-TAAATATAAAAAATATATG
* * *
5299834 AAAATTGATATAAACTTATAAATATTATAAAAATA
1 AAAA-TAATAAAAAATTATAAATA-TA-AAAAATA
5299869 AATTTCTAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
34 16 0.28
35 13 0.23
36 6 0.11
37 8 0.14
38 7 0.12
39 7 0.12
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (36 bp):
AAAATAATAAAAAATTATAAATATAAAAAATATATG
Found at i:5299810 original size:17 final size:16
Alignment explanation
Indices: 5299763--5299826 Score: 60
Period size: 16 Copynumber: 3.8 Consensus size: 16
5299753 TTTTCTCATA
5299763 AAAATAATAAAAA-ATT
1 AAAAT-ATAAAAATATT
5299779 ATAAATATCAGAAAATATCT
1 A-AAATAT-A-AAAATAT-T
5299799 AAAATATAAAAATGATT
1 AAAATATAAAAAT-ATT
5299816 -AAATATAAAAA
1 AAAATATAAAAA
5299827 ATATATGAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
16 14 0.33
17 11 0.26
18 7 0.17
19 8 0.19
20 2 0.05
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (16 bp):
AAAATATAAAAATATT
Found at i:5299827 original size:17 final size:16
Alignment explanation
Indices: 5299764--5299830 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 16
5299754 TTTCTCATAA
5299764 AAATAATAAAAAAT-TAT
1 AAAT-ATAAAAAATAT-T
*
5299781 AAATATCAGAAAATATCT
1 AAATAT-AAAAAATAT-T
5299799 AAA-ATATAAAAATGATT
1 AAATATA-AAAAAT-ATT
5299816 AAATATAAAAAATAT
1 AAATATAAAAAATAT
5299831 ATGAAAATTG
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
16 5 0.12
17 27 0.64
18 10 0.24
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (16 bp):
AAATATAAAAAATATT
Found at i:5299900 original size:10 final size:10
Alignment explanation
Indices: 5299887--5300019 Score: 55
Period size: 9 Copynumber: 13.5 Consensus size: 10
5299877 AAAAATTCTA
5299887 AAAAATATAT
1 AAAAATATAT
*
5299897 AAAATTA-AT
1 AAAAATATAT
*
5299906 AAAATATATTT
1 AAAA-ATATAT
* *
5299917 AAAATTTTAT
1 AAAAATATAT
* *
5299927 AAAAAAACAT
1 AAAAATATAT
* * *
5299937 ATTAAATTTCT
1 A-AAAATATAT
5299948 ATAAAATCATA-
1 A-AAAAT-ATAT
*
5299959 AAAAGTAT-T
1 AAAAATATAT
*
5299968 AAAATTAT-T
1 AAAAATATAT
*
5299977 AAAATTATAT
1 AAAAATATAT
5299987 -AAAAT-TAT
1 AAAAATATAT
5299995 AAAAAT-TAT
1 AAAAATATAT
*
5300004 AAAAAAATCAT
1 AAAAATAT-AT
5300015 AAAAA
1 AAAAA
5300020 CTTAAAATGA
Statistics
Matches: 92, Mismatches: 22, Indels: 17
0.70 0.17 0.13
Matches are distributed among these distances:
8 3 0.03
9 41 0.45
10 24 0.26
11 23 0.25
12 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (10 bp):
AAAAATATAT
Found at i:5299941 original size:23 final size:24
Alignment explanation
Indices: 5299906--5299953 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
5299896 TAAAATTAAT
*
5299906 AAAATATATTTAAAATTT-TATAAA
1 AAAACATATTT-AAATTTCTATAAA
5299930 AAAACATA-TTAAATTTCTATAAA
1 AAAACATATTTAAATTTCTATAAA
5299953 A
1 A
5299954 TCATAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 9 0.41
24 7 0.32
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAACATATTTAAATTTCTATAAA
Found at i:5299945 original size:72 final size:68
Alignment explanation
Indices: 5299867--5299999 Score: 178
Period size: 72 Copynumber: 1.9 Consensus size: 68
5299857 ATTATAAAAA
*
5299867 TAAATTTCTAAAAAATTC-TAAAAAATATATAAAATTAATAAAATATATTTAAAATTTTATAAAA
1 TAAATTTCTAAAAAA-TCATAAAAAATAT-TAAAATTAATAAAAT-TATATAAAA--TTATAAAA
5299931 AAACATAT
61 AAACATAT
* * *
5299939 TAAATTTCTATAAAATCATAAAAAGTATTAAAATTATTAAAATTATATAAAATTATAAAAA
1 TAAATTTCTAAAAAATCATAAAAAATATTAAAATTAATAAAATTATATAAAATTATAAAAA
5300000 TTATAAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
68 9 0.16
70 8 0.14
71 16 0.29
72 23 0.41
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (68 bp):
TAAATTTCTAAAAAATCATAAAAAATATTAAAATTAATAAAATTATATAAAATTATAAAAAAACA
TAT
Found at i:5299958 original size:21 final size:22
Alignment explanation
Indices: 5299891--5299958 Score: 54
Period size: 21 Copynumber: 3.1 Consensus size: 22
5299881 ATTCTAAAAA
* *
5299891 ATATATAAAA-TTAATAAAAT-
1 ATATTTAAAATTTTATAAAATC
*
5299911 ATATTTAAAATTTTATAAAAAAAC
1 ATATTTAAAATTTTAT--AAAATC
5299935 ATA-TT-AAATTTCTATAAAATC
1 ATATTTAAAATTT-TATAAAATC
5299956 ATA
1 ATA
5299959 AAAAGTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
20 9 0.23
21 12 0.31
22 6 0.15
23 9 0.23
24 3 0.08
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
ATATTTAAAATTTTATAAAATC
Found at i:5299968 original size:28 final size:28
Alignment explanation
Indices: 5299936--5300019 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 28
5299926 TAAAAAAACA
* *
5299936 TATTAAATTTCTATAAAATCATAAAAAG
1 TATTAAAATTATATAAAATCATAAAAAG
* *
5299964 TATTAAAATTAT-TAAAATTATATAAAAT
1 TATTAAAATTATATAAAATCATA-AAAAG
* *
5299992 TATAAAAATTATAAAAAAATCATAAAAA
1 TATTAAAATTAT-ATAAAATCATAAAAA
5300020 CTTAAAATGA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
27 9 0.20
28 25 0.54
29 4 0.09
30 8 0.17
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.35
Consensus pattern (28 bp):
TATTAAAATTATATAAAATCATAAAAAG
Found at i:5299977 original size:37 final size:37
Alignment explanation
Indices: 5299936--5300008 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
5299926 TAAAAAAACA
* * *
5299936 TATTAAATTTCTATAAAATCATAAAAAGTATTAAAAT
1 TATTAAAATTATATAAAATCATAAAAAGTATAAAAAT
* *
5299973 TATTAAAATTATATAAAATTATAAAAATTATAAAAA
1 TATTAAAATTATATAAAATCATAAAAAGTATAAAAA
5300009 AATCATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (37 bp):
TATTAAAATTATATAAAATCATAAAAAGTATAAAAAT
Found at i:5300019 original size:9 final size:9
Alignment explanation
Indices: 5299950--5300008 Score: 73
Period size: 9 Copynumber: 6.4 Consensus size: 9
5299940 AAATTTCTAT
*
5299950 AAAATCATA
1 AAAATTATA
* *
5299959 AAAAGTATT
1 AAAATTATA
*
5299968 AAAATTATT
1 AAAATTATA
5299977 AAAATTATA
1 AAAATTATA
5299986 TAAAATTATA
1 -AAAATTATA
5299996 AAAATTATA
1 AAAATTATA
5300005 AAAA
1 AAAA
5300009 AATCATAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
9 35 0.80
10 9 0.20
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAATTATA
Found at i:5300569 original size:9 final size:9
Alignment explanation
Indices: 5300492--5300612 Score: 67
Period size: 9 Copynumber: 13.6 Consensus size: 9
5300482 CTTCTAATAC
5300492 ATTTTT-TA
1 ATTTTTATA
*
5300500 AGTTTTACTA
1 ATTTTTA-TA
5300510 A-TTTTAT-
1 ATTTTTATA
*
5300517 TTTTTTATA
1 ATTTTTATA
5300526 ATTTATTAT-
1 ATTT-TTATA
5300535 ATTTTTATA
1 ATTTTTATA
* *
5300544 ATATTTACA
1 ATTTTTATA
5300553 AGTTTTTTTATA
1 A---TTTTTATA
*
5300565 ATTTTAATAA
1 ATTTTTAT-A
*
5300575 ATTTTTATT
1 ATTTTTATA
*
5300584 CTTTTTA-A
1 ATTTTTATA
5300592 ATTTTTAT-
1 ATTTTTATA
*
5300600 -TTTTTACA
1 ATTTTTATA
5300608 ATTTT
1 ATTTT
5300613 AATGAGTTTT
Statistics
Matches: 86, Mismatches: 14, Indels: 25
0.69 0.11 0.20
Matches are distributed among these distances:
7 6 0.07
8 22 0.26
9 36 0.42
10 15 0.17
12 7 0.08
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (9 bp):
ATTTTTATA
Found at i:5300579 original size:21 final size:20
Alignment explanation
Indices: 5300515--5300580 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 20
5300505 TACTAATTTT
*
5300515 ATTTTTTTATAA-TTTAT-T
1 ATTTTTTTATAATTTTATAA
* *
5300533 ATATTTTTATAATATTTACAA
1 ATTTTTTTATAAT-TTTATAA
*
5300554 GTTTTTTTATAATTTTAATAA
1 ATTTTTTTATAATTTT-ATAA
5300575 ATTTTT
1 ATTTTT
5300581 ATTCTTTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
18 11 0.30
20 7 0.19
21 19 0.51
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
ATTTTTTTATAATTTTATAA
Found at i:5300612 original size:16 final size:17
Alignment explanation
Indices: 5300572--5300604 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5300562 ATAATTTTAA
5300572 TAAATTTTTATTCTTTT
1 TAAATTTTTATTCTTTT
5300589 TAAATTTTTATT-TTTT
1 TAAATTTTTATTCTTTT
5300605 ACAATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (17 bp):
TAAATTTTTATTCTTTT
Found at i:5300613 original size:15 final size:15
Alignment explanation
Indices: 5300572--5300612 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 15
5300562 ATAATTTTAA
5300572 TAAATTTTTATTCTTTT
1 TAAATTTTTA-T-TTTT
5300589 TAAATTTTTATTTTT
1 TAAATTTTTATTTTT
5300604 TACAATTTT
1 TA-AATTTT
5300613 AATGAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.26
16 7 0.30
17 10 0.43
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (15 bp):
TAAATTTTTATTTTT
Found at i:5307637 original size:25 final size:26
Alignment explanation
Indices: 5307609--5307660 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
5307599 AAAGCTAAAG
5307609 ATAATA-ATTT-AAATAATTAAT-TTTT
1 ATAATATATTTCAAA-AA-TAATATTTT
5307634 ATAATATATTTCAAAAATAATATTTT
1 ATAATATATTTCAAAAATAATATTTT
5307660 A
1 A
5307661 AAAAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 10 0.42
26 11 0.46
27 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
ATAATATATTTCAAAAATAATATTTT
Found at i:5307666 original size:15 final size:16
Alignment explanation
Indices: 5307634--5307668 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
5307624 ATTAATTTTT
*
5307634 ATAATATATTTCAAAA
1 ATAATATATTTAAAAA
5307650 ATAATAT-TTTAAAAA
1 ATAATATATTTAAAAA
5307665 ATAA
1 ATAA
5307669 AATTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAATATATTTAAAAA
Found at i:5307819 original size:15 final size:15
Alignment explanation
Indices: 5307799--5307828 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5307789 AATAATTAAA
5307799 GTTACATTTGGTTTC
1 GTTACATTTGGTTTC
5307814 GTTACATTTGGTTTC
1 GTTACATTTGGTTTC
5307829 AAGGAACAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.20, T:0.53
Consensus pattern (15 bp):
GTTACATTTGGTTTC
Found at i:5317072 original size:3 final size:3
Alignment explanation
Indices: 5317064--5317092 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
5317054 TATCAAAATG
5317064 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
5317093 AAAATTAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:5324325 original size:11 final size:12
Alignment explanation
Indices: 5324311--5324348 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
5324301 ACAAAGCGAA
5324311 GAAAAAGAAA-T
1 GAAAAAGAAATT
*
5324322 GAAAAAAAAATT
1 GAAAAAGAAATT
*
5324334 GAAAAAGAACTT
1 GAAAAAGAAATT
5324346 GAA
1 GAA
5324349 TAGAAGAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.68, C:0.03, G:0.16, T:0.13
Consensus pattern (12 bp):
GAAAAAGAAATT
Found at i:5327413 original size:24 final size:23
Alignment explanation
Indices: 5327352--5327418 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
5327342 GATGAAATCG
5327352 AGGGTGGAGATGAAAATGAAGACA
1 AGGGTGGAGATGAAAATG-AGACA
** *
5327376 ATTGTAGAGATGAAAATGAGTACA
1 AGGGTGGAGATGAAAATGAG-ACA
* *
5327400 AGGGTGGAGGTGAAGATGA
1 AGGGTGGAGATGAAAATGA
5327419 AGAAGATGAT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
23 2 0.06
24 32 0.94
ACGTcount: A:0.42, C:0.03, G:0.37, T:0.18
Consensus pattern (23 bp):
AGGGTGGAGATGAAAATGAGACA
Found at i:5328562 original size:31 final size:31
Alignment explanation
Indices: 5328519--5328587 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
5328509 AAACCCTAAA
* *
5328519 AACCC-AACCCTAACAAAAATGAAAAACCCT
1 AACCCTAACCCTAACAAAAATAAAAAACCAT
*
5328549 AACTCTAACCCTAACAAAAATAAAAAACCAT
1 AACCCTAACCCTAACAAAAATAAAAAACCAT
5328580 AACCCTAA
1 AACCCTAA
5328588 GAGAGAGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 4 0.12
31 30 0.88
ACGTcount: A:0.55, C:0.30, G:0.01, T:0.13
Consensus pattern (31 bp):
AACCCTAACCCTAACAAAAATAAAAAACCAT
Found at i:5336729 original size:23 final size:23
Alignment explanation
Indices: 5336703--5336800 Score: 69
Period size: 23 Copynumber: 4.2 Consensus size: 23
5336693 AATGAAGCTT
5336703 AATTATTAGTATTATTTTATTTG
1 AATTATTAGTATTATTTTATTTG
* * * *
5336726 AATTTATATGGT-TTA-ATTAATAG
1 AA-TTAT-TAGTATTATTTTATTTG
*
5336749 AATATATTTAGTGTTAATTGTTA-TT-
1 AAT-TA-TTAGTATT-ATT-TTATTTG
5336774 AATTATTAGTATTATTTTATTTG
1 AATTATTAGTATTATTTTATTTG
5336797 AATT
1 AATT
5336801 TATATGGTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 20
0.67 0.09 0.24
Matches are distributed among these distances:
21 3 0.05
22 6 0.11
23 25 0.44
24 12 0.21
25 7 0.12
26 1 0.02
27 3 0.05
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (23 bp):
AATTATTAGTATTATTTTATTTG
Found at i:5336744 original size:37 final size:37
Alignment explanation
Indices: 5336701--5336815 Score: 132
Period size: 37 Copynumber: 3.2 Consensus size: 37
5336691 TTAATGAAGC
5336701 TTAATTATTAGTATTATTTTATTTGAATTTATATGGT
1 TTAATTATTAGTATTATTTTATTTGAATTTATATGGT
* * * * *
5336738 TTAATTAATAG-AATATATTTA-GTG--TTAAT-TGTT
1 TTAATTATTAGTATTAT-TTTATTTGAATTTATATGGT
5336771 ATTAATTATTAGTATTATTTTATTTGAATTTATATGGT
1 -TTAATTATTAGTATTATTTTATTTGAATTTATATGGT
5336809 TTAATTA
1 TTAATTA
5336816 ATAGAATATA
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
33 3 0.05
34 18 0.30
35 6 0.10
36 6 0.10
37 25 0.41
38 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (37 bp):
TTAATTATTAGTATTATTTTATTTGAATTTATATGGT
Found at i:5336778 original size:34 final size:34
Alignment explanation
Indices: 5336738--5336844 Score: 110
Period size: 34 Copynumber: 3.1 Consensus size: 34
5336728 TTTATATGGT
5336738 TTAATTAATAGAATATATTTAGTGTTAATTGTTA
1 TTAATTAATAGAATATATTTAGTGTTAATTGTTA
* * * * *
5336772 TTAATTATTAGTAT-TATTTTATTTGAATTTATATGGT-
1 TTAATTAATAGAATATA-TTTA-GTG--TTAAT-TGTTA
5336809 TTAATTAATAGAATATATTTAGTGTTAATTGTTA
1 TTAATTAATAGAATATATTTAGTGTTAATTGTTA
5336843 TT
1 TT
5336845 TTATTTAGAC
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
33 5 0.09
34 22 0.39
35 2 0.04
36 2 0.04
37 20 0.36
38 5 0.09
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (34 bp):
TTAATTAATAGAATATATTTAGTGTTAATTGTTA
Found at i:5336799 original size:71 final size:71
Alignment explanation
Indices: 5336701--5336844 Score: 288
Period size: 71 Copynumber: 2.0 Consensus size: 71
5336691 TTAATGAAGC
5336701 TTAATTATTAGTATTATTTTATTTGAATTTATATGGTTTAATTAATAGAATATATTTAGTGTTAA
1 TTAATTATTAGTATTATTTTATTTGAATTTATATGGTTTAATTAATAGAATATATTTAGTGTTAA
5336766 TTGTTA
66 TTGTTA
5336772 TTAATTATTAGTATTATTTTATTTGAATTTATATGGTTTAATTAATAGAATATATTTAGTGTTAA
1 TTAATTATTAGTATTATTTTATTTGAATTTATATGGTTTAATTAATAGAATATATTTAGTGTTAA
5336837 TTGTTA
66 TTGTTA
5336843 TT
1 TT
5336845 TTATTTAGAC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (71 bp):
TTAATTATTAGTATTATTTTATTTGAATTTATATGGTTTAATTAATAGAATATATTTAGTGTTAA
TTGTTA
Found at i:5336822 original size:23 final size:24
Alignment explanation
Indices: 5336725--5336838 Score: 56
Period size: 23 Copynumber: 4.8 Consensus size: 24
5336715 TATTTTATTT
*
5336725 GAATTTATATGGT-TTAATTAATA
1 GAATTTATATAGTATTAATTAATA
* * * **
5336748 GAATATATTTAGTGTTAATTGTTA
1 GAATTTATATAGTATTAATTAATA
* * * *
5336772 TTAA-TTAT-TAGTATTATTTTATTT
1 -GAATTTATATAGTATTA-ATTAATA
*
5336796 GAATTTATATGGT-TTAATTAATA
1 GAATTTATATAGTATTAATTAATA
* * *
5336819 GAATATATTTAGTGTTAATT
1 GAATTTATATAGTATTAATT
5336839 GTTATTTTAT
Statistics
Matches: 66, Mismatches: 19, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
23 33 0.50
24 28 0.42
25 5 0.08
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (24 bp):
GAATTTATATAGTATTAATTAATA
Found at i:5336837 original size:24 final size:24
Alignment explanation
Indices: 5336738--5336838 Score: 73
Period size: 23 Copynumber: 4.2 Consensus size: 24
5336728 TTTATATGGT
5336738 TTAATTAATAGAATATATTTAGTG
1 TTAATTAATAGAATATATTTAGTG
** * *
5336762 TTAATTGTTATTAAT-TA-TTAGTA
1 TTAATTAATA-GAATATATTTAGTG
* * * * * *
5336785 TTATTTTATTTGAATTTATATGGT-
1 TTA-ATTAATAGAATATATTTAGTG
5336809 TTAATTAATAGAATATATTTAGTG
1 TTAATTAATAGAATATATTTAGTG
5336833 TTAATT
1 TTAATT
5336839 GTTATTTTAT
Statistics
Matches: 56, Mismatches: 16, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
23 25 0.45
24 25 0.45
25 6 0.11
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (24 bp):
TTAATTAATAGAATATATTTAGTG
Found at i:5338617 original size:29 final size:28
Alignment explanation
Indices: 5338573--5338663 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 28
5338563 ATAATTTTGC
* * *
5338573 ATAAATTAAATTAAATTAATATTTCATGT
1 ATAAATTAAATAAAATCAA-AATTCATGT
*
5338602 ATAAATTATATAAAATCAAAATTCATGT
1 ATAAATTAAATAAAATCAAAATTCATGT
** *
5338630 ATAACATTACACATTGAACCAAAATTCATGT
1 ATAA-ATTA-A-ATAAAATCAAAATTCATGT
5338661 ATA
1 ATA
5338664 GATGAAATCT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
28 12 0.24
29 20 0.39
31 19 0.37
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.36
Consensus pattern (28 bp):
ATAAATTAAATAAAATCAAAATTCATGT
Found at i:5339708 original size:52 final size:53
Alignment explanation
Indices: 5339618--5339720 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 53
5339608 TTACCGATTC
*
5339618 TCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGTCATTTGTTGTGGTTTTTAA
1 TCTCTCTCGATCTCTTTTTTCATTTTTTCCCTGTCATTTGTTGTGGTTTTTAA
*
5339671 TCTCTCTCGATCTTTTTTTTCA-TTTTTCCCTGTCATTTGTTGTGGTTTTT
1 TCTCTCTCGATCTCTTTTTTCATTTTTTCCCTGTCATTTGTTGTGGTTTTT
5339721 GAAATCCACT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 28 0.58
53 20 0.42
ACGTcount: A:0.07, C:0.20, G:0.13, T:0.60
Consensus pattern (53 bp):
TCTCTCTCGATCTCTTTTTTCATTTTTTCCCTGTCATTTGTTGTGGTTTTTAA
Found at i:5344192 original size:47 final size:47
Alignment explanation
Indices: 5344139--5344374 Score: 208
Period size: 47 Copynumber: 5.1 Consensus size: 47
5344129 TCATATAAGA
*
5344139 ATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
* ** *
5344186 ATATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA-A
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATT
* *
5344231 AT-TTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
* **
5344277 ATATTTAATATTAATTA-TTT-T-AAATTATATA-AATTTATATAAGA--
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAA-TTAT-TAA-ATT
* * * *
5344321 AAATTTATTCTCAAGAATTTTATGAAATTATATATTATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
5344368 ATATTTA
1 ATATTTA
5344375 ATAATAATTA
Statistics
Matches: 147, Mismatches: 24, Indels: 36
0.71 0.12 0.17
Matches are distributed among these distances:
43 4 0.03
44 47 0.32
45 18 0.12
46 18 0.12
47 56 0.38
48 4 0.03
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (47 bp):
ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
Found at i:5344238 original size:91 final size:91
Alignment explanation
Indices: 5344124--5344498 Score: 484
Period size: 91 Copynumber: 4.0 Consensus size: 91
5344114 ATGATTTCAG
*
5344124 TAAATTCATATAAG-AATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAAAT-TTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
*
5344188 ATTTAATATTAATTATTTTAAATTATA
65 ATTTAATAATAATTATTTTAAATTATA
5344215 TAAATTCATATAAGAAATTTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAATTTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
5344280 TTTAATATTAATTATTTTAAATTATA
66 TTTAATAATAATTATTTTAAATTATA
* * * *
5344306 TAAATTTATATAAGAAAATTTATTCTCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAATTTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
5344371 TTTAATAATAATTATATTAAATTATA
66 TTTAATAATAATTATTTTAAATTATA
* * * * * *
5344397 CAAATTCATATAAGAAAAATTATTACTAATAATTAATTTAAATTTTATTAAATCATATAT-TTTA
1 TAAATTCATATAAG--AAATT-TTA-T--T-ATCAA---GAATTTTATGAAATTATATATCATT-
* *
5344461 ATTAAAATATATTTAATAATAATTATTTCAAATTATA
55 ATTAAATTATATTTAATAATAATTATTTTAAATTATA
5344498 T
1 T
5344499 TTTATATTAT
Statistics
Matches: 252, Mismatches: 20, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
91 183 0.73
92 3 0.01
93 4 0.02
94 3 0.01
95 1 0.00
97 1 0.00
98 3 0.01
100 2 0.01
101 52 0.21
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAATTTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATAATAATTATTTTAAATTATA
Found at i:5344250 original size:44 final size:44
Alignment explanation
Indices: 5344124--5344430 Score: 157
Period size: 44 Copynumber: 6.8 Consensus size: 44
5344114 ATGATTTCAG
5344124 TAAATTCATATAAG-AATATTTATTATTAAGAATTTTATGAAATTATA
1 TAAATT-ATATAAGAAATATTTATTATTAAGAA-TTT-T-AAATTATA
* * * **
5344171 TATCATTAT-TAA-ATTATATTTAATATTAATTATTTTAAATTATA
1 TA-AATTATATAAGA-AATATTTATTATTAAGAATTTTAAATTATA
*
5344215 TAAATTCATATAAGAAAT-TTTATTATCAAGAATTTTATGAAATTATA
1 TAAATT-ATATAAGAAATATTTATTATTAAGAA-TTT-T-AAATTATA
* * * **
5344262 TATCATTAT-TAA-ATTATATTTAATATTAATTATTTTAAATTATA
1 TA-AATTATATAAGA-AATATTTATTATTAAGAATTTTAAATTATA
* *
5344306 TAAATTTATATAAGAAA-ATTTATTCTCAAGAATTTTATGAAATTATA
1 TAAA-TTATATAAGAAATATTTATTATTAAGAA-TTT-T-AAATTATA
* * * * ** *
5344353 TATTATTAT-TAA-ATTATATTTAATAATAATTATATTAAATTATA
1 TA-AATTATATAAGA-AATATTTATTATTAAGAATTTTAAATTATA
* * * *
5344397 CAAATTCATATAAGAAA-AATTATTACTAATAATT
1 TAAATT-ATATAAGAAATATTTATTATTAAGAATT
5344431 AATTTAAATT
Statistics
Matches: 195, Mismatches: 41, Indels: 51
0.68 0.14 0.18
Matches are distributed among these distances:
43 7 0.04
44 69 0.35
45 24 0.12
46 25 0.13
47 63 0.32
48 7 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (44 bp):
TAAATTATATAAGAAATATTTATTATTAAGAATTTTAAATTATA
Found at i:5344513 original size:59 final size:58
Alignment explanation
Indices: 5344448--5344732 Score: 182
Period size: 61 Copynumber: 4.8 Consensus size: 58
5344438 ATTTTATTAA
5344448 ATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATATT
1 ATCATATATTTTAATTAAAATATATTTAATAATAATTATTT-AAATTATATTTTATATT
* * ** * * * * * * * *
5344507 ATCATATATTATGATTTTAGTAAATTCATATAAGAA-TATTGATTATTAAGAATTTTAT-TAA
1 ATCATATATTTTAATTAAAATATATTTA-ATAATAATTATTTA-AATT-A-TATTTTATAT-T
* *
5344568 ATCATGTATTTTAATTAAAATATATTTAATAATAATTATCTTAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAATTATATTTTATATT
* * ** * * * * * * * *
5344627 ATCATATATTATGATTTGAGTAAATTCATATAAGAA-TATTGATTATTAAGAATTTTAT-TAA
1 ATCATATATTTTAATTAAAATATATTTA-ATAATAATTATTTA-AATT-A-TATTTTATAT-T
*
5344688 ATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAA
5344733 ATATGATTAA
Statistics
Matches: 160, Mismatches: 51, Indels: 28
0.67 0.21 0.12
Matches are distributed among these distances:
58 3 0.02
59 61 0.38
60 28 0.17
61 64 0.40
62 4 0.03
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (58 bp):
ATCATATATTTTAATTAAAATATATTTAATAATAATTATTTAAATTATATTTTATATT
Found at i:5344571 original size:120 final size:120
Alignment explanation
Indices: 5344437--5344732 Score: 531
Period size: 120 Copynumber: 2.5 Consensus size: 120
5344427 AATTAATTTA
5344437 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTT-AAATTATATTT
* *
5344501 TATATTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
5344557 AATTTTATTAAATCATGTATTTTAATTAAAATATATTTAATAATAATTATCTTAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAATTATATTTT
5344622 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
5344677 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAA
5344733 ATATGATTAA
Statistics
Matches: 169, Mismatches: 6, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
120 167 0.99
121 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:5344706 original size:18 final size:17
Alignment explanation
Indices: 5344678--5344712 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5344668 ATTATTAAGA
*
5344678 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5344695 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5344713 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5344961 original size:45 final size:44
Alignment explanation
Indices: 5344870--5344967 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 44
5344860 TTATTACACC
* *
5344870 TCCATTCCATTCAACCAAACACAAGAATACTATTATGCCTATAT
1 TCCATTACATTCAACCAAACACAAGAATACTATTACGCCTATAT
** *
5344914 TCCATTACATTCAACCAAACA-ATTAATTTACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACACAAGAA--TACTATTACGCCTATAT
5344959 TCCATTACA
1 TCCATTACA
5344968 GTGAACTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
43 3 0.06
44 20 0.43
45 24 0.51
ACGTcount: A:0.37, C:0.28, G:0.03, T:0.33
Consensus pattern (44 bp):
TCCATTACATTCAACCAAACACAAGAATACTATTACGCCTATAT
Found at i:5348365 original size:14 final size:14
Alignment explanation
Indices: 5348320--5348366 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
5348310 GATATTACTG
5348320 CACTTCGATGGCTT
1 CACTTCGATGGCTT
*
5348334 CACTTTCAGA-GG-TG
1 CAC-TTC-GATGGCTT
5348348 CACTTCGATGGCTT
1 CACTTCGATGGCTT
5348362 CACTT
1 CACTT
5348367 TGCTCGTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
12 2 0.07
13 5 0.19
14 13 0.48
15 5 0.19
16 2 0.07
ACGTcount: A:0.17, C:0.28, G:0.21, T:0.34
Consensus pattern (14 bp):
CACTTCGATGGCTT
Found at i:5350509 original size:11 final size:11
Alignment explanation
Indices: 5350495--5350526 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
5350485 TATGTTTGAC
5350495 ATAATAGTTTT
1 ATAATAGTTTT
5350506 ATAATAG-TTT
1 ATAATAGTTTT
5350516 ATAATAGTTTT
1 ATAATAGTTTT
5350527 CTTTTGCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (11 bp):
ATAATAGTTTT
Found at i:5351052 original size:28 final size:27
Alignment explanation
Indices: 5351007--5351059 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
5350997 CAAATGCCTA
*
5351007 TTTTTGTAATTATTTTATTTTCTATACC
1 TTTTTGTAATTATATTATTTT-TATACC
5351035 TTTTTCGTAATTA-ATTATTTTTATA
1 TTTTT-GTAATTATATTATTTTTATA
5351060 TTATTTGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 12 0.52
29 7 0.30
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.64
Consensus pattern (27 bp):
TTTTTGTAATTATATTATTTTTATACC
Found at i:5354819 original size:28 final size:27
Alignment explanation
Indices: 5354736--5354820 Score: 66
Period size: 28 Copynumber: 3.0 Consensus size: 27
5354726 TATTAAGTTA
*
5354736 TTTAAATATGATTTATTATTATATTTTAAAT
1 TTTAAATA--ATTTATTAAT-TA-TTTAAAT
* *
5354767 TTTAAATTATTTCATGT-A-TAATTAAAT
1 TTTAAATAATTT-AT-TAATTATTTAAAT
5354794 TTATAAATAATTTATTAATTATTTAAA
1 TT-TAAATAATTTATTAATTATTTAAA
5354821 ATGTATATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
26 1 0.02
27 11 0.25
28 18 0.41
29 4 0.09
30 2 0.05
31 8 0.18
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (27 bp):
TTTAAATAATTTATTAATTATTTAAAT
Found at i:5379912 original size:16 final size:16
Alignment explanation
Indices: 5379891--5379924 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
5379881 AACTTAAAAG
5379891 TTAAAACTAATTGTTA
1 TTAAAACTAATTGTTA
*
5379907 TTAAAATTAATTGTTA
1 TTAAAACTAATTGTTA
5379923 TT
1 TT
5379925 GAATTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
TTAAAACTAATTGTTA
Found at i:5385147 original size:30 final size:29
Alignment explanation
Indices: 5385085--5385147 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
5385075 TCTAATATGT
* * *
5385085 AATTTTATACGTAAACTTTGATTTTGTAC
1 AATTTTATACATAAAATTTGATTTTATAC
*
5385114 AATTTTATACATGAAAATTTGATTTTATCC
1 AATTTTATACAT-AAAATTTGATTTTATAC
5385144 AATT
1 AATT
5385148 CTCACAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.48
Consensus pattern (29 bp):
AATTTTATACATAAAATTTGATTTTATAC
Found at i:5385334 original size:29 final size:31
Alignment explanation
Indices: 5385281--5385359 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
5385271 GGTTTAACCA
*
5385281 AAATTAAAGTTTCATGT-GCATAATTG-CACT
1 AAATTAAAG-TTCATGTATCATAATTGACACT
*
5385311 AAATTAAAGTTCATGTATCA-AATTGTACATT
1 AAATTAAAGTTCATGTATCATAATTG-ACACT
* *
5385342 TAATAAAAGTTCATGTAT
1 AAATTAAAGTTCATGTAT
5385360 AATTTTGAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 12 0.29
30 11 0.26
31 19 0.45
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (31 bp):
AAATTAAAGTTCATGTATCATAATTGACACT
Found at i:5386741 original size:124 final size:126
Alignment explanation
Indices: 5386557--5386805 Score: 394
Period size: 124 Copynumber: 2.0 Consensus size: 126
5386547 AGGGTTTTTA
* * *
5386557 GGTCTTGGAAGAAATAATTTTGAGTTGACGTTTCTGATCAAATAGTATAAAATCGTTTCTAGCAG
1 GGTCATGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAG
* *
5386622 GATGCTATTTGAGAAGAATTTTTG-AAATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTC
66 GATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTC
* ** *
5386682 GGTCATGGAAGAAATACTTTT-TTTTGACGTTTCTGAGCAAATAGTATAAAATTGCTTCTAGCAG
1 GGTCATGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAG
*
5386746 GATGCTATTTGAGAAGAATTTGTGAAAATCGCGCTCTCGTGGACGCGCTTTTGCTACAGT
66 GATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
5386806 AGCATGTTTA
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
124 61 0.54
125 52 0.46
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.34
Consensus pattern (126 bp):
GGTCATGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAG
GATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTC
Found at i:5388521 original size:11 final size:11
Alignment explanation
Indices: 5388505--5388533 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
5388495 AAAAAGGGAG
5388505 TTAAGAGGAAC
1 TTAAGAGGAAC
5388516 TTAAGAGGAAC
1 TTAAGAGGAAC
5388527 TTAAGAG
1 TTAAGAG
5388534 AATTTTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.07, G:0.28, T:0.21
Consensus pattern (11 bp):
TTAAGAGGAAC
Found at i:5392836 original size:58 final size:59
Alignment explanation
Indices: 5392774--5392918 Score: 151
Period size: 58 Copynumber: 2.5 Consensus size: 59
5392764 GTTAGAATAT
** *
5392774 TAATTCTATTATATATTTATCTATTCTATTAT-ATATATTCTAATA-TATATTAGTATTA
1 TAATT-TATTATATATTTATCTATTCTATTATAATATATTAAAATATTATATTAATATTA
*
5392832 TAATTTATTTATATATTTAT-TAATT-TATTTATAATATATTAAAATATTATGTTAATATTA
1 TAATTTA-TTATATATTTATCT-ATTCTA-TTATAATATATTAAAATATTATATTAATATTA
*
5392892 T-TTTTA-TAT-TATTTATCTATTTCTATT
1 TAATTTATTATATATTTATCTA-TTCTATT
5392919 TCATTTATTT
Statistics
Matches: 74, Mismatches: 5, Indels: 17
0.77 0.05 0.18
Matches are distributed among these distances:
56 8 0.11
57 13 0.18
58 26 0.35
59 15 0.20
60 12 0.16
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (59 bp):
TAATTTATTATATATTTATCTATTCTATTATAATATATTAAAATATTATATTAATATTA
Found at i:5392857 original size:20 final size:20
Alignment explanation
Indices: 5392771--5392873 Score: 69
Period size: 20 Copynumber: 5.3 Consensus size: 20
5392761 GATGTTAGAA
5392771 TATTAATTCTA-TTATATATT
1 TATTAATT-TATTTATATATT
5392791 TATCT-ATTCTA-TTATATATAT
1 TAT-TAATT-TATTTATATAT-T
* * *
5392812 T-CTAATATATATTA-GTA-T
1 TATTAATTTAT-TTATATATT
5392830 TA-TAATTTATTTATATATT
1 TATTAATTTATTTATATATT
*
5392849 TATTAATTTATTTATA-ATA
1 TATTAATTTATTTATATATT
5392868 TATTAA
1 TATTAA
5392874 AATATTATGT
Statistics
Matches: 68, Mismatches: 6, Indels: 19
0.73 0.06 0.20
Matches are distributed among these distances:
17 3 0.04
18 11 0.16
19 14 0.21
20 34 0.50
21 6 0.09
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (20 bp):
TATTAATTTATTTATATATT
Found at i:5392879 original size:19 final size:20
Alignment explanation
Indices: 5392837--5392879 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
5392827 TATTATAATT
* **
5392837 TATTTATATATTTATTAATT
1 TATTTATATATATATTAAAA
5392857 TATTTATA-ATATATTAAAA
1 TATTTATATATATATTAAAA
5392876 TATT
1 TATT
5392880 ATGTTAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTTATATATATATTAAAA
Found at i:5392912 original size:11 final size:11
Alignment explanation
Indices: 5392817--5392912 Score: 60
Period size: 11 Copynumber: 8.7 Consensus size: 11
5392807 TATATTCTAA
5392817 TATATATTAGTAT
1 TATATATTA-T-T
5392830 TATA-ATTTATT
1 TATATA-TTATT
5392841 TATATATT-TAT
1 TATATATTAT-T
5392852 TA-AT-TTATT
1 TATATATTATT
5392861 TATA-ATATATT
1 TATATAT-TATT
* *
5392872 AAAATATTATGT
1 TATATATTAT-T
5392884 TA-ATATTATT
1 TATATATTATT
*
5392894 TTTATATTATT
1 TATATATTATT
*
5392905 TATCTATT
1 TATATATT
5392913 TCTATTTCAT
Statistics
Matches: 67, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
9 5 0.07
10 8 0.12
11 40 0.60
12 7 0.10
13 7 0.10
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (11 bp):
TATATATTATT
Found at i:5393655 original size:16 final size:15
Alignment explanation
Indices: 5393625--5393659 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5393615 TTCTATTGTT
5393625 TATATTTTTTATAGA
1 TATATTTTTTATAGA
*
5393640 TATATTTTTATCTAGA
1 TATATTTTT-TATAGA
5393656 TATA
1 TATA
5393660 CAAGATCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (15 bp):
TATATTTTTTATAGA
Found at i:5395179 original size:23 final size:23
Alignment explanation
Indices: 5395144--5395265 Score: 154
Period size: 23 Copynumber: 5.3 Consensus size: 23
5395134 AGTGTTATTG
*
5395144 ATCAATGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTTGGCTACAT
* *
5395167 TTCAGTGGTAGCTATGGCTACAT
1 ATCAGTGGTAGCTTTGGCTACAT
5395190 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTTGGCTACAT
* ** * *
5395213 TTCAGTGGTAGCTACGTCTACGT
1 ATCAGTGGTAGCTTTGGCTACAT
* *
5395236 ATCAGTAGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTTGGCTACAT
5395259 ATCAGTG
1 ATCAGTG
5395266 TGGCACTTAT
Statistics
Matches: 83, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 83 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (23 bp):
ATCAGTGGTAGCTTTGGCTACAT
Found at i:5395201 original size:46 final size:46
Alignment explanation
Indices: 5395144--5395265 Score: 181
Period size: 46 Copynumber: 2.7 Consensus size: 46
5395134 AGTGTTATTG
* *
5395144 ATCAATGGTAGCTTTGGCTACATTTCAGTGGTAGCTATGGCTACAT
1 ATCAGTGGTAGCTTTGGCTACATTTCAGTGGTAGCTACGGCTACAT
* *
5395190 ATCAGTGGTAGCTTTGGCTACATTTCAGTGGTAGCTACGTCTACGT
1 ATCAGTGGTAGCTTTGGCTACATTTCAGTGGTAGCTACGGCTACAT
* * *
5395236 ATCAGTAGTAGCTTCGGCTACATATCAGTG
1 ATCAGTGGTAGCTTTGGCTACATTTCAGTG
5395266 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (46 bp):
ATCAGTGGTAGCTTTGGCTACATTTCAGTGGTAGCTACGGCTACAT
Found at i:5397026 original size:46 final size:46
Alignment explanation
Indices: 5396928--5397106 Score: 301
Period size: 46 Copynumber: 4.0 Consensus size: 46
5396918 TACGTATGAT
* * *
5396928 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTCGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
5396971 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
5397017 CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
5397063 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
5397107 TGATCAGATA
Statistics
Matches: 128, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
43 10 0.08
44 5 0.04
45 19 0.15
46 94 0.73
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:5397114 original size:25 final size:25
Alignment explanation
Indices: 5397080--5397131 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
5397070 CACTTTGTCA
5397080 CTTGATCAGATAAGTGTAGCTAAAG
1 CTTGATCAGATAAGTGTAGCTAAAG
5397105 CTTGATCAGATAAGTGTAGCTAAAG
1 CTTGATCAGATAAGTGTAGCTAAAG
5397130 CT
1 CT
5397132 ATCACTTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (25 bp):
CTTGATCAGATAAGTGTAGCTAAAG
Found at i:5397138 original size:71 final size:71
Alignment explanation
Indices: 5397034--5397177 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 71
5397024 CACTTTGTTA
5397034 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
5397099 CTAAAG
66 CTAAAG
*
5397105 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
5397170 CTAAAG
66 CTAAAG
5397176 CT
1 CT
5397178 ACCAATTATC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (71 bp):
CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
CTAAAG
Found at i:5397172 original size:46 final size:46
Alignment explanation
Indices: 5397105--5397269 Score: 303
Period size: 46 Copynumber: 3.6 Consensus size: 46
5397095 GTAGCTAAAG
*
5397105 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCA
1 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCA
* *
5397151 CTTGATCAGATAAGTGTAGCTAAAGCTACCAATTATCACTTTGTCT
1 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCA
5397197 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCA
1 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCA
5397243 CTTGATCAGATAAGTGTAGCTAAAGCT
1 CTTGATCAGATAAGTGTAGCTAAAGCT
5397270 TGATCAGATA
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 114 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (46 bp):
CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCA
Found at i:5397194 original size:117 final size:117
Alignment explanation
Indices: 5396988--5397223 Score: 436
Period size: 117 Copynumber: 2.0 Consensus size: 117
5396978 CACTTTGTCA
*
5396988 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTTACTTGATCAGATAAGTGTAG
1 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
*
5397053 CTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
66 CTAAAGCTACCAATTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
*
5397105 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
*
5397170 CTAAAGCTACCAATTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAG
66 CTAAAGCTACCAATTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
5397222 CT
1 CT
5397224 ACCACTTATC
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 115 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (117 bp):
CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
CTAAAGCTACCAATTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
Found at i:5397214 original size:163 final size:163
Alignment explanation
Indices: 5396945--5397412 Score: 870
Period size: 163 Copynumber: 2.9 Consensus size: 163
5396935 CACTTGTCCC
* * *
5396945 TGATCAGATAAGTGTCGCT-AGGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT
1 TGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT
*
5397009 AAAGCTACCACTTATCACTTTGT-TACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
66 AAAGCTACCAATTATCACTTTGTCT-CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
5397073 TTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
130 TTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
5397107 TGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT
1 TGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT
5397172 AAAGCTACCAATTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACT
66 AAAGCTACCAATTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACT
5397237 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
131 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
5397270 TGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT
1 TGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT
5397335 AAAGCTACCAATTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACT
66 AAAGCTACCAATTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACT
5397400 TTGTCAC-TGATCA
131 TTGTCACTTGATCA
5397413 TAAGTATTCA
Statistics
Matches: 300, Mismatches: 4, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
162 24 0.08
163 275 0.92
164 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (163 bp):
TGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT
AAAGCTACCAATTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACT
TTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
Found at i:5397272 original size:117 final size:117
Alignment explanation
Indices: 5397034--5397386 Score: 429
Period size: 117 Copynumber: 3.0 Consensus size: 117
5397024 CACTTTGTTA
*
5397034 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CTTGATCAGATAAGTGTAGCTAAAGCTACCAATTATCACTTTGTCACTTGATCAGATAAGTGTAG
* * * * * * *
5397099 CTAAAGCTTGATCAGATAAGTGTAGCTAAAGCTATCACTT-ATCA-CT---T-T-G-T-CA-
66 CTAAAGC-T-ACCA-ATTA-T-CA-CT----TTGTCACTTGATCAGATAAGTGTAGCTAAAG
*
5397151 CTTGATCAGATAAGTGTAGCTAAAGCTACCAATTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 CTTGATCAGATAAGTGTAGCTAAAGCTACCAATTATCACTTTGTCACTTGATCAGATAAGTGTAG
*
5397216 CTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
66 CTAAAGCTACCAATTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
* *
5397268 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CTTGATCAGATAAGTGTAGCTAAAGCTACCAATTATCACTTTGTCACTTGATCAGATAAGTGTAG
*
5397333 CTAAAGCTACCAATTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAG
66 CTAAAGCTACCAATTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
5397385 CT
1 CT
5397387 ACCACTTATC
Statistics
Matches: 211, Mismatches: 15, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
107 7 0.03
108 4 0.02
109 1 0.00
111 2 0.01
112 2 0.01
113 2 0.01
114 3 0.01
115 4 0.02
116 2 0.01
117 184 0.87
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (117 bp):
CTTGATCAGATAAGTGTAGCTAAAGCTACCAATTATCACTTTGTCACTTGATCAGATAAGTGTAG
CTAAAGCTACCAATTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
Found at i:5397277 original size:25 final size:25
Alignment explanation
Indices: 5397243--5397294 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
5397233 CACTTTGTCA
5397243 CTTGATCAGATAAGTGTAGCTAAAG
1 CTTGATCAGATAAGTGTAGCTAAAG
5397268 CTTGATCAGATAAGTGTAGCTAAAG
1 CTTGATCAGATAAGTGTAGCTAAAG
5397293 CT
1 CT
5397295 ATCACTTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (25 bp):
CTTGATCAGATAAGTGTAGCTAAAG
Found at i:5397301 original size:71 final size:71
Alignment explanation
Indices: 5397197--5397340 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 71
5397187 CACTTTGTCT
5397197 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
5397262 CTAAAG
66 CTAAAG
*
5397268 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
5397333 CTAAAG
66 CTAAAG
5397339 CT
1 CT
5397341 ACCAATTATC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (71 bp):
CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
CTAAAG
Found at i:5397335 original size:46 final size:46
Alignment explanation
Indices: 5397268--5397412 Score: 256
Period size: 46 Copynumber: 3.2 Consensus size: 46
5397258 GTAGCTAAAG
*
5397268 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCA
1 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCA
* *
5397314 CTTGATCAGATAAGTGTAGCTAAAGCTACCAATTATCACTTTGTCT
1 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCA
5397360 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCA
1 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCA
5397406 C-TGATCA
1 CTTGATCA
5397413 TAAGTATTCA
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
45 6 0.06
46 88 0.94
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (46 bp):
CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCA
Found at i:5409182 original size:23 final size:22
Alignment explanation
Indices: 5409140--5409182 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
5409130 AATAAAAACT
*
5409140 AGTAAAACTATTGTTTTATAAA
1 AGTAAAACTATTGTTATATAAA
5409162 AGTATAAACTTATT-TTATATA
1 AGTA-AAAC-TATTGTTATATA
5409183 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (22 bp):
AGTAAAACTATTGTTATATAAA
Found at i:5412704 original size:30 final size:30
Alignment explanation
Indices: 5412658--5412724 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
5412648 CGTTTAAGAA
* *
5412658 CTTGAGAAGACCCAATAT-CTTGTTCAGGAT
1 CTTGGGAAGACCCAATATGC-CGTTCAGGAT
*
5412688 CTTGGGAAGACTCAATATGCCGTTCAGGAT
1 CTTGGGAAGACCCAATATGCCGTTCAGGAT
*
5412718 TTTGGGA
1 CTTGGGA
5412725 TTAAGAAGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (30 bp):
CTTGGGAAGACCCAATATGCCGTTCAGGAT
Found at i:5412768 original size:66 final size:66
Alignment explanation
Indices: 5412662--5412823 Score: 182
Period size: 66 Copynumber: 2.5 Consensus size: 66
5412652 TAAGAACTTG
** * * * ** *
5412662 AGAAGACCCAATATCTTGTTCAGGATCTTGGGAAGACTCAATA-TGCCGTTCAGGATTTTGGGAT
1 AGAAGACCTGATATCTCGTTCAGGAGCTTGAGAAGACTCAATATTG-CGTTCAGGAGCTTAGGAT
5412726 TA
65 TA
* **
5412728 AGAAGACTTGATATCTCGTTCAGGAGCTTGAGAAGACTCAATATTGCGTTTTGGAGCTTAGGATT
1 AGAAGACCTGATATCTCGTTCAGGAGCTTGAGAAGACTCAATATTGCGTTCAGGAGCTTAGGATT
5412793 A
66 A
* * *
5412794 AGAAGGCCTGATATCTCATTCAGAAGCTTG
1 AGAAGACCTGATATCTCGTTCAGGAGCTTG
5412824 GAAAGATCTA
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
66 78 0.98
67 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (66 bp):
AGAAGACCTGATATCTCGTTCAGGAGCTTGAGAAGACTCAATATTGCGTTCAGGAGCTTAGGATT
A
Found at i:5415570 original size:19 final size:19
Alignment explanation
Indices: 5415533--5415571 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
5415523 TTTTGCTACA
*
5415533 TAGACTAAATCGTAAAAAC
1 TAGACTAAATCGAAAAAAC
5415552 TAGACTAAATC-AAATAAAC
1 TAGACTAAATCGAAA-AAAC
5415571 T
1 T
5415572 TCAAAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (19 bp):
TAGACTAAATCGAAAAAAC
Found at i:5425601 original size:20 final size:22
Alignment explanation
Indices: 5425553--5425602 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
5425543 AAATAAAATT
*
5425553 ACGTAACAAATATATTTATAAA
1 ACGTAAAAAATATATTTATAAA
**
5425575 AATTAAAAAATA-ATTT-TAAA
1 ACGTAAAAAATATATTTATAAA
5425595 ACGTAAAA
1 ACGTAAAA
5425603 GGTTAGACTC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 10 0.43
21 4 0.17
22 9 0.39
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (22 bp):
ACGTAAAAAATATATTTATAAA
Found at i:5427908 original size:16 final size:16
Alignment explanation
Indices: 5427887--5427938 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
5427877 CGGCCAAATT
5427887 TTTATTTAAAGGTAAA
1 TTTATTTAAAGGTAAA
***
5427903 TTTATTT-TTTGT-AA
1 TTTATTTAAAGGTAAA
5427917 -TTATTTAAAGGTAAA
1 TTTATTTAAAGGTAAA
5427932 TTTATTT
1 TTTATTT
5427939 TTAGTTTTGG
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
13 6 0.22
14 4 0.15
15 4 0.15
16 13 0.48
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.56
Consensus pattern (16 bp):
TTTATTTAAAGGTAAA
Found at i:5428936 original size:12 final size:12
Alignment explanation
Indices: 5428919--5428946 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
5428909 CATGTTTGAT
5428919 TTGAAATACAAC
1 TTGAAATACAAC
5428931 TTGAAATACAAC
1 TTGAAATACAAC
5428943 TTGA
1 TTGA
5428947 TATTCACATT
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:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (12 bp):
TTGAAATACAAC
Found at i:5429256 original size:22 final size:24
Alignment explanation
Indices: 5429225--5429269 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
5429215 TTATAGTAAA
5429225 TTAATGTTTT-A-AAACTTTTGAC
1 TTAATGTTTTAACAAACTTTTGAC
*
5429247 TTAATTTTTTAACAAACTTTTGA
1 TTAATGTTTTAACAAACTTTTGA
5429270 TTTTTTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 1 0.05
24 10 0.50
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (24 bp):
TTAATGTTTTAACAAACTTTTGAC
Found at i:5439640 original size:26 final size:23
Alignment explanation
Indices: 5439606--5439660 Score: 58
Period size: 26 Copynumber: 2.3 Consensus size: 23
5439596 GATCAAAAGA
5439606 TGTCAACCAATATGATAAGTTACAAT
1 TGTCAACCAA-ATG-TAAGTTA-AAT
* *
5439632 TGTCTACCAAATGTACGTTAAAT
1 TGTCAACCAAATGTAAGTTAAAT
5439655 TG-CAAC
1 TGTCAAC
5439661 TGGAGTTGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 3 0.12
23 5 0.19
24 6 0.23
25 3 0.12
26 9 0.35
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (23 bp):
TGTCAACCAAATGTAAGTTAAAT
Found at i:5447177 original size:15 final size:15
Alignment explanation
Indices: 5447159--5447311 Score: 62
Period size: 15 Copynumber: 10.3 Consensus size: 15
5447149 AAGCCAAAGG
5447159 AGCTGGTGGTGGGGT
1 AGCTGGTGGTGGGGT
* * *
5447174 AGCTGGAGGAGGAGT
1 AGCTGGTGGTGGGGT
* * *
5447189 AGCAGGAGG-GGGAGA
1 AGCTGGTGGTGGG-GT
*
5447204 AGCAGGTGGTGGGGT
1 AGCTGGTGGTGGGGT
* * *
5447219 AGCCT-GCGGTGGAGA
1 AG-CTGGTGGTGGGGT
*
5447234 AGCCGGTGG-GGGAGT
1 AGCTGGTGGTGGG-GT
* * *
5447249 TGCGGGAGGTGGGGT
1 AGCTGGTGGTGGGGT
* * *
5447264 AGCTGGGGGAGGAGT
1 AGCTGGTGGTGGGGT
* * * *
5447279 AGCCGGTGGAGGAGA
1 AGCTGGTGGTGGGGT
5447294 AGCTGGTGGTGGGG-
1 AGCTGGTGGTGGGGT
5447308 AGCT
1 AGCT
5447312 AACGGGCGGG
Statistics
Matches: 102, Mismatches: 30, Indels: 13
0.70 0.21 0.09
Matches are distributed among these distances:
14 9 0.09
15 86 0.84
16 7 0.07
ACGTcount: A:0.18, C:0.10, G:0.58, T:0.15
Consensus pattern (15 bp):
AGCTGGTGGTGGGGT
Found at i:5447245 original size:45 final size:45
Alignment explanation
Indices: 5447163--5447311 Score: 167
Period size: 45 Copynumber: 3.3 Consensus size: 45
5447153 CAAAGGAGCT
* *
5447163 GGTGGTGGGGTAGCTGGAGGAGGAGTAGCAGGAGGGGGAGAAGCA
1 GGTGGTGGGGTAGCTGGAGGAGGAGTAGCCGGTGGGGGAGAAGCA
* * * ** *
5447208 GGTGGTGGGGTAGCCT-GCGGTGGAGAAGCCGGTGGGGGAGTTGCG
1 GGTGGTGGGGTAG-CTGGAGGAGGAGTAGCCGGTGGGGGAGAAGCA
* * * *
5447253 GGAGGTGGGGTAGCTGGGGGAGGAGTAGCCGGTGGAGGAGAAGCT
1 GGTGGTGGGGTAGCTGGAGGAGGAGTAGCCGGTGGGGGAGAAGCA
5447298 GGTGGTGGGG-AGCT
1 GGTGGTGGGGTAGCT
5447312 AACGGGCGGG
Statistics
Matches: 85, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
44 6 0.07
45 77 0.91
46 2 0.02
ACGTcount: A:0.17, C:0.09, G:0.58, T:0.15
Consensus pattern (45 bp):
GGTGGTGGGGTAGCTGGAGGAGGAGTAGCCGGTGGGGGAGAAGCA
Found at i:5447298 original size:30 final size:30
Alignment explanation
Indices: 5447174--5447299 Score: 92
Period size: 30 Copynumber: 4.2 Consensus size: 30
5447164 GTGGTGGGGT
* * *
5447174 AGCTGGAGGAGGAGTAGCAGGAGGGGGAGA
1 AGCTGGGGGAGGAGTAGCCGGAGGTGGAGA
* * * * * *
5447204 AGCAGGTGGTGGGGTAGCCTGCGGTGGAGA
1 AGCTGGGGGAGGAGTAGCCGGAGGTGGAGA
* * * * *
5447234 AGCCGGTGGG-GGAGTTGCGGGAGGTGGGGT
1 AGCTGG-GGGAGGAGTAGCCGGAGGTGGAGA
* *
5447264 AGCTGGGGGAGGAGTAGCCGGTGGAGGAGA
1 AGCTGGGGGAGGAGTAGCCGGAGGTGGAGA
5447294 AGCTGG
1 AGCTGG
5447300 TGGTGGGGAG
Statistics
Matches: 70, Mismatches: 24, Indels: 4
0.71 0.24 0.04
Matches are distributed among these distances:
29 3 0.04
30 65 0.93
31 2 0.03
ACGTcount: A:0.20, C:0.10, G:0.57, T:0.13
Consensus pattern (30 bp):
AGCTGGGGGAGGAGTAGCCGGAGGTGGAGA
Found at i:5448711 original size:22 final size:22
Alignment explanation
Indices: 5448663--5448714 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
5448653 ATATCCAAAC
* *
5448663 AATAACAGCAAAATAGTAGTAA
1 AATAACAGCAAAATAGCAGCAA
* * *
5448685 TATAATAGCAAAATGGCAGCAA
1 AATAACAGCAAAATAGCAGCAA
5448707 AATAACAG
1 AATAACAG
5448715 TAGAAAAAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.17
Consensus pattern (22 bp):
AATAACAGCAAAATAGCAGCAA
Found at i:5456580 original size:20 final size:21
Alignment explanation
Indices: 5456542--5456581 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5456532 TTATTAATTT
*
5456542 TTTTAAAAAAATTATACAAAA
1 TTTTAAAAAAATTAAACAAAA
5456563 TTTTAAAAAAA-TAAACAAA
1 TTTTAAAAAAATTAAACAAA
5456582 TACTACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (21 bp):
TTTTAAAAAAATTAAACAAAA
Found at i:5459193 original size:109 final size:109
Alignment explanation
Indices: 5458923--5459219 Score: 397
Period size: 109 Copynumber: 2.7 Consensus size: 109
5458913 TATCAGATAT
5458923 CAGTACAATTTAAAAAAGAATTC-TTTTTTTTCGTGTCAAAATCAGATATCAATATACGAAAAAA
1 CAGTACAATTTAAAAAA-AATTCTTTTTTTTTCGTGTCAAAATCAGATATCAATATACGAAAAAA
* *
5458987 ATTTAAAAACAAATTTTTTTGGGTGTCGGCCATTGAATAGCCGGCACC
65 A-TTAAAAA-AAA-TTTTTTAGGTGTCGGCCATTCAATAGCCGGCACC
*
5459035 TAGTACAAATTTTAAAAAAAA-TCTTTTTTTTTCGTGTCAAAATCAGATATCAATATACGAAAAA
1 CAGTAC-AA-TTTAAAAAAAATTCTTTTTTTTTCGTGTCAAAATCAGATATCAATATACGAAAAA
*
5459099 AATTAAAAAAAA-TTTTTAGGTG-CAGGCC-TGTCAATGGCCGGCACC
64 AATTAAAAAAAATTTTTTAGGTGTC-GGCCAT-TCAATAGCCGGCACC
* * *
5459144 CAGTACAATTTAAAAAAAATTCTTTTTTTTTTCGTGTCAGAATCAGATATTAGTATACGAAAAAA
1 CAGTACAATTTAAAAAAAATTC-TTTTTTTTTCGTGTCAAAATCAGATATCAATATACGAAAAAA
* *
5459209 GTAAAAAAAAA
65 ATTAAAAAAAA
5459220 AATTTGAGTG
Statistics
Matches: 168, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
107 11 0.07
108 6 0.04
109 79 0.47
111 3 0.02
112 14 0.08
113 46 0.27
114 9 0.05
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (109 bp):
CAGTACAATTTAAAAAAAATTCTTTTTTTTTCGTGTCAAAATCAGATATCAATATACGAAAAAAA
TTAAAAAAAATTTTTTAGGTGTCGGCCATTCAATAGCCGGCACC
Found at i:5459459 original size:114 final size:114
Alignment explanation
Indices: 5459258--5459622 Score: 383
Period size: 112 Copynumber: 3.3 Consensus size: 114
5459248 GAAAAAAAAT
* *
5459258 TTGATATTTGATTCTGACACGAAAAAAAAAAG-AATTTTTTTTTAAAAATTGTACTGGGTG-TCG
1 TTGATATCTGATTCTGACACGAAAAAAAAAAGAAATTTTTTTTTTAAAATTGTACTGGGTGCT-G
* **
5459321 GCCATTGACAGGCTAACACCCAAAAAAAAATTTTAATTTTTTTTTGTATA
65 GCCATTGACAGGCCAACACCCAAAAAAATTTTTTAATTTTTTTTTGTATA
*
5459371 TTGATATCTGATT-TTACCACGAAAAAAAAAAGAAATTTTTTTTTTAAAATTGTACTGGGTGCTG
1 TTGATATCTGATTCTGA-CACGAAAAAAAAAAGAAATTTTTTTTTTAAAATTGTACTGGGTGCTG
* ** **
5459435 GCCATTGACAGGCCAGCATTC---AAAATTTTTTTTTTATTTTTTTGTATA
65 GCCATTGACAGGCCAACACCCAAAAAAATTTTTTAATT-TTTTTTTGTATA
* ** ** *
5459483 CTGATATCTGATTCTGACACGAAAAAAAAGAA-AAA-AATAATTTT--AATTGTACTGGGTGCCG
1 TTGATATCTGATTCTGACACGAAAAAAAA-AAGAAATTTTTTTTTTAAAATTGTACTGGGTGCTG
* * *** * *
5459544 ACCATTGAGAGGCCAACACCCAAAATTTTTTTTTAA-TTTTATTCGTATA
65 GCCATTGACAGGCCAACACCCAAAAAAATTTTTTAATTTTTTTTTGTATA
* *
5459593 TTGATATCTGATTTTGACATGAAAAAAAAA
1 TTGATATCTGATTCTGACACGAAAAAAAAA
5459623 TTTAAAATTG
Statistics
Matches: 210, Mismatches: 33, Indels: 22
0.79 0.12 0.08
Matches are distributed among these distances:
109 33 0.16
110 36 0.17
111 16 0.08
112 48 0.23
113 31 0.15
114 45 0.21
115 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.37
Consensus pattern (114 bp):
TTGATATCTGATTCTGACACGAAAAAAAAAAGAAATTTTTTTTTTAAAATTGTACTGGGTGCTGG
CCATTGACAGGCCAACACCCAAAAAAATTTTTTAATTTTTTTTTGTATA
Found at i:5459618 original size:99 final size:98
Alignment explanation
Indices: 5459514--5459929 Score: 403
Period size: 99 Copynumber: 4.1 Consensus size: 98
5459504 AAAAAAAAGA
* *
5459514 AAAAAATAATTTTAATTGTACTGGGTGCCGACCATTGAGAGGCCAACACCCAAAATTTTTTTTTA
1 AAAAAA-AATTTAAATTGTACTGGGTGCCGACCATTGAAAGGCCAACACCC-AAATTTTTTTTTA
* * *
5459579 ATTTTATTCGTATATTGATATCTGATTTTGACATG
64 ATTTTTTTCGTATATTGATATCTGATTCTGACACG
* * *
5459614 AAAAAAAAATTTAAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCATCC-AATTTTTTTTTA
1 -AAAAAAAATTT-AAATTGTACTGGGTGCCGACCATTGAAAGGCCAACACCCAAATTTTTTTTT-
*
5459678 AATTTTTTTCGTATATTGATATCTGAATCTGATTTTGACACG
63 AATTTTTTTCGTATATTG--A--T--ATCTGATTCTGACACG
* * * * *
5459720 AAAAAAAATTAAAAAATTATACTGGGTGCC-AGCTATTGACATGCCAACACCCAAATTTTTTTTT
1 AAAAAAAATT--TAAATTGTACTGGGTGCCGA-CCATTGAAAGGCCAACACCCAAATTTTTTTTT
* * *
5459784 -ATTTTTTTCGTACACTGATATCTGATTCTGAAAC-
63 AATTTTTTTCGTATATTGATATCTGATTCTGACACG
* * *
5459818 AAAAAAAATTTTAAATTTTGTACTGGGTGCCGGCCATTGATAGGCCAGCACCCAAAAATTATTTT
1 AAAAAAAA-TTTAAA--TTGTACTGGGTGCCGACCATTGAAAGGCCAACACCC--AAATT-TTTT
* *
5459883 TTT--TCGTTTTTCGAATATTGATATCTGATTCTGACACG
60 TTTAAT-TTTTTTCGTATATTGATATCTGATTCTGACACG
5459921 AAAAAAAAT
1 AAAAAAAAT
5459930 AAATTTTTTT
Statistics
Matches: 263, Mismatches: 31, Indels: 41
0.79 0.09 0.12
Matches are distributed among these distances:
97 3 0.01
98 8 0.03
99 55 0.21
100 22 0.08
101 47 0.18
102 36 0.14
103 9 0.03
104 1 0.00
105 25 0.10
106 46 0.17
107 11 0.04
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (98 bp):
AAAAAAAATTTAAATTGTACTGGGTGCCGACCATTGAAAGGCCAACACCCAAATTTTTTTTTAAT
TTTTTTCGTATATTGATATCTGATTCTGACACG
Found at i:5459745 original size:106 final size:103
Alignment explanation
Indices: 5459416--5459872 Score: 334
Period size: 106 Copynumber: 4.4 Consensus size: 103
5459406 TTTTTTTTTT
* * **
5459416 AAAATTGTACTGGGTGCTGGCCATTGACAGGCCAGCATTCAAAATTTTTTTTTTATTTTTTT-GT
1 AAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCA--CCCAA-TTTTTTTTTATTTTTTTCGT
* * *** * ** *
5459480 ATACTGATATCTGATTCTGA-CACGAAAAAAAAGAAAAAAATA
63 ACACTGATATCTGAATCTGATTTTG-ACACGAA-AAAAAATTA
* * * * *
5459522 ATTTTAATTGTACTGGGTGCCGACCATTGAGAGGCCAACACCCAAAATTTTTTTTTAATTTTATT
1 A---AAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCACCC--AATTTTTTTTT-ATTTTTTT
* *
5459587 CG-----T-ATAT-TGATATCTGATTTTGACATGAAAAAAAAATTT
60 CGTACACTGATATCTGA-ATCTGATTTTGACACG-AAAAAAAATTA
*
5459626 AAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCATCCAATTTTTTTTTAAATTTTTTTCGTA
1 AAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCACCCAATTTTTTTTT--ATTTTTTTCGTA
* *
5459691 TATTGATATCTGAATCTGATTTTGACACGAAAAAAAATTAA
64 CACTGATATCTGAATCTGATTTTGACACGAAAAAAAATT-A
* * * * * *
5459732 AAAATTATACTGGGTGCCAGCTATTGACATGCCAACACCCAAATTTTTTTTTATTTTTTTCGTAC
1 AAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCACCC-AATTTTTTTTTATTTTTTTCGTAC
*
5459797 ACTGATATCTGATTCTGA-----A-AC-AAAAAAAATTTTA
65 ACTGATATCTGAATCTGATTTTGACACGAAAAAAAA--TTA
** *
5459831 AATTTTGTACTGGGTGCCGGCCATTGATAGGCCAGCACCCAA
1 AAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCACCCAA
5459873 AAATTATTTT
Statistics
Matches: 286, Mismatches: 43, Indels: 52
0.75 0.11 0.14
Matches are distributed among these distances:
98 10 0.03
99 46 0.16
100 13 0.05
101 34 0.12
103 3 0.01
104 19 0.07
105 43 0.15
106 53 0.19
107 15 0.05
108 9 0.03
109 40 0.14
110 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (103 bp):
AAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCACCCAATTTTTTTTTATTTTTTTCGTACA
CTGATATCTGAATCTGATTTTGACACGAAAAAAAATTA
Found at i:5459814 original size:105 final size:103
Alignment explanation
Indices: 5459416--5459916 Score: 338
Period size: 99 Copynumber: 4.8 Consensus size: 103
5459406 TTTTTTTTTT
* * * * * *
5459416 AAAATTGTACTGGGTGCTGGCCATTGACAGGCCAGCATTCAAAATTTTTTTTTTATTTTTTT-GT
1 AAAATTGTACTGGGTGC-CGCCATTGAAAGGCCAACA-CCCAAATTTTTTTTTAATTTTTTTCGT
*** * ** *
5459480 ATACTGATATCTGATTCTGA-CACGAAAAAAAAGAAAAAAATA
64 A-A-TGATATCTGATTCTGATTTTGACACGAAA-AAAAAATTA
* * *
5459522 ATTTTAATTGTACTGGGTGCCGACCATTGAGAGGCCAACACCCAAAATTTTTTTTTAATTTTATT
1 A---AAATTGTACTGGGTGCCG-CCATTGAAAGGCCAACACCC-AAATTTTTTTTTAATTTTTTT
* *
5459587 CG---T-ATAT-TGATATCTGATTTTGACATGAAAAAAAAATTT
61 CGTAATGATATCTGAT-TCTGATTTTGACACGAAAAAAAAATTA
* *
5459626 AAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCATCC-AATTTTTTTTTAAATTTTTTTCGT
1 AAAATTGTACTGGGTGCC-GCCATTGAAAGGCCAACACCCAAATTTTTTTTT-AATTTTTTTCGT
*
5459690 ATATTGATATCTGAATCTGATTTTGACACG-AAAAAAAATTAA
64 A-A-TGATATCTGATTCTGATTTTGACACGAAAAAAAAATT-A
* * * *
5459732 AAAATTATACTGGGTGCCAGCTATTGACATGCCAACACCCAAATTTTTTTTT-ATTTTTTTCGTA
1 AAAATTGTACTGGGTGCC-GCCATTGAAAGGCCAACACCCAAATTTTTTTTTAATTTTTTTCGTA
*
5459796 CACTGATATCTGATTCTGA-----A-AC-AAAAAAAATTTTA
65 -A-TGATATCTGATTCTGATTTTGACACGAAAAAAAA-ATTA
** * * *
5459831 AATTTTGTACTGGGTGCCGGCCATTGATAGGCCAGCACCCAAAAATTATTTTTTT--TCGTTTTT
1 AAAATTGTACTGGGTGCC-GCCATTGAAAGGCCAACACCC--AAATT-TTTTTTTAAT-TTTTTT
*
5459894 CGAATATTGATATCTGATTCTGA
61 CG--TAATGATATCTGATTCTGA
5459917 CACGAAAAAA
Statistics
Matches: 323, Mismatches: 45, Indels: 58
0.76 0.11 0.14
Matches are distributed among these distances:
99 53 0.16
100 13 0.04
101 39 0.12
102 31 0.10
103 4 0.01
104 19 0.06
105 46 0.14
106 52 0.16
107 14 0.04
108 2 0.01
109 49 0.15
110 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (103 bp):
AAAATTGTACTGGGTGCCGCCATTGAAAGGCCAACACCCAAATTTTTTTTTAATTTTTTTCGTAA
TGATATCTGATTCTGATTTTGACACGAAAAAAAAATTA
Found at i:5459852 original size:205 final size:207
Alignment explanation
Indices: 5459412--5459928 Score: 553
Period size: 210 Copynumber: 2.5 Consensus size: 207
5459402 GAAATTTTTT
* * * *
5459412 TTTTAAAATTGTACTGGGTGCTGGCCATTGACAGGCCAGCATTCAAAATTTTTTTTTTATTTTTT
1 TTTTAAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCA-TC-CAATTTTTTTTTAATTTTTT
* ** *
5459477 TGTATACTGATATCTGATTCTGACACGAAAAAAAAGAAAAAAATAATTTTAATTGTACTGGGTGC
64 TGTATACTGATATCTGAATCTGACACGAAAAAAAAGAAAAAAATAA-TAAAATTATACTGGGTGC
* * * *
5459542 CGACCATTGAGAGGCCAACACCCAAAATTTTTTTTTAATTTTATTCGTATATTGATATCTGATTT
128 CGACCATTGACAGGCCAACACCCAAAATTTTTTTTTAATTTTATTCGTACACTGATATCTGATTC
**
5459607 TGACATGAAAAAAAA
193 TGACAACAAAAAAAA
*
5459622 ATTTAAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCATCCAATTTTTTTTTAAATTTTTTT
1 TTTTAAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCATCCAATTTTTTTTT-AATTTTTTT
* *** * ** *
5459687 CGTATATTGATATCTGAATCTGATTTTG-ACACGAA-AAAAAATTAA-AAAATTATACTGGGTGC
65 -GTATACTGATATCTGAATCTGA-CACGAAAAAAAAGAAAAAAATAATAAAATTATACTGGGTGC
* * *
5459749 C-AGCTATTGACATGCCAACACCC-AAATTTTTTTTT-ATTTTTTTCGTACACTGATATCTGATT
128 CGA-CCATTGACAGGCCAACACCCAAAATTTTTTTTTAATTTTATTCGTACACTGATATCTGATT
5459811 CTGA-AACAAAAAAAA
192 CTGACAACAAAAAAAA
* * * ***
5459826 TTTTAAATTTTGTACTGGGTGCCGGCCATTGATAGGCCAGCACCCAAAAATTATTTTTTTTCGTT
1 TTTTAAA-ATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCATCC---AATT-TTTTTTTAATTT
* * * *
5459891 TTTCGAATATTGATATCTGATTCTGACACGAAAAAAAA
61 TTTTGTATACTGATATCTGAATCTGACACGAAAAAAAA
5459929 TAAATTTTTT
Statistics
Matches: 255, Mismatches: 42, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
204 15 0.06
205 61 0.24
206 14 0.05
207 56 0.22
208 20 0.08
209 26 0.10
210 62 0.24
211 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (207 bp):
TTTTAAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCATCCAATTTTTTTTTAATTTTTTTG
TATACTGATATCTGAATCTGACACGAAAAAAAAGAAAAAAATAATAAAATTATACTGGGTGCCGA
CCATTGACAGGCCAACACCCAAAATTTTTTTTTAATTTTATTCGTACACTGATATCTGATTCTGA
CAACAAAAAAAA
Found at i:5459908 original size:207 final size:205
Alignment explanation
Indices: 5459527--5459916 Score: 511
Period size: 205 Copynumber: 1.9 Consensus size: 205
5459517 AAATAATTTT
* * *
5459527 AATTGTACTGGGTGCCGACCATTGAGAGGCCAACACCCAAAATTTTTTTTTAATTTTATTCGTAT
1 AATTATACTGGGTGCCGACCATTGACAGGCCAACACCCAAAATTTTTTTTTAATTTTATTCGTAC
* * **
5459592 ATTGATATCTGATTTTGACATGAAAAAAAAATTTAAAATTGTACTGGGTGCCGGCCATTGAAAGG
66 ACTGATATCTGATTCTGACAACAAAAAAAAATTTAAAATTGTACTGGGTGCCGGCCATTGAAAGG
* * *
5459657 CCAGCATCCAATTTTTTTTTAAATTTTTTTCGTATATTGATATCTGAATCTGATTTTGACACGAA
131 CCAGCACCCAATTTTTTTTT--ATGTTTTTCGAATATTGATATCTGAATCTGATTTTGACACGAA
5459722 AAAAAATTAAAA
194 AAAAAATTAAAA
* * *
5459734 AATTATACTGGGTGCC-AGCTATTGACATGCCAACACCC-AAATTTTTTTTT-ATTTTTTTCGTA
1 AATTATACTGGGTGCCGA-CCATTGACAGGCCAACACCCAAAATTTTTTTTTAATTTTATTCGTA
* * *
5459796 CACTGATATCTGATTCTGA-AACAAAAAAAATTTTAAATTTTGTACTGGGTGCCGGCCATTGATA
65 CACTGATATCTGATTCTGACAACAAAAAAAAATTTAAA-ATTGTACTGGGTGCCGGCCATTGAAA
*
5459860 GGCCAGCACCCAAAAATTATTTTTTT-TCGTTTTTCGAATATTGATATCTGATTCTGA
129 GGCCAGCACCC---AATT-TTTTTTTAT-GTTTTTCGAATATTGATATCTGAATCTGA
5459917 CACGAAAAAA
Statistics
Matches: 159, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
204 15 0.09
205 61 0.38
206 14 0.09
207 58 0.36
208 4 0.03
209 7 0.04
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (205 bp):
AATTATACTGGGTGCCGACCATTGACAGGCCAACACCCAAAATTTTTTTTTAATTTTATTCGTAC
ACTGATATCTGATTCTGACAACAAAAAAAAATTTAAAATTGTACTGGGTGCCGGCCATTGAAAGG
CCAGCACCCAATTTTTTTTTATGTTTTTCGAATATTGATATCTGAATCTGATTTTGACACGAAAA
AAAATTAAAA
Found at i:5462593 original size:22 final size:22
Alignment explanation
Indices: 5462568--5462617 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
5462558 ATTTAAAAAG
*
5462568 ATATATATGTATGTATATTA-AA
1 ATATATATATATGTAT-TTACAA
*
5462590 ATATATGTATATGTATTTACAA
1 ATATATATATATGTATTTACAA
5462612 A-ATATA
1 ATATATA
5462618 AAAAAATGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (22 bp):
ATATATATATATGTATTTACAA
Found at i:5462937 original size:24 final size:23
Alignment explanation
Indices: 5462898--5462950 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
5462888 GGTGTAACCG
5462898 AATA-AATAATAATAATAAGTAAT
1 AATATAATAATAATAAT-AGTAAT
* *
5462921 AATATAATAATATTAATAGTATT
1 AATATAATAATAATAATAGTAAT
5462944 AA-ATAAT
1 AATATAAT
5462951 TACTTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 5 0.19
23 11 0.41
24 11 0.41
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
AATATAATAATAATAATAGTAAT
Found at i:5466194 original size:13 final size:13
Alignment explanation
Indices: 5466176--5466208 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
5466166 AAATTCAATA
5466176 ATGTGTGATTGTC
1 ATGTGTGATTGTC
5466189 ATGTGTGATTGTC
1 ATGTGTGATTGTC
5466202 ATGTGTG
1 ATGTGTG
5466209 GATTTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.15, C:0.06, G:0.33, T:0.45
Consensus pattern (13 bp):
ATGTGTGATTGTC
Found at i:5466382 original size:40 final size:38
Alignment explanation
Indices: 5466312--5466402 Score: 92
Period size: 40 Copynumber: 2.3 Consensus size: 38
5466302 AAATTCTAAC
* * *
5466312 AAATGCCACAATATGTAAGCAATAGCGGTGCTTTTACTA
1 AAATGCCGCAA-ATGTAAGCAATAGCGGTGCTTATACAA
* * *
5466351 AAATGCCGCAAATGATCAAGCATTAGGGGTGCTTATAGAA
1 AAATGCCGCAAATG-T-AAGCAATAGCGGTGCTTATACAA
*
5466391 AAACGCCGCAAA
1 AAATGCCGCAAA
5466403 AAACTTGGGA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
38 3 0.07
39 11 0.26
40 29 0.67
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (38 bp):
AAATGCCGCAAATGTAAGCAATAGCGGTGCTTATACAA
Found at i:5466806 original size:7 final size:7
Alignment explanation
Indices: 5466794--5466869 Score: 55
Period size: 7 Copynumber: 10.9 Consensus size: 7
5466784 TACACTTTTT
5466794 GGTTTAG
1 GGTTTAG
5466801 GGTTTATG
1 GGTTTA-G
* *
5466809 GTTTTAA
1 GGTTTAG
*
5466816 GGTTTAA
1 GGTTTAG
* *
5466823 AGTTTAA
1 GGTTTAG
5466830 GGTTTAG
1 GGTTTAG
5466837 GG-TTAG
1 GGTTTAG
** *
5466843 TATTTAA
1 GGTTTAG
5466850 GGTTTAG
1 GGTTTAG
*
5466857 GGCTTAG
1 GGTTTAG
5466864 GGTTTA
1 GGTTTA
5466870 TGGTATAATG
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
6 4 0.08
7 43 0.81
8 6 0.11
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:5466810 original size:14 final size:14
Alignment explanation
Indices: 5466794--5466883 Score: 56
Period size: 14 Copynumber: 6.4 Consensus size: 14
5466784 TACACTTTTT
*
5466794 GGTTTAGGGTTTAT
1 GGTTTAGGGTTTAA
*
5466808 GGTTTTAAGGTTTAA
1 GG-TTTAGGGTTTAA
* *
5466823 AGTTTAAGGTTT-A
1 GGTTTAGGGTTTAA
* **
5466836 GGGTTAGTATTTAA
1 GGTTTAGGGTTTAA
* *
5466850 GGTTTAGGGCTTAG
1 GGTTTAGGGTTTAA
* *
5466864 GGTTTATGGTATAA
1 GGTTTAGGGTTTAA
*
5466878 TGTTTA
1 GGTTTA
5466884 TTATTTTCGG
Statistics
Matches: 56, Mismatches: 18, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
13 8 0.14
14 37 0.66
15 11 0.20
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:5466927 original size:28 final size:28
Alignment explanation
Indices: 5466895--5466954 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
5466885 TATTTTCGGA
* * *
5466895 TTAGAATTT-TGAGTTTTGCGTTTATGGT
1 TTAGAATTTGTG-GTTTGGAGTTTAAGGT
*
5466923 TTAGAGTTTGTGGTTTGGAGTTTAAGGT
1 TTAGAATTTGTGGTTTGGAGTTTAAGGT
5466951 TTAG
1 TTAG
5466955 GGTTTAGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 25 0.93
29 2 0.07
ACGTcount: A:0.18, C:0.02, G:0.30, T:0.50
Consensus pattern (28 bp):
TTAGAATTTGTGGTTTGGAGTTTAAGGT
Found at i:5466931 original size:14 final size:14
Alignment explanation
Indices: 5466914--5466960 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
5466904 TGAGTTTTGC
5466914 GTTTATGGTTTAGA
1 GTTTATGGTTTAGA
* *
5466928 GTTTGTGGTTTGGA
1 GTTTATGGTTTAGA
* *
5466942 GTTTAAGGTTTAGG
1 GTTTATGGTTTAGA
5466956 GTTTA
1 GTTTA
5466961 GTATTTAAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (14 bp):
GTTTATGGTTTAGA
Found at i:5467728 original size:43 final size:43
Alignment explanation
Indices: 5467669--5467798 Score: 165
Period size: 43 Copynumber: 3.0 Consensus size: 43
5467659 TGCCGTCGCT
* *
5467669 AGACCAAGACCATTAGCGGCGCTTCTTTCACAAACGCCGTTAA
1 AGACCAAGACCATTAGCGGCGCTTCTTCCACAAACGCCGCTAA
* * *
5467712 AGACCATGACCTTTAGCGGTGCTT-TTCCCACAAACGCCGCTAA
1 AGACCAAGACCATTAGCGGCGCTTCTT-CCACAAACGCCGCTAA
* *
5467755 AGACCAAGACCATTAGCAGCGCTTC-TCGCAAAAACGCCGCTAA
1 AGACCAAGACCATTAGCGGCGCTTCTTC-CACAAACGCCGCTAA
5467798 A
1 A
5467799 AACATAACCT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 3 0.04
43 71 0.96
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.19
Consensus pattern (43 bp):
AGACCAAGACCATTAGCGGCGCTTCTTCCACAAACGCCGCTAA
Found at i:5469503 original size:33 final size:33
Alignment explanation
Indices: 5469461--5469524 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
5469451 CTAAAACTTC
5469461 CTTCATACCAAACAAAGACAGTATATCGATATT
1 CTTCATACCAAACAAAGACAGTATATCGATATT
5469494 CTTCATACCAAACAAAGACAGTATATCGATA
1 CTTCATACCAAACAAAGACAGTATATCGATA
5469525 AGCTTAGTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (33 bp):
CTTCATACCAAACAAAGACAGTATATCGATATT
Found at i:5469566 original size:16 final size:16
Alignment explanation
Indices: 5469545--5469576 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5469535 TAAAGGCCCG
5469545 AGCATTAGCGGCGCTT
1 AGCATTAGCGGCGCTT
*
5469561 AGCATTTGCGGCGCTT
1 AGCATTAGCGGCGCTT
5469577 CTTCAAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.25, G:0.31, T:0.28
Consensus pattern (16 bp):
AGCATTAGCGGCGCTT
Found at i:5469760 original size:40 final size:40
Alignment explanation
Indices: 5469648--5469770 Score: 112
Period size: 40 Copynumber: 3.1 Consensus size: 40
5469638 TTTGCAGCGC
5469648 TTTTTA-GAAAA-CGCCGCTAATGCTTATTTTTAGC-G-G
1 TTTTTATGAAAAGCGCCGCTAATGCTTATTTTTAGCGGCG
* ** **
5469684 TATTTTCTGAAAAGCATCGCTAATGCTCTACCTTTAGCGGCG
1 T-TTTTATGAAAAGCGCCGCTAATGCT-TATTTTTAGCGGCG
* * *
5469726 TTTTTAT-AAAAGTGCCGCTAATGCTTGATTTTTAGTGACG
1 TTTTTATGAAAAGCGCCGCTAATGCTT-ATTTTTAGCGGCG
5469766 TTTTT
1 TTTTT
5469771 TGCCCAAACG
Statistics
Matches: 67, Mismatches: 13, Indels: 10
0.74 0.14 0.11
Matches are distributed among these distances:
36 1 0.01
37 4 0.06
38 5 0.07
39 12 0.18
40 37 0.55
41 6 0.09
42 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (40 bp):
TTTTTATGAAAAGCGCCGCTAATGCTTATTTTTAGCGGCG
Found at i:5470031 original size:126 final size:124
Alignment explanation
Indices: 5469808--5470080 Score: 325
Period size: 126 Copynumber: 2.2 Consensus size: 124
5469798 TTGTGTAGTG
* * * * * *
5469808 ATGCCACAACAATGTCTTAAAAATTATACAAAACGGGGCCGTTTGGTTACAAGAATTTAATTTTT
1 ATGCCACAACAATGTATTAAAAAGTACACAAAACGGCGCCGTTTGCTAACAAGAATTTAATTTTT
* * *
5469873 AGTGGTGTTTTTCTCCACAACGCCGCAAAAGGTATGCAATAGCGGCG-TTTGTTATAAAA
66 AGTGGCGTTTTTCTCCACAACACCGCAAAAGGTAAGCAATAGCGGCGTTTTG-TATAAAA
* * * * *
5469932 ATGCCACAACAATGTATTAAAAAGTGCACAAAAACTGCGTCGTTTGCTAACAGGATTTTAACTTT
1 ATGCCACAACAATGTATTAAAAAGTACAC-AAAACGGCGCCGTTTGCTAACAAGAATTTAA-TTT
* * *
5469997 TTAGTGGCGTTTTTCT-CAGAATCACCGCAAAAGGTAAGCATTAGCGGCGTTTTGTCTAAAA
64 TTAGTGGCGTTTTTCTCCACAA-CACCGCAAAAGGTAAGCAATAGCGGCGTTTTGTATAAAA
* *
5470058 ACGCCGCAACAATGTATTAAAAA
1 ATGCCACAACAATGTATTAAAAA
5470081 TTGTTCAGAA
Statistics
Matches: 126, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
124 25 0.20
125 28 0.22
126 69 0.55
127 4 0.03
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (124 bp):
ATGCCACAACAATGTATTAAAAAGTACACAAAACGGCGCCGTTTGCTAACAAGAATTTAATTTTT
AGTGGCGTTTTTCTCCACAACACCGCAAAAGGTAAGCAATAGCGGCGTTTTGTATAAAA
Found at i:5470206 original size:20 final size:20
Alignment explanation
Indices: 5470183--5470223 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
5470173 CGCACCCAGC
5470183 CCCTAATTCCCCTTCCAAAT
1 CCCTAATTCCCCTTCCAAAT
*
5470203 CCCTAATTCCCCTTCGAAAT
1 CCCTAATTCCCCTTCCAAAT
5470223 C
1 C
5470224 TCTTCCAAAT
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:0.24, C:0.44, G:0.02, T:0.29
Consensus pattern (20 bp):
CCCTAATTCCCCTTCCAAAT
Found at i:5471043 original size:17 final size:17
Alignment explanation
Indices: 5471021--5471081 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 17
5471011 TTGGTTAATG
5471021 TTGCTGCAAGTTCTTTT
1 TTGCTGCAAGTTCTTTT
*
5471038 TTGCTGCAAGTTGTGGTTAAT
1 TTGCTGCAAGTTCT--TT--T
5471059 GTTGCTGCAAGTTCTTTT
1 -TTGCTGCAAGTTCTTTT
5471077 TTGCT
1 TTGCT
5471082 CCATTTTCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 18 0.49
18 1 0.03
19 2 0.05
20 2 0.05
21 1 0.03
22 13 0.35
ACGTcount: A:0.13, C:0.15, G:0.23, T:0.49
Consensus pattern (17 bp):
TTGCTGCAAGTTCTTTT
Found at i:5471066 original size:22 final size:22
Alignment explanation
Indices: 5471012--5471073 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
5471002 TTTAGGAATT
5471012 TGGTTAATGTTGCTGCAAGTTC
1 TGGTTAATGTTGCTGCAAGTTC
*
5471034 T--TT--T-TTGCTGCAAGTTG
1 TGGTTAATGTTGCTGCAAGTTC
5471051 TGGTTAATGTTGCTGCAAGTTC
1 TGGTTAATGTTGCTGCAAGTTC
5471073 T
1 T
5471074 TTTTTGCTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
17 13 0.39
18 1 0.03
19 2 0.06
20 2 0.06
21 1 0.03
22 14 0.42
ACGTcount: A:0.16, C:0.13, G:0.26, T:0.45
Consensus pattern (22 bp):
TGGTTAATGTTGCTGCAAGTTC
Found at i:5471101 original size:39 final size:39
Alignment explanation
Indices: 5471016--5471101 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 39
5471006 GGAATTTGGT
* * **
5471016 TAATGTTGCTGCAAGTTCTTTTTTGCTGCAAGTTGTGGT
1 TAATGTTGCTGCAAGTTCTTTTTTGCTCCAAGTTCTGAC
**
5471055 TAATGTTGCTGCAAGTTCTTTTTTGCTCCATTTTCT-AC
1 TAATGTTGCTGCAAGTTCTTTTTTGCTCCAAGTTCTGAC
5471093 TAAGTGTTG
1 TAA-TGTTG
5471102 TATGTTAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
38 3 0.08
39 37 0.93
ACGTcount: A:0.16, C:0.15, G:0.21, T:0.48
Consensus pattern (39 bp):
TAATGTTGCTGCAAGTTCTTTTTTGCTCCAAGTTCTGAC
Found at i:5472183 original size:9 final size:9
Alignment explanation
Indices: 5472165--5472273 Score: 114
Period size: 9 Copynumber: 12.0 Consensus size: 9
5472155 AAATATATAT
*
5472165 CATAGCTTA
1 CATAACTTA
*
5472174 CATAATTTA
1 CATAACTTA
*
5472183 CATAACTCA
1 CATAACTTA
5472192 CATAACTTA
1 CATAACTTA
5472201 CATAACTTA
1 CATAACTTA
5472210 -ATAACTTA
1 CATAACTTA
* *
5472218 TATATATCATA
1 CATA-A-CTTA
5472229 CCATAACTTA
1 -CATAACTTA
* *
5472239 AATAACTCA
1 CATAACTTA
5472248 CATAACTTA
1 CATAACTTA
5472257 CATAACTTA
1 CATAACTTA
5472266 -ATAACTTA
1 CATAACTTA
5472274 TATATATTGT
Statistics
Matches: 84, Mismatches: 12, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
8 16 0.19
9 57 0.68
10 4 0.05
11 4 0.05
12 3 0.04
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:5472220 original size:56 final size:56
Alignment explanation
Indices: 5472160--5472279 Score: 188
Period size: 56 Copynumber: 2.1 Consensus size: 56
5472150 TTAAAAAATA
* * *
5472160 TATATCATAGCTTA-CATAATTTACATAACTCACATAACTTACATAACTTAATAACT
1 TATAT-ATAGCATACCATAACTTAAATAACTCACATAACTTACATAACTTAATAACT
*
5472216 TATATATATCATACCATAACTTAAATAACTCACATAACTTACATAACTTAATAACT
1 TATATATAGCATACCATAACTTAAATAACTCACATAACTTACATAACTTAATAACT
5472272 TATATATA
1 TATATATA
5472280 TTGTCGAAAC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
55 6 0.10
56 53 0.90
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (56 bp):
TATATATAGCATACCATAACTTAAATAACTCACATAACTTACATAACTTAATAACT
Found at i:5472280 original size:56 final size:56
Alignment explanation
Indices: 5472174--5472280 Score: 196
Period size: 56 Copynumber: 1.9 Consensus size: 56
5472164 TCATAGCTTA
* *
5472174 CATAATTTACATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAC
1 CATAACTTAAATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAC
5472230 CATAACTTAAATAACTCACATAACTTACATAACTTAATAACTTATATATAT
1 CATAACTTAAATAACTCACATAACTTACATAACTTAATAACTTATATATAT
5472281 TGTCGAAACC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.36
Consensus pattern (56 bp):
CATAACTTAAATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAC
Found at i:5473543 original size:21 final size:21
Alignment explanation
Indices: 5473519--5473615 Score: 65
Period size: 23 Copynumber: 4.4 Consensus size: 21
5473509 AGATATTAAA
*
5473519 AAAATAATAT-ATGATAAATTT
1 AAAATAATATAATAAT-AATTT
*
5473540 AAAA-CATATCAATAATAATTT
1 AAAATAATAT-AATAATAATTT
*
5473561 AAAATAATAGT-ATATTACATTTT
1 AAAATAATA-TAATAATA-A-TTT
*
5473584 AAAATTATACTAATAATAAGTTT
1 AAAATAATA-TAATAATAA-TTT
5473607 AAAAGTAAT
1 AAAA-TAAT
5473616 GTCAAACTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
20 4 0.07
21 18 0.31
22 8 0.14
23 21 0.36
24 8 0.14
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (21 bp):
AAAATAATATAATAATAATTT
Found at i:5475157 original size:56 final size:56
Alignment explanation
Indices: 5475097--5475373 Score: 418
Period size: 56 Copynumber: 5.0 Consensus size: 56
5475087 GGGTTATTAC
5475097 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAACTTAATAACTTAT
1 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAACTTAATAACTTAT
5475153 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAACTTAATAACTTAT
1 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAACTTAATAACTTAT
5475209 ATATATCATACCATAACTTAAAATAACTCACAT-A---ACTTAACTTAATAACTTAT
1 ATATATCATACCATAACTT-AAATAACTCACATAACTTACTTAACTTAATAACTTAT
* * * *
5475262 ATATATCATACTATAATTTACATAACTCACATAACTTACATAACTTAATAACTTAT
1 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAACTTAATAACTTAT
* * * * * *
5475318 ATATATCATATCATAACTTACATAACTCAGAGAACTTACATAAGTTACATAACTTA
1 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAACTTA-ATAACTTA
5475374 ATTATACTTA
Statistics
Matches: 205, Mismatches: 10, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
52 12 0.06
53 37 0.18
56 135 0.66
57 21 0.10
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (56 bp):
ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAACTTAATAACTTAT
Found at i:5475269 original size:109 final size:108
Alignment explanation
Indices: 5475097--5475355 Score: 401
Period size: 109 Copynumber: 2.4 Consensus size: 108
5475087 GGGTTATTAC
5475097 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAACTTAATAACTTATATATATCAT
1 ATATATCATACCATAACTTAAATAACTCACAT-A---ACTTAACTTAATAACTTATATATATCAT
*
5475162 ACCATAACTTAAATAACTCACATAACTTACTTAACTTAATAACTTAT
62 ACCATAACTTAAATAACTCACATAACTTACATAACTTAATAACTTAT
*
5475209 ATATATCATACCATAACTTAAAATAACTCACATAACTTAACTTAATAACTTATATATATCATACT
1 ATATATCATACCATAACTT-AAATAACTCACATAACTTAACTTAATAACTTATATATATCATACC
* *
5475274 ATAATTTACATAACTCACATAACTTACATAACTTAATAACTTAT
65 ATAACTTAAATAACTCACATAACTTACATAACTTAATAACTTAT
* * * *
5475318 ATATATCATATCATAACTTACATAACTCAGAGAACTTA
1 ATATATCATACCATAACTTAAATAACTCACATAACTTA
5475356 CATAAGTTAC
Statistics
Matches: 138, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
108 16 0.12
109 89 0.64
112 20 0.14
113 13 0.09
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (108 bp):
ATATATCATACCATAACTTAAATAACTCACATAACTTAACTTAATAACTTATATATATCATACCA
TAACTTAAATAACTCACATAACTTACATAACTTAATAACTTAT
Found at i:5475307 original size:9 final size:9
Alignment explanation
Indices: 5475108--5475373 Score: 161
Period size: 9 Copynumber: 29.0 Consensus size: 9
5475098 TATATCATAC
5475108 CATAACTTA
1 CATAACTTA
* *
5475117 AATAACTCA
1 CATAACTTA
5475126 CATAACTTA
1 CATAACTTA
*
5475135 CTTAACTTA
1 CATAACTTA
5475144 -ATAACTTA
1 CATAACTTA
* *
5475152 TATATATCATA
1 CATA-A-CTTA
5475163 CCATAACTTA
1 -CATAACTTA
* *
5475173 AATAACTCA
1 CATAACTTA
5475182 CATAACTTA
1 CATAACTTA
*
5475191 CTTAACTTA
1 CATAACTTA
5475200 -ATAACTTA
1 CATAACTTA
* *
5475208 TATATATCATA
1 CATA-A-CTTA
5475219 CCATAACTTAA
1 -CATAACTT-A
* *
5475230 AATAACTCA
1 CATAACTTA
5475239 CATAAC-T-
1 CATAACTTA
5475246 --TAACTTA
1 CATAACTTA
5475253 -ATAACTTA
1 CATAACTTA
* *
5475261 TATATATCATA
1 CATA-A-CTTA
*
5475272 CTATAATTTA
1 C-ATAACTTA
*
5475282 CATAACTCA
1 CATAACTTA
5475291 CATAACTTA
1 CATAACTTA
5475300 CATAACTTA
1 CATAACTTA
5475309 -ATAACTTA
1 CATAACTTA
* *
5475317 TATATATCATA
1 CATA-A-CTTA
5475328 TCATAACTTA
1 -CATAACTTA
*
5475338 CATAACTCA
1 CATAACTTA
* *
5475347 GAGAACTTA
1 CATAACTTA
*
5475356 CATAAGTTA
1 CATAACTTA
5475365 CATAACTTA
1 CATAACTTA
5475374 ATTATACTTA
Statistics
Matches: 197, Mismatches: 40, Indels: 40
0.71 0.14 0.14
Matches are distributed among these distances:
5 4 0.02
6 1 0.01
8 29 0.15
9 113 0.57
10 21 0.11
11 17 0.09
12 12 0.06
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:5475386 original size:109 final size:108
Alignment explanation
Indices: 5475097--5475386 Score: 338
Period size: 109 Copynumber: 2.6 Consensus size: 108
5475087 GGGTTATTAC
5475097 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAACTTA-ATAACTT-ATATATATC
1 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAA-TTACATAACTTAAT-TATA-C
* *
5475160 ATACCATAACTTAAATAACTCACATAACTTACTTAACTTAATAACTTAT
63 -T--TATAACTTAAATAACTCACATAACTTACATAACTTAATAACTTAT
* * *
5475209 ATATATCATACCATAACTTAAAATAACTCACATAACTTAACTTAATAAC-TTA-TATATATCATA
1 ATATATCATACCATAACTT-AAATAACTCACATAACTT-ACTTAATTACATAACT-TA-ATTATA
* *
5475272 C-TATAATTTACATAACTCACATAACTTACATAACTTAATAACTTAT
62 CTTATAACTTAAATAACTCACATAACTTACATAACTTAATAACTTAT
* * * * *
5475318 ATATATCATATCATAACTTACATAACTCAGAGAACTTACATAAGTTACATAACTTAATTATACTT
1 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAA-TTACATAACTTAATTATACTT
5475383 ATAA
65 ATAA
5475387 ATAACCATGA
Statistics
Matches: 153, Mismatches: 15, Indels: 23
0.80 0.08 0.12
Matches are distributed among these distances:
107 5 0.03
108 24 0.16
109 68 0.44
110 1 0.01
112 20 0.13
113 24 0.16
114 9 0.06
115 2 0.01
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (108 bp):
ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAATTACATAACTTAATTATACTTA
TAACTTAAATAACTCACATAACTTACATAACTTAATAACTTAT
Found at i:5481220 original size:43 final size:43
Alignment explanation
Indices: 5481148--5481371 Score: 290
Period size: 43 Copynumber: 5.2 Consensus size: 43
5481138 TCTGCCAAAA
* * * *
5481148 TTAGTGGCGTTTTCAATAAAAGCGCCGCTAAAGAATATGACAT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGAACATGACCT
* *
5481191 TTAGCGTCGTTTTCTATAAAAGCGTCGCTAAAGAACATGACCT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGAACATGACCT
* *
5481234 TTAGCGGCG-TTTCTTATAAAAGCCCCGCTAAAGAACATGACAT
1 TTAGCGGCGTTTTC-TATAAAAGCGCCGCTAAAGAACATGACCT
* *
5481277 TTAGCGGCGTTTGCTATAAAGGC-CGCGCTAAAGAACATGACCT
1 TTAGCGGCGTTTTCTATAAAAGCGC-CGCTAAAGAACATGACCT
* * *
5481320 TTAGCGGCGTTTGCTATAAAAGCGGCGATAAAGAACATGACCT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGAACATGACCT
*
5481363 TTAGTGGCG
1 TTAGCGGCG
5481372 CTTATCTTTA
Statistics
Matches: 160, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
42 5 0.03
43 152 0.95
44 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (43 bp):
TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGAACATGACCT
Found at i:5484936 original size:4 final size:4
Alignment explanation
Indices: 5484929--5484962 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
5484919 TCATTCATGT
5484929 CATA CATA CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CA
5484963 GAATAGAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:5486328 original size:29 final size:30
Alignment explanation
Indices: 5486277--5486336 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
5486267 GTTAGTTAAG
*
5486277 TATAAATATTTTTTAAAATTTTATTTTCAA
1 TATAAATATTTTTTAAAAATTTATTTTCAA
5486307 TATAAATA-TTTTTAAAAATTTATTTTCAA
1 TATAAATATTTTTTAAAAATTTATTTTCAA
5486336 T
1 T
5486337 TTATTGGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 21 0.72
30 8 0.28
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (30 bp):
TATAAATATTTTTTAAAAATTTATTTTCAA
Found at i:5490084 original size:111 final size:111
Alignment explanation
Indices: 5489884--5490095 Score: 275
Period size: 111 Copynumber: 1.9 Consensus size: 111
5489874 CAGCTCCGGG
* * * *
5489884 AAGCCTTTCATTTGCTCTCAAACTTTGCCTGCTTGAACTGCTAACACCATCTGCATTTAATCCAT
1 AAGCCTCTCACTTGATCTCAAACTTTGCCTGCTTGAACTGCTAACACCATCTGCATTTAACCCAT
*
5489949 AGCTCGAACTGAGCTCGCCAGTACCTTCATCAAACCCTTCTCTAGC
66 AGCTCGAACTAAGCTCGCCAGTACCTTCATCAAACCCTTCTCTAGC
* * * * *
5489995 AAGCCTCTCACTTGATCTCAAACTTTGCCTTCTTGCATTGCTTACACTGA-CTGCATTTAACCCA
1 AAGCCTCTCACTTGATCTCAAACTTTGCCTGCTTGAACTGCTAACAC-CATCTGCATTTAACCCA
* **
5490059 TTGCTCGATAC-AAGCTCGCTGGTACCTTCATCAAACC
65 TAGCTCGA-ACTAAGCTCGCCAGTACCTTCATCAAACC
5490096 GCACTGATGA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
111 83 0.97
112 3 0.03
ACGTcount: A:0.24, C:0.32, G:0.13, T:0.31
Consensus pattern (111 bp):
AAGCCTCTCACTTGATCTCAAACTTTGCCTGCTTGAACTGCTAACACCATCTGCATTTAACCCAT
AGCTCGAACTAAGCTCGCCAGTACCTTCATCAAACCCTTCTCTAGC
Found at i:5492108 original size:18 final size:18
Alignment explanation
Indices: 5492087--5492182 Score: 50
Period size: 19 Copynumber: 5.1 Consensus size: 18
5492077 AAACAATTAT
5492087 AAAAAATAAAAGTTATAA
1 AAAAAATAAAAGTTATAA
* * *
5492105 AAAATATTAAA-TTTTAA
1 AAAAAATAAAAGTTATAA
*
5492122 TAAAAATATAAAGTTTATTAA
1 AAAAAATA-AAAG-TTA-TAA
*** *
5492143 AAATTGTAAAATTTTATAA
1 AAAAAATAAAA-GTTATAA
* *
5492162 AAATAATAAATAATTATAA
1 AAAAAATAAA-AGTTATAA
5492181 AA
1 AA
5492183 TGTATCAAAA
Statistics
Matches: 57, Mismatches: 15, Indels: 11
0.69 0.18 0.13
Matches are distributed among these distances:
17 10 0.18
18 12 0.21
19 19 0.33
20 9 0.16
21 7 0.12
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAAAATAAAAGTTATAA
Found at i:5492126 original size:19 final size:19
Alignment explanation
Indices: 5492104--5492172 Score: 72
Period size: 18 Copynumber: 3.7 Consensus size: 19
5492094 AAAAGTTATA
5492104 AAAAATATTAAATTTTAAT
1 AAAAATATTAAATTTTAAT
* *
5492123 AAAAATA-TAAAGTTTATT
1 AAAAATATTAAATTTTAAT
5492141 AAAAAT-TGTAAAATTTT-AT
1 AAAAATAT-T-AAATTTTAAT
*
5492160 AAAAATAATAAAT
1 AAAAATATTAAAT
5492173 AATTATAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
18 19 0.46
19 16 0.39
20 6 0.15
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAAATATTAAATTTTAAT
Found at i:5492145 original size:37 final size:36
Alignment explanation
Indices: 5492083--5492171 Score: 103
Period size: 37 Copynumber: 2.4 Consensus size: 36
5492073 GGAAAAACAA
5492083 TTATAAAAA-ATAAAAGTTATAAAAAATAT-T-AAATT
1 TTATAAAAATAT-AAAGTTATAAAAAAT-TGTAAAATT
*
5492118 TTAATAAAAATATAAAGTTTATTAAAAATTGTAAAATT
1 TT-ATAAAAATATAAAG-TTATAAAAAATTGTAAAATT
5492156 TTATAAAAATAATAAA
1 TTATAAAAAT-ATAAA
5492172 TAATTATAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
35 2 0.04
36 12 0.26
37 21 0.45
38 12 0.26
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (36 bp):
TTATAAAAATATAAAGTTATAAAAAATTGTAAAATT
Found at i:5492180 original size:10 final size:9
Alignment explanation
Indices: 5492081--5492182 Score: 57
Period size: 10 Copynumber: 11.1 Consensus size: 9
5492071 GTGGAAAAAC
5492081 AATTATAAA
1 AATTATAAA
5492090 AA--ATAAA
1 AATTATAAA
*
5492097 AGTTATAAA
1 AATTATAAA
*
5492106 AAATATTAAA
1 AATTA-TAAA
**
5492116 TTTTAATAAA
1 AATT-ATAAA
5492126 AA-TATAAA
1 AATTATAAA
**
5492134 GTTTATTAAA
1 AATTA-TAAA
*
5492144 AATTGTAAA
1 AATTATAAA
*
5492153 ATTTTATAAA
1 A-ATTATAAA
*
5492163 AATAATAAA
1 AATTATAAA
5492172 TAATTATAAA
1 -AATTATAAA
5492182 A
1 A
5492183 TGTATCAAAA
Statistics
Matches: 67, Mismatches: 18, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
7 6 0.09
8 5 0.07
9 25 0.37
10 30 0.45
11 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (9 bp):
AATTATAAA
Found at i:5492361 original size:22 final size:22
Alignment explanation
Indices: 5492336--5492379 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
5492326 AAAGTTATAG
5492336 AAAAATTATAAAATGCTTCTTT
1 AAAAATTATAAAATGCTTCTTT
5492358 AAAAATTATAAAATGCTTCTTT
1 AAAAATTATAAAATGCTTCTTT
5492380 TGATACGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (22 bp):
AAAAATTATAAAATGCTTCTTT
Done.