Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 71 of 205
Found at i:21239694 original size:39 final size:39
Alignment explanation
Indices: 21239598--21239696 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
21239588 ATTAAATTTT
* * * **
21239598 AAGCATATATCACATTACAAATATAATTACATAATTTTC
1 AAGCATATATCACAATACTAATATAATCACATAACGTTC
* * * *
21239637 AAGCACATATCGCAATACTCATATAATCGCATAACGTTC
1 AAGCATATATCACAATACTAATATAATCACATAACGTTC
*
21239676 AAGCATATATCATAATACTAA
1 AAGCATATATCACAATACTAA
21239697 AAAGGATGTT
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.30
Consensus pattern (39 bp):
AAGCATATATCACAATACTAATATAATCACATAACGTTC
Found at i:21243821 original size:32 final size:32
Alignment explanation
Indices: 21243671--21243841 Score: 139
Period size: 32 Copynumber: 5.4 Consensus size: 32
21243661 AGAACTGCCA
* * * * *
21243671 AAAGCCATAAGT-ACAGTAATGTAATTGGAAC
1 AAAGCCATTAGTAACAGTAATATGATCGGTAC
** * *
21243702 AAAGCC-TTAGTAGTAGTGATATGATCAGTAC
1 AAAGCCATTAGTAACAGTAATATGATCGGTAC
* * * * *
21243733 ACAGCCATTAGTAACAGTAAAATAACCGGCAC
1 AAAGCCATTAGTAACAGTAATATGATCGGTAC
* ** *
21243765 ACAGCCATCGGTAACGGTAATATGATCGGTAC
1 AAAGCCATTAGTAACAGTAATATGATCGGTAC
* * *
21243797 AAAGCCATTAGTAACAATACTATGATCGATAC
1 AAAGCCATTAGTAACAGTAATATGATCGGTAC
21243829 AAAGCCATTAGTA
1 AAAGCCATTAGTA
21243842 GCATCGCTGT
Statistics
Matches: 106, Mismatches: 32, Indels: 3
0.75 0.23 0.02
Matches are distributed among these distances:
30 4 0.04
31 22 0.21
32 80 0.75
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (32 bp):
AAAGCCATTAGTAACAGTAATATGATCGGTAC
Found at i:21244072 original size:24 final size:24
Alignment explanation
Indices: 21244013--21244123 Score: 80
Period size: 24 Copynumber: 4.6 Consensus size: 24
21244003 CCATGCACAG
** * **
21244013 AATCAGTCATACAAATTACAGATA
1 AATCAGTCATTTAAATCACAGGCA
*
21244037 AATCAGTTATTTAAATCACAGGCA
1 AATCAGTCATTTAAATCACAGGCA
* **
21244061 AATCAGTCATTTACATC-TGGGACA
1 AATCAGTCATTTAAATCACAGG-CA
* * *
21244085 AATCATTCATTTACATCATAGGCA
1 AATCAGTCATTTAAATCACAGGCA
* *
21244109 AATCAATGATTTAAA
1 AATCAGTCATTTAAA
21244124 CCTGAGGGGC
Statistics
Matches: 70, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
23 2 0.03
24 65 0.93
25 3 0.04
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAGGCA
Found at i:21244158 original size:27 final size:27
Alignment explanation
Indices: 21244139--21244421 Score: 320
Period size: 27 Copynumber: 10.5 Consensus size: 27
21244129 GGGGCAAAAT
*
21244139 AGTTATTTTACCTTACAGGGGCATTAC
1 AGTTATTTTACCCTACAGGGGCATTAC
* *
21244166 GGTCATTTTACCCTACAGGGGCATTAC
1 AGTTATTTTACCCTACAGGGGCATTAC
* *
21244193 AATTATTTTACCCTACATGGGCATTAC
1 AGTTATTTTACCCTACAGGGGCATTAC
* *
21244220 GGTCATTTTACCCTACAGGGGCATTAC
1 AGTTATTTTACCCTACAGGGGCATTAC
21244247 -GATTATTTTACCCTACAGGGGCATTAC
1 AG-TTATTTTACCCTACAGGGGCATTAC
21244274 -GATTATTTTACCCTACAGGGGCATTAC
1 AG-TTATTTTACCCTACAGGGGCATTAC
*
21244301 AGTCATTTTACCCTACAGGGGCATTAC
1 AGTTATTTTACCCTACAGGGGCATTAC
* * * *
21244328 -TTTCATTTTACTCTATAGGAGCATTAC
1 AGTT-ATTTTACCCTACAGGGGCATTAC
* * * * *
21244355 GGTCATTTTACCCTATAAGGGCGTTAC
1 AGTTATTTTACCCTACAGGGGCATTAC
* * *
21244382 GGTCATTTTACCCTATAGGGGCATTAC
1 AGTTATTTTACCCTACAGGGGCATTAC
* *
21244409 GGTCATTTTACCC
1 AGTTATTTTACCC
21244422 ATCAAGGGTA
Statistics
Matches: 226, Mismatches: 26, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.01
27 222 0.98
28 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (27 bp):
AGTTATTTTACCCTACAGGGGCATTAC
Found at i:21244187 original size:54 final size:54
Alignment explanation
Indices: 21244139--21244421 Score: 379
Period size: 54 Copynumber: 5.2 Consensus size: 54
21244129 GGGGCAAAAT
*
21244139 AGTTATTTTACCTTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTAC
1 AGTTATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTAC
* *
21244193 AATTATTTTACCCTACATGGGCATTACGGTCATTTTACCCTACAGGGGCATTAC
1 AGTTATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTAC
* *
21244247 -GATTATTTTACCCTACAGGGGCATTACGATTATTTTACCCTACAGGGGCATTAC
1 AG-TTATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTAC
* ** * * *
21244301 AGTCATTTTACCCTACAGGGGCATTACTTTCATTTTACTCTATAGGAGCATTAC
1 AGTTATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTAC
* * * * * *
21244355 GGTCATTTTACCCTATAAGGGCGTTACGGTCATTTTACCCTATAGGGGCATTAC
1 AGTTATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTAC
* *
21244409 GGTCATTTTACCC
1 AGTTATTTTACCC
21244422 ATCAAGGGTA
Statistics
Matches: 205, Mismatches: 22, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
54 204 1.00
55 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (54 bp):
AGTTATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTAC
Found at i:21244215 original size:81 final size:81
Alignment explanation
Indices: 21244143--21244421 Score: 396
Period size: 81 Copynumber: 3.4 Consensus size: 81
21244133 CAAAATAGTT
* *
21244143 ATTTTACCTTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTACAATTATTTTACCCTA
1 ATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGATTATTTTACCCTA
* *
21244208 CATGGGCATTACGGTC
66 CAAGGGCATTACAGTC
* *
21244224 ATTTTACCCTACAGGGGCATTACGATTATTTTACCCTACAGGGGCATTACGATTATTTTACCCTA
1 ATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGATTATTTTACCCTA
*
21244289 CAGGGGCATTACAGTC
66 CAAGGGCATTACAGTC
** * * * * *
21244305 ATTTTACCCTACAGGGGCATTACTTTCATTTTACTCTATAGGAGCATTACGGTCATTTTACCCTA
1 ATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGATTATTTTACCCTA
* * *
21244370 TAAGGGCGTTACGGTC
66 CAAGGGCATTACAGTC
*
21244386 ATTTTACCCTATAGGGGCATTACGGTCATTTTACCC
1 ATTTTACCCTACAGGGGCATTACGGTCATTTTACCC
21244422 ATCAAGGGTA
Statistics
Matches: 176, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 176 1.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (81 bp):
ATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGATTATTTTACCCTA
CAAGGGCATTACAGTC
Found at i:21245956 original size:26 final size:26
Alignment explanation
Indices: 21245927--21245991 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
21245917 ACATATTTTC
*
21245927 TCAAAATTTTACC-ATGCATAAAATCG
1 TCAAAATTTTACCGATG-ATAAAATCA
* *
21245953 TCAAAAAATTTACCGATGGTAAAATCA
1 TC-AAAATTTTACCGATGATAAAATCA
21245980 TCAAAATTTTAC
1 TCAAAATTTTAC
21245992 TGTGGGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 11 0.33
27 19 0.58
28 3 0.09
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.31
Consensus pattern (26 bp):
TCAAAATTTTACCGATGATAAAATCA
Found at i:21251516 original size:3 final size:3
Alignment explanation
Indices: 21251508--21251540 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
21251498 AATTAGCCTT
21251508 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21251541 CTTACTAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:21258606 original size:24 final size:24
Alignment explanation
Indices: 21258579--21258628 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
21258569 GGCTTATAAT
21258579 AATTTCATGTTATTTTTATGTTAG
1 AATTTCATGTTATTTTTATGTTAG
21258603 AATTTCATGTTATTTTTATGTTAG
1 AATTTCATGTTATTTTTATGTTAG
21258627 AA
1 AA
21258629 CTACTTTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.04, G:0.12, T:0.56
Consensus pattern (24 bp):
AATTTCATGTTATTTTTATGTTAG
Found at i:21259335 original size:12 final size:12
Alignment explanation
Indices: 21259320--21259363 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
21259310 CCTCTAATTT
21259320 TACTTCTACATC
1 TACTTCTACATC
*
21259332 TACTACTACATC
1 TACTTCTACATC
*
21259344 TACTTCTATATC
1 TACTTCTACATC
*
21259356 TACATCTA
1 TACTTCTA
21259364 TGTTAATTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (12 bp):
TACTTCTACATC
Found at i:21259345 original size:18 final size:18
Alignment explanation
Indices: 21259324--21259363 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
21259314 TAATTTTACT
21259324 TCTACATCTACTA-CTACA
1 TCTACATCTA-TATCTACA
*
21259342 TCTACTTCTATATCTACA
1 TCTACATCTATATCTACA
21259360 TCTA
1 TCTA
21259364 TGTTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (18 bp):
TCTACATCTATATCTACA
Found at i:21259990 original size:14 final size:15
Alignment explanation
Indices: 21259968--21260032 Score: 76
Period size: 15 Copynumber: 4.1 Consensus size: 15
21259958 TCGACAAGGT
21259968 AAATAAAAATATTTA
1 AAATAAAAATATTTA
21259983 AAATAAAAATATTTA
1 AAATAAAAATATTTA
* *
21259998 ATTAAGTAAAAAAATTCA
1 A--AA-TAAAAATATTTA
21260016 AAATAAGAAATATTTA
1 AAATAA-AAATATTTA
21260032 A
1 A
21260033 TTATGTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
15 19 0.45
16 10 0.24
17 2 0.05
18 11 0.26
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (15 bp):
AAATAAAAATATTTA
Found at i:21260008 original size:33 final size:34
Alignment explanation
Indices: 21259971--21260044 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
21259961 ACAAGGTAAA
* *
21259971 TAAAAATATTTAAAATAA-AAATATTTAATTAAG
1 TAAAAAAATTCAAAATAAGAAATATTTAATTAAG
*
21260004 TAAAAAAATTCAAAATAAGAAATATTTAATTATG
1 TAAAAAAATTCAAAATAAGAAATATTTAATTAAG
21260038 TAAAAAA
1 TAAAAAA
21260045 GAAAATTAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 16 0.43
34 21 0.57
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (34 bp):
TAAAAAAATTCAAAATAAGAAATATTTAATTAAG
Found at i:21262696 original size:51 final size:51
Alignment explanation
Indices: 21262628--21262866 Score: 261
Period size: 51 Copynumber: 4.7 Consensus size: 51
21262618 ATTAATGATA
*
21262628 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGATC-ATCA-CTAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGATCGA--AGCTAT
* * *
21262679 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGATCGAAGCTAT
* * * *
21262730 CCGGTACGCATAATAGCATGCACATAGTACTACAAATGTGATCGAAGCTAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGATCGAAGCTAT
* * * * ** *
21262781 CTGGTACGCATAGTAGCCTGCACATAGTACTACAAATGCGA-CCTATC-ATT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGATCGAAGCTA-T
* * *
21262831 CTGCTACACGTAGTAGCCTGCACATAGTACTACACA
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACA
21262867 CATGACTATC
Statistics
Matches: 163, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
49 1 0.01
50 37 0.23
51 124 0.76
52 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (51 bp):
CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGATCGAAGCTAT
Found at i:21269348 original size:58 final size:59
Alignment explanation
Indices: 21269258--21269382 Score: 198
Period size: 58 Copynumber: 2.1 Consensus size: 59
21269248 TAAAATATTT
21269258 GTAATAATATCAGTACTAAAATAGTTTAATTGACTGGC-AAATGTTAAGTGAAACTAAG
1 GTAATAATATCAGTACTAAAATAGTTTAATTGACTGGCAAAATGTTAAGTGAAACTAAG
21269316 GTAATAATATCAGTACTAAAATAGTTTAATTGACTGGCAGAAAAAAATGTTAAGTGAAACTAAG
1 GTAATAATATCAGTACTAAAATAGTTTAATTGACTGGC-----AAAATGTTAAGTGAAACTAAG
21269380 GTA
1 GTA
21269383 TTACATTATG
Statistics
Matches: 61, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
58 38 0.62
64 23 0.38
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.30
Consensus pattern (59 bp):
GTAATAATATCAGTACTAAAATAGTTTAATTGACTGGCAAAATGTTAAGTGAAACTAAG
Found at i:21269624 original size:16 final size:17
Alignment explanation
Indices: 21269596--21269639 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
21269586 CAAATATTTT
21269596 TAAAATGAAAATAATTCA
1 TAAAAT-AAAATAATTCA
*
21269614 T-AAATAAAATAATTTA
1 TAAAATAAAATAATTCA
21269630 TAAAATAAAA
1 TAAAATAAAA
21269640 CCCAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 11 0.46
17 12 0.50
18 1 0.04
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
TAAAATAAAATAATTCA
Found at i:21271124 original size:28 final size:31
Alignment explanation
Indices: 21271071--21271129 Score: 88
Period size: 28 Copynumber: 2.0 Consensus size: 31
21271061 AGTTTTTAAA
*
21271071 TGTTAGTTTTTTTATTAATTTAATTTAATTT
1 TGTTAGTTTTTTTATTAATTGAATTTAATTT
21271102 TGTTAG-TTTTTTATT-A-TGAATTTAATTT
1 TGTTAGTTTTTTTATTAATTGAATTTAATTT
21271130 AAATTTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 11 0.41
29 1 0.04
30 9 0.33
31 6 0.22
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.66
Consensus pattern (31 bp):
TGTTAGTTTTTTTATTAATTGAATTTAATTT
Found at i:21271129 original size:33 final size:31
Alignment explanation
Indices: 21271071--21271131 Score: 95
Period size: 33 Copynumber: 1.9 Consensus size: 31
21271061 AGTTTTTAAA
*
21271071 TGTTAGTTTTTTTATTAATTTAATTTAATTT
1 TGTTAGTTTTTTTATGAATTTAATTTAATTT
21271102 TGTTAGTTTTTTATTATGAATTTAATTTAA
1 TGTTAG-TTTTT-TTATGAATTTAATTTAA
21271132 ATTTAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 6 0.22
32 5 0.19
33 16 0.59
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (31 bp):
TGTTAGTTTTTTTATGAATTTAATTTAATTT
Found at i:21274949 original size:22 final size:22
Alignment explanation
Indices: 21274931--21275017 Score: 120
Period size: 22 Copynumber: 4.0 Consensus size: 22
21274921 CATAGTGCAA
*
21274931 AACAGAGAGCACCAAAGTGATG
1 AACAGAGAGCACCAAAGTGCTG
*
21274953 ATCAGAGAGCACCAAAGTGCTG
1 AACAGAGAGCACCAAAGTGCTG
*
21274975 AATAGAGAGCACCAAAGTGCTG
1 AACAGAGAGCACCAAAGTGCTG
* * *
21274997 AACAAAAAGCACAAAAGTGCT
1 AACAGAGAGCACCAAAGTGCT
21275018 AAACCCATAC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (22 bp):
AACAGAGAGCACCAAAGTGCTG
Found at i:21276586 original size:31 final size:31
Alignment explanation
Indices: 21276551--21276614 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
21276541 TCTTTGCAAG
21276551 TCAGTCTCGTAAAGCTTGATAGGAGTAACTA
1 TCAGTCTCGTAAAGCTTGATAGGAGTAACTA
21276582 TCAGTCTCGTAAAGCTTGATAGGAGTAACTA
1 TCAGTCTCGTAAAGCTTGATAGGAGTAACTA
21276613 TC
1 TC
21276615 TTGCTTGGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (31 bp):
TCAGTCTCGTAAAGCTTGATAGGAGTAACTA
Found at i:21281534 original size:8 final size:8
Alignment explanation
Indices: 21281521--21281545 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
21281511 TATACTAAAC
21281521 AATAAAAT
1 AATAAAAT
21281529 AATAAAAT
1 AATAAAAT
21281537 AATAAAAT
1 AATAAAAT
21281545 A
1 A
21281546 TTATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:21283878 original size:33 final size:33
Alignment explanation
Indices: 21283827--21283986 Score: 127
Period size: 33 Copynumber: 4.7 Consensus size: 33
21283817 TTATCTGTTA
* *
21283827 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
21283861 TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAATGAT
1 TCGGGGAATCAGCACTTAGCAA---C---CAC---CAATGAT
* *
21283903 ACGGTGGAATCAGCACTTAGCAACCACCAATGAA
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
21283937 TCGGGGAATCAACACTTAGCAACC-CC-----T
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
21283964 T-GGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
21283987 CCCTTTATAT
Statistics
Matches: 108, Mismatches: 8, Indels: 28
0.75 0.06 0.19
Matches are distributed among these distances:
26 21 0.19
27 1 0.01
32 2 0.02
33 36 0.33
34 13 0.12
36 1 0.01
37 3 0.03
39 3 0.03
40 1 0.01
42 9 0.08
43 18 0.17
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:21283968 original size:26 final size:26
Alignment explanation
Indices: 21283939--21283988 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
21283929 CCAATGAATC
21283939 GGGGAATCAACACTTAGCAACCCCTT
1 GGGGAATCAACACTTAGCAACCCCTT
*
21283965 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAACACTTAGCAACCCC
21283989 CTTTATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.32, G:0.22, T:0.16
Consensus pattern (26 bp):
GGGGAATCAACACTTAGCAACCCCTT
Found at i:21284092 original size:51 final size:51
Alignment explanation
Indices: 21284016--21284206 Score: 221
Period size: 51 Copynumber: 3.8 Consensus size: 51
21284006 TCGGTTCACA
* *
21284016 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGACACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
* * * *
21284067 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGATACACG
* * *
21284118 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T-CTAGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGA-TACACG
*
21284168 TAGTAGCCTGGACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
21284207 TTCAATTTTA
Statistics
Matches: 117, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
49 5 0.04
50 38 0.32
51 71 0.61
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
Found at i:21284193 original size:101 final size:102
Alignment explanation
Indices: 21284014--21284198 Score: 295
Period size: 101 Copynumber: 1.8 Consensus size: 102
21284004 TATCGGTTCA
* *
21284014 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGACACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGACACACGTAGTAGCCTGCA
21284079 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
*
21284116 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTAG-TACACGTAGTAGCCTG
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATC-AGACACACGTAGTAGCCTG
*
21284178 GACATAGTACTACACACGTGA
64 CACATAGTACTACACACGTGA
21284199 CCATCACTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
101 37 0.48
102 36 0.47
103 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGACACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:21293565 original size:2 final size:2
Alignment explanation
Indices: 21293560--21293586 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21293550 CCTTTTCCTT
21293560 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
21293587 CTTCTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21293907 original size:3 final size:3
Alignment explanation
Indices: 21293899--21293934 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
21293889 GTTCATACTC
21293899 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21293935 ATATAATGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:21295388 original size:13 final size:13
Alignment explanation
Indices: 21295370--21295400 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
21295360 GGTGCTCTCA
21295370 AAGTTGTGTGAAT
1 AAGTTGTGTGAAT
*
21295383 AAGTTGTGTGTAT
1 AAGTTGTGTGAAT
21295396 AAGTT
1 AAGTT
21295401 AACAATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (13 bp):
AAGTTGTGTGAAT
Found at i:21302161 original size:4 final size:4
Alignment explanation
Indices: 21302152--21302177 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
21302142 ATGCTCGTGA
21302152 AAAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AA
21302178 CTAAATAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:21304218 original size:45 final size:45
Alignment explanation
Indices: 21304149--21304243 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
21304139 TACTATGTGA
* * *
21304149 ACCGAACATCATTGATTACTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCC
*
21304194 ACCGGACATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCC
21304239 ACCGA
1 ACCGA
21304244 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCC
Found at i:21317622 original size:10 final size:10
Alignment explanation
Indices: 21317607--21317635 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
21317597 ATTTCATTAA
21317607 GGAAACAATC
1 GGAAACAATC
21317617 GGAAACAATC
1 GGAAACAATC
21317627 GGAAACAAT
1 GGAAACAAT
21317636 ATTAGTACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.17, G:0.21, T:0.10
Consensus pattern (10 bp):
GGAAACAATC
Found at i:21319113 original size:16 final size:16
Alignment explanation
Indices: 21319092--21319124 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21319082 TTTTTCCACA
*
21319092 TCAGCAAGAATACATG
1 TCAGCAAAAATACATG
21319108 TCAGCAAAAATACATG
1 TCAGCAAAAATACATG
21319124 T
1 T
21319125 GGTGTGCGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.21
Consensus pattern (16 bp):
TCAGCAAAAATACATG
Found at i:21319455 original size:85 final size:85
Alignment explanation
Indices: 21319270--21319553 Score: 324
Period size: 85 Copynumber: 3.3 Consensus size: 85
21319260 GCTAACTTTT
* * * * * *
21319270 GCGGCGCTTATAGAAAAAAACGCCGCTAAAGCTCAAGTTCTTTAGCGGCGC-TACCGAA-AAAAC
1 GCGGCGCTT-T-GGAAAAAACGCCGCTAAAGATCATGATCTTTAGCTGCGCTTA-GGAAGAAAAC
** * *
21319333 GCTACT-AAAGATCATGTTCTTTA
63 GCCGCTAAAAG-TAATGTTCTATA
* *
21319356 GCGGTGCTTAGGAAAAAACGCCGCTAAAGATCATGATCTTTAGCTGCGCTTAGGAAGAAAACGCC
1 GCGGCGCTTTGGAAAAAACGCCGCTAAAGATCATGATCTTTAGCTGCGCTTAGGAAGAAAACGCC
*
21319421 GCTAAAAGTAATATTCTATA
66 GCTAAAAGTAATGTTCTATA
* * * *
21319441 GCGGCACTTTGGAAAAAACGCCGCTAAAGAACATGATCTTTAGCTGTGCTTAGGAAGAAAACGTC
1 GCGGCGCTTTGGAAAAAACGCCGCTAAAGATCATGATCTTTAGCTGCGCTTAGGAAGAAAACGCC
21319506 GCTAAAAGTAATGTTCTATA
66 GCTAAAAGTAATGTTCTATA
* *
21319526 GCGACGC-TTGGTAAAAAACGCCACTAAA
1 GCGGCGCTTTGG-AAAAAACGCCGCTAAA
21319554 AGTAGTGTTC
Statistics
Matches: 171, Mismatches: 23, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
84 41 0.24
85 118 0.69
86 12 0.07
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.23
Consensus pattern (85 bp):
GCGGCGCTTTGGAAAAAACGCCGCTAAAGATCATGATCTTTAGCTGCGCTTAGGAAGAAAACGCC
GCTAAAAGTAATGTTCTATA
Found at i:21319572 original size:127 final size:127
Alignment explanation
Indices: 21319325--21319557 Score: 312
Period size: 127 Copynumber: 1.8 Consensus size: 127
21319315 CGGCGCTACC
* * * *
21319325 GAAAAAACGCTACTAAAGATCATGTTCTTTAGCGGTGCTTAGGAAAAAACGCCGCTAAAGATCAT
1 GAAAAAACGCCACTAAAGAACATGATCTTTAGCGGTGCTTAGGAAAAAACGCCGCTAAAGATAAT
* *
21319390 GATCTTTAGCTGCGCTTAGGAAGAAAACGCCGCTAAAAGTAATATTCTATAGCGGCACTTTG
66 GATCTATAGCTGCGCTTAGGAAGAAAACGCCACTAAAAGTAATATTCTATAGCGGCACTTTG
* * *
21319452 GAAAAAACGCCGCTAAAGAACATGATCTTTAGCTGTGCTTAGGAAGAAAACGTCGCTAAA-AGTA
1 GAAAAAACGCCACTAAAGAACATGATCTTTAGCGGTGCTTAGGAA-AAAACGCCGCTAAAGA-TA
*
21319516 ATGTTCTATAGC-GACGCTT-GGTAA-AAAACGCCACTAAAAGTA
64 ATGATCTATAGCTG-CGCTTAGG-AAGAAAACGCCACTAAAAGTA
21319558 GTGTTCTTTC
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
127 61 0.66
128 31 0.34
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (127 bp):
GAAAAAACGCCACTAAAGAACATGATCTTTAGCGGTGCTTAGGAAAAAACGCCGCTAAAGATAAT
GATCTATAGCTGCGCTTAGGAAGAAAACGCCACTAAAAGTAATATTCTATAGCGGCACTTTG
Found at i:21319576 original size:42 final size:41
Alignment explanation
Indices: 21319265--21319577 Score: 263
Period size: 42 Copynumber: 7.4 Consensus size: 41
21319255 ACGTCGCTAA
* *
21319265 CTTTTGCGGCGCTTATAGAAAAAAACGCCGCTAAAGCTCAA-GTT
1 CTTTAGCGGCGC-T-TAGGAAAAAACGCCGCTAAAG-T-AATGTT
* ** *
21319309 CTTTAGCGGCGC-TACCGAAAAAACGCTACTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-GGAAAAAACGCCGCTAAAG-TAATGTT
* * *
21319351 CTTTAGCGGTGCTTAGGAAAAAACGCCGCTAAAGATCATGAT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAG-TAATGTT
* *
21319393 CTTTAGCTGCGCTTAGGAAGAAAACGCCGCTAAAAGTAATATT
1 CTTTAGCGGCGCTTAGGAA-AAAACGCCGCT-AAAGTAATGTT
* * * * *
21319436 CTATAGCGGCACTTTGGAAAAAACGCCGCTAAAGAACATGAT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGTA-ATGTT
* * *
21319478 CTTTAGCTGTGCTTAGGAAGAAAACGTCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAA-AAAACGCCGCT-AAAGTAATGTT
* * * *
21319521 CTATAGCGACGCTT-GGTAAAAAACGCCACTAAAAGTAGTGTT
1 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCT-AAAGTAATGTT
*
21319563 CTTTCGCGGCGCTTA
1 CTTTAGCGGCGCTTA
21319578 TTTCACAAAT
Statistics
Matches: 217, Mismatches: 42, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
41 8 0.04
42 131 0.60
43 58 0.27
44 20 0.09
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (41 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGTAATGTT
Found at i:21319952 original size:31 final size:31
Alignment explanation
Indices: 21319914--21319975 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
21319904 ATCTGAAGCT
21319914 GCTGTTGAAGTTCGTCGCACTTTTTGCTCTG
1 GCTGTTGAAGTTCGTCGCACTTTTTGCTCTG
*
21319945 GCTGTTGAAGTTCGTCGTACTTTTTGCTCTG
1 GCTGTTGAAGTTCGTCGCACTTTTTGCTCTG
21319976 CTCTGCTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.10, C:0.21, G:0.26, T:0.44
Consensus pattern (31 bp):
GCTGTTGAAGTTCGTCGCACTTTTTGCTCTG
Found at i:21320061 original size:12 final size:12
Alignment explanation
Indices: 21320044--21320071 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
21320034 TTTTGAACCT
21320044 CTGCTTCTCTCG
1 CTGCTTCTCTCG
21320056 CTGCTTCTCTCG
1 CTGCTTCTCTCG
21320068 CTGC
1 CTGC
21320072 GGCATCTGCT
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:0.00, C:0.43, G:0.18, T:0.39
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:21320080 original size:21 final size:21
Alignment explanation
Indices: 21320056--21320124 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
21320046 GCTTCTCTCG
* *
21320056 CTGCTTCTCTCGCTGCGGCAT
1 CTGCTTCTCTCGCTGCAGCCT
*
21320077 CTGCTTCTCTCACTGCAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* * *
21320098 TTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
21320119 CTGCTT
1 CTGCTT
21320125 TAAGTTGTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.04, C:0.42, G:0.19, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:21325608 original size:9 final size:9
Alignment explanation
Indices: 21325583--21325671 Score: 91
Period size: 9 Copynumber: 10.6 Consensus size: 9
21325573 GATTTAGGAA
21325583 TAAGTTATG
1 TAAGTTATG
21325592 T-A-TTATG
1 TAAGTTATG
21325599 TAAGTTATG
1 TAAGTTATG
*
21325608 TAAGTTGTG
1 TAAGTTATG
*
21325617 TAAGTTGTG
1 TAAGTTATG
21325626 T-A-TTATG
1 TAAGTTATG
* *
21325633 AAACTTATG
1 TAAGTTATG
21325642 TAAGTTATG
1 TAAGTTATG
*
21325651 TAAATTATG
1 TAAGTTATG
21325660 T-A-TTATG
1 TAAGTTATG
21325667 TAAGT
1 TAAGT
21325672 CATTATGTAA
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
7 16 0.24
8 6 0.09
9 46 0.68
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:21325612 original size:25 final size:26
Alignment explanation
Indices: 21325583--21325671 Score: 89
Period size: 25 Copynumber: 3.5 Consensus size: 26
21325573 GATTTAGGAA
21325583 TAAGTTATGT-A-TTATGTAAGTTATG
1 TAAGTTATGTAAGTTATGTAA-TTATG
* *
21325608 TAAGTTGTGTAAGTTGTGT-ATTATG
1 TAAGTTATGTAAGTTATGTAATTATG
* *
21325633 AAACTTATGTAAGTTATGTAAATTATG
1 TAAGTTATGTAAGTTATGT-AATTATG
21325660 T-A-TTATGTAAGT
1 TAAGTTATGTAAGT
21325672 CATTATGTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
25 39 0.74
26 3 0.06
27 11 0.21
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (26 bp):
TAAGTTATGTAAGTTATGTAATTATG
Found at i:21325628 original size:34 final size:34
Alignment explanation
Indices: 21325583--21325698 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 34
21325573 GATTTAGGAA
*
21325583 TAAGTTATGTATTATGTAAGTTATGTAAGTTGTG
1 TAAGTTATGTATTATGTAAGTTATGTAAGTTATG
* * *
21325617 TAAGTTGTGTATTATGAAACTTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATGTAAGTTATG
*
21325651 TAAATTATGTATTATGTAAGTCATTATGTAAGATATTATG
1 TAAGTTATGTATTATGTAAG---TTATGTAAG---TTATG
21325691 TAAGTTAT
1 TAAGTTAT
21325699 TGTGTAAGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
34 46 0.69
37 9 0.13
40 12 0.18
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.46
Consensus pattern (34 bp):
TAAGTTATGTATTATGTAAGTTATGTAAGTTATG
Found at i:21325678 original size:12 final size:11
Alignment explanation
Indices: 21325659--21325719 Score: 77
Period size: 12 Copynumber: 5.2 Consensus size: 11
21325649 TGTAAATTAT
21325659 GTATTATGTAA
1 GTATTATGTAA
21325670 GTCATTATGTAA
1 GT-ATTATGTAA
21325682 GATATTATGTAA
1 G-TATTATGTAA
*
21325694 GTTATTGTGTAA
1 G-TATTATGTAA
21325706 GATATTATGTAA
1 G-TATTATGTAA
21325718 GT
1 GT
21325720 TACACTACGT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
11 3 0.07
12 40 0.91
13 1 0.02
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.44
Consensus pattern (11 bp):
GTATTATGTAA
Found at i:21325720 original size:24 final size:24
Alignment explanation
Indices: 21325660--21325842 Score: 133
Period size: 24 Copynumber: 7.6 Consensus size: 24
21325650 GTAAATTATG
*
21325660 TATTATGTAAGTCATTATGTAAGA
1 TATTATGTAAGTTATTATGTAAGA
*
21325684 TATTATGTAAGTTATTGTGTAAGA
1 TATTATGTAAGTTATTATGTAAGA
* * * *
21325708 TATTATGTAAGTTA-CA-CTACGT
1 TATTATGTAAGTTATTATGTAAGA
* * * **
21325730 TTTTGTTTTTGTGTATTATGT-A-A
1 TATTATGTAAGT-TATTATGTAAGA
* * * * *
21325753 -CTTATTTAATTTATGTAGGGTACGCA
1 TATTATGTAAGTTAT-TA-TGTAAG-A
*
21325779 TTATGATGTAAGTTATTATGTAAGA
1 -TATTATGTAAGTTATTATGTAAGA
21325804 TATTATGTAAGTTATTATGTAAGA
1 TATTATGTAAGTTATTATGTAAGA
21325828 TATTATGTAAGTTAT
1 TATTATGTAAGTTAT
21325843 GTAAGTTTTT
Statistics
Matches: 119, Mismatches: 30, Indels: 20
0.70 0.18 0.12
Matches are distributed among these distances:
21 3 0.03
22 18 0.15
23 4 0.03
24 75 0.63
25 2 0.02
26 5 0.04
27 2 0.02
28 10 0.08
ACGTcount: A:0.32, C:0.04, G:0.17, T:0.47
Consensus pattern (24 bp):
TATTATGTAAGTTATTATGTAAGA
Found at i:21325799 original size:12 final size:12
Alignment explanation
Indices: 21325779--21325842 Score: 101
Period size: 12 Copynumber: 5.3 Consensus size: 12
21325769 AGGGTACGCA
*
21325779 TTATGATGTAAG
1 TTATTATGTAAG
21325791 TTATTATGTAAG
1 TTATTATGTAAG
*
21325803 ATATTATGTAAG
1 TTATTATGTAAG
21325815 TTATTATGTAAG
1 TTATTATGTAAG
*
21325827 ATATTATGTAAG
1 TTATTATGTAAG
21325839 TTAT
1 TTAT
21325843 GTAAGTTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:21325816 original size:120 final size:119
Alignment explanation
Indices: 21325664--21325913 Score: 392
Period size: 119 Copynumber: 2.1 Consensus size: 119
21325654 ATTATGTATT
* * *
21325664 ATGTAAGTCATTATGTAAGATATTATGTAAGTTATTGTGTAAGATATTATGTAAGTTACACTACG
1 ATGTAAGTTATTATGTAAGATATTATGTAAGTTATTATGTAAGATATTATGTAAGTTA-ACTAAG
* *
21325729 TTTTTGTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGGTACGCATTATG
65 TTTTTGTTTTTGTATATTATGTAACTTATTTAATTTATGTACGGTACGCATTATG
**
21325784 ATGTAAGTTATTATGTAAGATATTATGTAAGTTATTATGTAAGATATTATGTAAGTTATGTAAGT
1 ATGTAAGTTATTATGTAAGATATTATGTAAGTTATTATGTAAGATATTATGTAAGTTAACTAAGT
* * * *
21325849 TTTTGTTTTTGTATATTCTGTAACTTATTTAATTTATGTACGGTATGTATTATT
66 TTTTGTTTTTGTATATTATGTAACTTATTTAATTTATGTACGGTACGCATTATG
21325903 ATGTAAGTTAT
1 ATGTAAGTTAT
21325914 GTAAGTTGTG
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
119 63 0.53
120 56 0.47
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.49
Consensus pattern (119 bp):
ATGTAAGTTATTATGTAAGATATTATGTAAGTTATTATGTAAGATATTATGTAAGTTAACTAAGT
TTTTGTTTTTGTATATTATGTAACTTATTTAATTTATGTACGGTACGCATTATG
Found at i:21325871 original size:34 final size:35
Alignment explanation
Indices: 21325792--21325920 Score: 97
Period size: 34 Copynumber: 3.6 Consensus size: 35
21325782 TGATGTAAGT
*
21325792 TATTATGTAAGATATTATGTAAG-TTAT-TATGTAAG-A
1 TATTATGTAAG---TTATGTAAGTTTATGTA-GTATGTA
* * *
21325828 TATTATGTAAGTTATGTAAGTTTTTGT-TTTTGTA
1 TATTATGTAAGTTATGTAAGTTTATGTAGTATGTA
* * *
21325862 TATTCTGTAACTTATTTAA-TTTATGTACGGTATGTA
1 TATTATGTAAGTTATGTAAGTTTATGTA--GTATGTA
21325898 TTATTATGTAAGTTATGTAAGTT
1 -TATTATGTAAGTTATGTAAGTT
21325921 GTGATATGAT
Statistics
Matches: 72, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
33 17 0.24
34 20 0.28
35 1 0.01
36 16 0.22
37 16 0.22
38 2 0.03
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.51
Consensus pattern (35 bp):
TATTATGTAAGTTATGTAAGTTTATGTAGTATGTA
Found at i:21325940 original size:119 final size:120
Alignment explanation
Indices: 21325664--21325943 Score: 332
Period size: 119 Copynumber: 2.3 Consensus size: 120
21325654 ATTATGTATT
* * * * * * *
21325664 ATGTAAGTCATTATGTAAGATATTATGTAAGTTATTGTGTAAGATATTATGTAAGTTACACTACG
1 ATGTAAGTTATTAAGTAAGATATGATGTAACTAATTATGTAAGATATTATGTAAGTTACACTAAG
* *
21325729 TTTTTGTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGGTACGCATTATG
66 TTTTTGTTTTTGTATATTATGTAACTTATTTAATTTATGTACGGTACGCATTATG
* * * * **
21325784 ATGTAAGTTATTATGTAAGATATTATGTAAGTTATTATGTAAGATATTATGTAAGTTA-TGTAAG
1 ATGTAAGTTATTAAGTAAGATATGATGTAACTAATTATGTAAGATATTATGTAAGTTACACTAAG
* * * *
21325848 TTTTTGTTTTTGTATATTCTGTAACTTATTTAATTTATGTACGGTATGTATTATT
66 TTTTTGTTTTTGTATATTATGTAACTTATTTAATTTATGTACGGTACGCATTATG
**
21325903 ATGTAAGTTATGTAAGTTGTGATATGAT-T-ACTAATTATGTA
1 ATGTAAGTTAT-TAAG-TAAGATATGATGTAACTAATTATGTA
21325944 TGTAAGTTAT
Statistics
Matches: 141, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
119 73 0.52
120 60 0.43
121 8 0.06
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.48
Consensus pattern (120 bp):
ATGTAAGTTATTAAGTAAGATATGATGTAACTAATTATGTAAGATATTATGTAAGTTACACTAAG
TTTTTGTTTTTGTATATTATGTAACTTATTTAATTTATGTACGGTACGCATTATG
Found at i:21326111 original size:9 final size:9
Alignment explanation
Indices: 21326097--21326174 Score: 63
Period size: 9 Copynumber: 8.7 Consensus size: 9
21326087 TATATATTAA
21326097 TAAGTTATG
1 TAAGTTATG
21326106 TAAGTTATG
1 TAAGTTATG
* *
21326115 TATTA-TAAATT
1 TA--AGT-TATG
*
21326126 TAAATTATG
1 TAAGTTATG
21326135 TAAGTTATG
1 TAAGTTATG
21326144 -AA-TTATG
1 TAAGTTATG
21326151 TAAGTTATG
1 TAAGTTATG
* *
21326160 TAAATTACG
1 TAAGTTATG
21326169 TAAGTT
1 TAAGTT
21326175 GTGAAATTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
7 5 0.09
8 4 0.07
9 39 0.71
10 2 0.04
11 5 0.09
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:21326149 original size:16 final size:16
Alignment explanation
Indices: 21326101--21326179 Score: 74
Period size: 16 Copynumber: 5.0 Consensus size: 16
21326091 TATTAATAAG
*
21326101 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGAA
* *
21326117 TTA--TAAATT-TAAA
1 TTATGTAAGTTATGAA
21326130 TTATGTAAGTTATGAA
1 TTATGTAAGTTATGAA
21326146 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATG--AA
* *
21326164 TTACGTAAGTTGTGAA
1 TTATGTAAGTTATGAA
21326180 ATTTGAACTT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
13 5 0.10
14 5 0.10
15 5 0.10
16 22 0.43
18 14 0.27
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.44
Consensus pattern (16 bp):
TTATGTAAGTTATGAA
Found at i:21326241 original size:35 final size:35
Alignment explanation
Indices: 21326201--21326282 Score: 146
Period size: 35 Copynumber: 2.3 Consensus size: 35
21326191 AAAAAGATTT
**
21326201 AAATATTTAAAAATTTTCGTGATTAAAATAAAATA
1 AAATATTTAAAAAAATTCGTGATTAAAATAAAATA
21326236 AAATATTTAAAAAAATTCGTGATTAAAATAAAATA
1 AAATATTTAAAAAAATTCGTGATTAAAATAAAATA
21326271 AAATATTTAAAA
1 AAATATTTAAAA
21326283 TATAACTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (35 bp):
AAATATTTAAAAAAATTCGTGATTAAAATAAAATA
Found at i:21326247 original size:19 final size:19
Alignment explanation
Indices: 21326223--21326284 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
21326213 ATTTTCGTGA
21326223 TTAAAATAAAATAAAATAT
1 TTAAAATAAAATAAAATAT
***
21326242 TT-AAA-AAAAT-TCGTGA-
1 TTAAAATAAAATAAAAT-AT
21326258 TTAAAATAAAATAAAATAT
1 TTAAAATAAAATAAAATAT
21326277 TTAAAATA
1 TTAAAATA
21326285 TAACTTTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
16 3 0.09
17 9 0.28
18 9 0.28
19 11 0.34
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (19 bp):
TTAAAATAAAATAAAATAT
Found at i:21330193 original size:19 final size:19
Alignment explanation
Indices: 21330169--21330211 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
21330159 ATAAGATTTC
21330169 AGAGCCACTGGTCTGTGAA
1 AGAGCCACTGGTCTGTGAA
21330188 AGAGCCACTGGTCTGTGAA
1 AGAGCCACTGGTCTGTGAA
*
21330207 GGAGC
1 AGAGC
21330212 TTCTCTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.35, T:0.19
Consensus pattern (19 bp):
AGAGCCACTGGTCTGTGAA
Found at i:21331428 original size:9 final size:9
Alignment explanation
Indices: 21331403--21331559 Score: 154
Period size: 9 Copynumber: 18.6 Consensus size: 9
21331393 GATTTAGGAA
21331403 TAAGTTATG
1 TAAGTTATG
21331412 T-A-TTATG
1 TAAGTTATG
21331419 TAAGTTATG
1 TAAGTTATG
*
21331428 TAAGTTGTG
1 TAAGTTATG
*
21331437 TAAGTTGTG
1 TAAGTTATG
21331446 T-A-TTATG
1 TAAGTTATG
* *
21331453 AAACTTATG
1 TAAGTTATG
21331462 TAAGTTATG
1 TAAGTTATG
*
21331471 TAAATTATG
1 TAAGTTATG
21331480 T-A-TTATG
1 TAAGTTATG
21331487 TAAGTTATG
1 TAAGTTATG
*
21331496 TAAGTTGTG
1 TAAGTTATG
*
21331505 TAAGTTGTG
1 TAAGTTATG
21331514 T-A-TTATG
1 TAAGTTATG
* *
21331521 AAACTTATG
1 TAAGTTATG
21331530 TAAGTTATG
1 TAAGTTATG
*
21331539 TAAATTATG
1 TAAGTTATG
21331548 T-A-TTATG
1 TAAGTTATG
21331555 TAAGT
1 TAAGT
21331560 CATTATGTAA
Statistics
Matches: 126, Mismatches: 12, Indels: 20
0.80 0.08 0.13
Matches are distributed among these distances:
7 26 0.21
8 10 0.08
9 90 0.71
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:21331448 original size:34 final size:34
Alignment explanation
Indices: 21331403--21331586 Score: 224
Period size: 34 Copynumber: 5.2 Consensus size: 34
21331393 GATTTAGGAA
*
21331403 TAAGTTATGTATTATGTAAGTTATGTAAGTTGTG
1 TAAGTTATGTATTATGTAAGTTATGTAAGTTATG
* * *
21331437 TAAGTTGTGTATTATGAAACTTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATGTAAGTTATG
* *
21331471 TAAATTATGTATTATGTAAGTTATGTAAGTTGTG
1 TAAGTTATGTATTATGTAAGTTATGTAAGTTATG
* * *
21331505 TAAGTTGTGTATTATGAAACTTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATGTAAGTTATG
*
21331539 TAAATTATGTATTATGTAAGTCATTATGTAAGATATTATG
1 TAAGTTATGTATTATGTAAG---TTATGTAAG---TTATG
21331579 TAAGTTAT
1 TAAGTTAT
21331587 TGTGTAAGAT
Statistics
Matches: 125, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
34 104 0.83
37 9 0.07
40 12 0.10
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.46
Consensus pattern (34 bp):
TAAGTTATGTATTATGTAAGTTATGTAAGTTATG
Found at i:21331516 original size:68 final size:68
Alignment explanation
Indices: 21331407--21331559 Score: 306
Period size: 68 Copynumber: 2.2 Consensus size: 68
21331397 TAGGAATAAG
21331407 TTATGTATTATGTAAGTTATGTAAGTTGTGTAAGTTGTGTATTATGAAACTTATGTAAGTTATGT
1 TTATGTATTATGTAAGTTATGTAAGTTGTGTAAGTTGTGTATTATGAAACTTATGTAAGTTATGT
21331472 AAA
66 AAA
21331475 TTATGTATTATGTAAGTTATGTAAGTTGTGTAAGTTGTGTATTATGAAACTTATGTAAGTTATGT
1 TTATGTATTATGTAAGTTATGTAAGTTGTGTAAGTTGTGTATTATGAAACTTATGTAAGTTATGT
21331540 AAA
66 AAA
21331543 TTATGTATTATGTAAGT
1 TTATGTATTATGTAAGT
21331560 CATTATGTAA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 85 1.00
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (68 bp):
TTATGTATTATGTAAGTTATGTAAGTTGTGTAAGTTGTGTATTATGAAACTTATGTAAGTTATGT
AAA
Found at i:21331566 original size:12 final size:11
Alignment explanation
Indices: 21331547--21331607 Score: 77
Period size: 12 Copynumber: 5.2 Consensus size: 11
21331537 TGTAAATTAT
21331547 GTATTATGTAA
1 GTATTATGTAA
21331558 GTCATTATGTAA
1 GT-ATTATGTAA
21331570 GATATTATGTAA
1 G-TATTATGTAA
*
21331582 GTTATTGTGTAA
1 G-TATTATGTAA
21331594 GATATTATGTAA
1 G-TATTATGTAA
21331606 GT
1 GT
21331608 TACACTACGT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
11 3 0.07
12 40 0.91
13 1 0.02
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.44
Consensus pattern (11 bp):
GTATTATGTAA
Found at i:21331608 original size:24 final size:24
Alignment explanation
Indices: 21331548--21331730 Score: 133
Period size: 24 Copynumber: 7.6 Consensus size: 24
21331538 GTAAATTATG
*
21331548 TATTATGTAAGTCATTATGTAAGA
1 TATTATGTAAGTTATTATGTAAGA
*
21331572 TATTATGTAAGTTATTGTGTAAGA
1 TATTATGTAAGTTATTATGTAAGA
* * * *
21331596 TATTATGTAAGTTA-CA-CTACGT
1 TATTATGTAAGTTATTATGTAAGA
* * * **
21331618 TTTTGTTTTTGTGTATTATGT-A-A
1 TATTATGTAAGT-TATTATGTAAGA
* * * * *
21331641 -CTTATTTAATTTATGTAGGGTACGCA
1 TATTATGTAAGTTAT-TA-TGTAAG-A
*
21331667 TTATGATGTAAGTTATTATGTAAGA
1 -TATTATGTAAGTTATTATGTAAGA
21331692 TATTATGTAAGTTATTATGTAAGA
1 TATTATGTAAGTTATTATGTAAGA
21331716 TATTATGTAAGTTAT
1 TATTATGTAAGTTAT
21331731 GTAAGTTTTT
Statistics
Matches: 119, Mismatches: 30, Indels: 20
0.70 0.18 0.12
Matches are distributed among these distances:
21 3 0.03
22 18 0.15
23 4 0.03
24 75 0.63
25 2 0.02
26 5 0.04
27 2 0.02
28 10 0.08
ACGTcount: A:0.32, C:0.04, G:0.17, T:0.47
Consensus pattern (24 bp):
TATTATGTAAGTTATTATGTAAGA
Found at i:21331687 original size:12 final size:12
Alignment explanation
Indices: 21331667--21331730 Score: 101
Period size: 12 Copynumber: 5.3 Consensus size: 12
21331657 AGGGTACGCA
*
21331667 TTATGATGTAAG
1 TTATTATGTAAG
21331679 TTATTATGTAAG
1 TTATTATGTAAG
*
21331691 ATATTATGTAAG
1 TTATTATGTAAG
21331703 TTATTATGTAAG
1 TTATTATGTAAG
*
21331715 ATATTATGTAAG
1 TTATTATGTAAG
21331727 TTAT
1 TTAT
21331731 GTAAGTTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:21331703 original size:120 final size:119
Alignment explanation
Indices: 21331552--21331801 Score: 392
Period size: 119 Copynumber: 2.1 Consensus size: 119
21331542 ATTATGTATT
* * *
21331552 ATGTAAGTCATTATGTAAGATATTATGTAAGTTATTGTGTAAGATATTATGTAAGTTACACTACG
1 ATGTAAGTTATTATGTAAGATATTATGTAAGTTATTATGTAAGATATTATGTAAGTTA-ACTAAG
* *
21331617 TTTTTGTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGGTACGCATTATG
65 TTTTTGTTTTTGTATATTATGTAACTTATTTAATTTATGTACGGTACGCATTATG
**
21331672 ATGTAAGTTATTATGTAAGATATTATGTAAGTTATTATGTAAGATATTATGTAAGTTATGTAAGT
1 ATGTAAGTTATTATGTAAGATATTATGTAAGTTATTATGTAAGATATTATGTAAGTTAACTAAGT
* * * *
21331737 TTTTGTTTTTGTATATTCTGTAACTTATTTAATTTATGTACGGTATGTATTATT
66 TTTTGTTTTTGTATATTATGTAACTTATTTAATTTATGTACGGTACGCATTATG
21331791 ATGTAAGTTAT
1 ATGTAAGTTAT
21331802 GTAAGTTGTG
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
119 63 0.53
120 56 0.47
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.49
Consensus pattern (119 bp):
ATGTAAGTTATTATGTAAGATATTATGTAAGTTATTATGTAAGATATTATGTAAGTTAACTAAGT
TTTTGTTTTTGTATATTATGTAACTTATTTAATTTATGTACGGTACGCATTATG
Found at i:21331759 original size:34 final size:35
Alignment explanation
Indices: 21331680--21331808 Score: 97
Period size: 34 Copynumber: 3.6 Consensus size: 35
21331670 TGATGTAAGT
*
21331680 TATTATGTAAGATATTATGTAAG-TTAT-TATGTAAG-A
1 TATTATGTAAG---TTATGTAAGTTTATGTA-GTATGTA
* * *
21331716 TATTATGTAAGTTATGTAAGTTTTTGT-TTTTGTA
1 TATTATGTAAGTTATGTAAGTTTATGTAGTATGTA
* * *
21331750 TATTCTGTAACTTATTTAA-TTTATGTACGGTATGTA
1 TATTATGTAAGTTATGTAAGTTTATGTA--GTATGTA
21331786 TTATTATGTAAGTTATGTAAGTT
1 -TATTATGTAAGTTATGTAAGTT
21331809 GTGATATGAT
Statistics
Matches: 72, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
33 17 0.24
34 20 0.28
35 1 0.01
36 16 0.22
37 16 0.22
38 2 0.03
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.51
Consensus pattern (35 bp):
TATTATGTAAGTTATGTAAGTTTATGTAGTATGTA
Found at i:21331828 original size:119 final size:120
Alignment explanation
Indices: 21331552--21331831 Score: 332
Period size: 119 Copynumber: 2.3 Consensus size: 120
21331542 ATTATGTATT
* * * * * * *
21331552 ATGTAAGTCATTATGTAAGATATTATGTAAGTTATTGTGTAAGATATTATGTAAGTTACACTACG
1 ATGTAAGTTATTAAGTAAGATATGATGTAACTAATTATGTAAGATATTATGTAAGTTACACTAAG
* *
21331617 TTTTTGTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGGTACGCATTATG
66 TTTTTGTTTTTGTATATTATGTAACTTATTTAATTTATGTACGGTACGCATTATG
* * * * **
21331672 ATGTAAGTTATTATGTAAGATATTATGTAAGTTATTATGTAAGATATTATGTAAGTTA-TGTAAG
1 ATGTAAGTTATTAAGTAAGATATGATGTAACTAATTATGTAAGATATTATGTAAGTTACACTAAG
* * * *
21331736 TTTTTGTTTTTGTATATTCTGTAACTTATTTAATTTATGTACGGTATGTATTATT
66 TTTTTGTTTTTGTATATTATGTAACTTATTTAATTTATGTACGGTACGCATTATG
**
21331791 ATGTAAGTTATGTAAGTTGTGATATGAT-T-ACTAATTATGTA
1 ATGTAAGTTAT-TAAG-TAAGATATGATGTAACTAATTATGTA
21331832 TGTAAGTTAT
Statistics
Matches: 141, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
119 73 0.52
120 60 0.43
121 8 0.06
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.48
Consensus pattern (120 bp):
ATGTAAGTTATTAAGTAAGATATGATGTAACTAATTATGTAAGATATTATGTAAGTTACACTAAG
TTTTTGTTTTTGTATATTATGTAACTTATTTAATTTATGTACGGTACGCATTATG
Found at i:21331966 original size:21 final size:20
Alignment explanation
Indices: 21331927--21331965 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
21331917 GTAATGTATC
*
21331927 AATTTTTAAAAATATATATA
1 AATTTTAAAAAATATATATA
21331947 AATTTT-AAAAATATATATA
1 AATTTTAAAAAATATATATA
21331966 TTAAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTTAAAAAATATATATA
Found at i:21332003 original size:9 final size:9
Alignment explanation
Indices: 21331989--21332066 Score: 63
Period size: 9 Copynumber: 8.7 Consensus size: 9
21331979 TAAATATTAA
21331989 TAAGTTATG
1 TAAGTTATG
21331998 TAAGTTATG
1 TAAGTTATG
* *
21332007 TATTA-TAAATT
1 TA--AGT-TATG
*
21332018 TAAATTATG
1 TAAGTTATG
21332027 TAAGTTATG
1 TAAGTTATG
21332036 -AA-TTATG
1 TAAGTTATG
21332043 TAAGTTATG
1 TAAGTTATG
* *
21332052 TAAATTACG
1 TAAGTTATG
21332061 TAAGTT
1 TAAGTT
21332067 GTGAAATTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
7 5 0.09
8 4 0.07
9 39 0.71
10 2 0.04
11 5 0.09
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:21332041 original size:16 final size:16
Alignment explanation
Indices: 21331993--21332071 Score: 74
Period size: 16 Copynumber: 5.0 Consensus size: 16
21331983 TATTAATAAG
*
21331993 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGAA
* *
21332009 TTA--TAAATT-TAAA
1 TTATGTAAGTTATGAA
21332022 TTATGTAAGTTATGAA
1 TTATGTAAGTTATGAA
21332038 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATG--AA
* *
21332056 TTACGTAAGTTGTGAA
1 TTATGTAAGTTATGAA
21332072 ATTTGAACTT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
13 5 0.10
14 5 0.10
15 5 0.10
16 22 0.43
18 14 0.27
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.44
Consensus pattern (16 bp):
TTATGTAAGTTATGAA
Found at i:21332133 original size:35 final size:35
Alignment explanation
Indices: 21332093--21332174 Score: 146
Period size: 35 Copynumber: 2.3 Consensus size: 35
21332083 AAAAAGATTT
**
21332093 AAATATTTAAAAATTTTCGTGATTAAAATAAAATA
1 AAATATTTAAAAAAATTCGTGATTAAAATAAAATA
21332128 AAATATTTAAAAAAATTCGTGATTAAAATAAAATA
1 AAATATTTAAAAAAATTCGTGATTAAAATAAAATA
21332163 AAATATTTAAAA
1 AAATATTTAAAA
21332175 TATAACTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (35 bp):
AAATATTTAAAAAAATTCGTGATTAAAATAAAATA
Found at i:21332139 original size:19 final size:19
Alignment explanation
Indices: 21332115--21332176 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
21332105 ATTTTCGTGA
21332115 TTAAAATAAAATAAAATAT
1 TTAAAATAAAATAAAATAT
***
21332134 TT-AAA-AAAAT-TCGTGA-
1 TTAAAATAAAATAAAAT-AT
21332150 TTAAAATAAAATAAAATAT
1 TTAAAATAAAATAAAATAT
21332169 TTAAAATA
1 TTAAAATA
21332177 TAACTTTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
16 3 0.09
17 9 0.28
18 9 0.28
19 11 0.34
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (19 bp):
TTAAAATAAAATAAAATAT
Found at i:21333863 original size:44 final size:44
Alignment explanation
Indices: 21333799--21333892 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
21333789 CTGGAAGGAG
* * *
21333799 GAAGGAGTCGATTTAGGGATTTGGGATTTCAAGAAATTCGGCAA
1 GAAGGAGGCGATTTACGGATTTGGGAATTCAAGAAATTCGGCAA
*
21333843 GAAGGAGGCGATTTACGGATTTGGGAATTCAAGAAATTGGGCAA
1 GAAGGAGGCGATTTACGGATTTGGGAATTCAAGAAATTCGGCAA
21333887 GAAGGA
1 GAAGGA
21333893 CGCAAGAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.34, C:0.09, G:0.34, T:0.23
Consensus pattern (44 bp):
GAAGGAGGCGATTTACGGATTTGGGAATTCAAGAAATTCGGCAA
Found at i:21334565 original size:16 final size:17
Alignment explanation
Indices: 21334522--21334573 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
21334512 ATACATTAAA
*
21334522 ATTTAAATATTATCAA-T
1 ATTT-AATATTATAAATT
*
21334539 ATTTAAAATTATAAATT
1 ATTTAATATTATAAATT
21334556 ATTT-ATATTATTAAATT
1 ATTTAATATTA-TAAATT
21334573 A
1 A
21334574 ATGTATTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 14 0.47
17 16 0.53
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATATTATAAATT
Found at i:21335522 original size:115 final size:115
Alignment explanation
Indices: 21335317--21335529 Score: 261
Period size: 115 Copynumber: 1.9 Consensus size: 115
21335307 TGTGCGTTTT
* * * *
21335317 GGTTAAGATATTTTGCGGCGCTTACCAAAAAGCGCCGCTAATAATATGCTTTAGCGGCGATTTAT
1 GGTTAAGATATTCTGCGGCGCATACCAAAAAGCACCGCTAATAATATACTTTAGCGGCGATTTAT
* * *
21335382 CGTGAACGCCACTAATTCCAGTATACATCAAGATTTGAACGCAGCATTTC
66 CATCAACGCCACTAATTCCAATATACATCAAGATTTGAACGCAGCATTTC
* * *
21335432 GGTTAATATATTCTGCGGCGCAT-CTAAAAACGCACCGCTAATAGTATACTTTAGCGGCG-TTT-
1 GGTTAAGATATTCTGCGGCGCATACCAAAAA-GCACCGCTAATAATATACTTTAGCGGCGATTTA
* * *
21335494 TCCAATCAGCGCCACTAATTCTAATATACCTCAAGA
65 T-C-ATCAACGCCACTAATTCCAATATACATCAAGA
21335530 CCAAACTCTG
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
113 1 0.01
114 10 0.12
115 71 0.87
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (115 bp):
GGTTAAGATATTCTGCGGCGCATACCAAAAAGCACCGCTAATAATATACTTTAGCGGCGATTTAT
CATCAACGCCACTAATTCCAATATACATCAAGATTTGAACGCAGCATTTC
Found at i:21335715 original size:229 final size:228
Alignment explanation
Indices: 21335466--21335894 Score: 605
Period size: 229 Copynumber: 1.9 Consensus size: 228
21335456 TAAAAACGCA
* * * *
21335466 CCGCTAATAGTATACTTTAGCGGCGTTTTCCAATCAGCGCCACTAATTCTAATATACCTCAAGAC
1 CCGCTAATAGTACACTTTAGCGGCGTTTTACAATAAGCGCCACTAATCCTAATATACCTCAAGAC
* * *
21335531 CAAACTCTGCGTTTTGGTGTGCATATCTTGCGGCGCTTAACT-CAAA-TGGCCGCTAATACTATT
66 CAAACTCTGCGTTTTGGTGTGCATATCTTGCGGCGATT--CTACAAATTCGCCGCTAATACTATG
* *
21335594 ATTTAGCGGCG-TTTTCTCGTAAGCGCCACTAATTATAGTATACATCAAGACCAAAACTCTG-AG
129 ATTTAGCGGCGTTTTTC-CCTAA-CGCCACTAATTATAGTATACATCAAGACCAAAACACTGCA-
21335657 TTTTGGTTAAGAAATTTAGCAGCGCTTTTGGAGAAACG
191 TTTTGGTTAAGAAATTTAGCAGCGCTTTTGGAGAAACG
* *
21335695 CCGCTAATAGTACGCTTTAGCGGCGTTTTACAGTAAGCGCCACTAATCCTAATATACCTCAAGAC
1 CCGCTAATAGTACACTTTAGCGGCGTTTTACAATAAGCGCCACTAATCCTAATATACCTCAAGAC
* * ** *
21335760 CAAACTCTGCGTTTTGGTGTGCATATCTTGCGGTGATTCTAGAAATTCGCCGCTAATGTTATGCT
66 CAAACTCTGCGTTTTGGTGTGCATATCTTGCGGCGATTCTACAAATTCGCCGCTAATACTATGAT
* * * *
21335825 TTAGCGGCGTTTTTCCCTAACGCCACTAATTGTATTATACATCGAGACCAAACCACTGCATTTTG
131 TTAGCGGCGTTTTTCCCTAACGCCACTAATTATAGTATACATCAAGACCAAAACACTGCATTTTG
21335890 GTTAA
196 GTTAA
21335895 CATTTTTTGC
Statistics
Matches: 176, Mismatches: 20, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
227 2 0.01
228 46 0.26
229 123 0.70
230 5 0.03
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (228 bp):
CCGCTAATAGTACACTTTAGCGGCGTTTTACAATAAGCGCCACTAATCCTAATATACCTCAAGAC
CAAACTCTGCGTTTTGGTGTGCATATCTTGCGGCGATTCTACAAATTCGCCGCTAATACTATGAT
TTAGCGGCGTTTTTCCCTAACGCCACTAATTATAGTATACATCAAGACCAAAACACTGCATTTTG
GTTAAGAAATTTAGCAGCGCTTTTGGAGAAACG
Found at i:21335914 original size:114 final size:111
Alignment explanation
Indices: 21335296--21335929 Score: 449
Period size: 114 Copynumber: 5.5 Consensus size: 111
21335286 ATGCATGGTT
* * * * * *
21335296 AAGACCAAAACTGTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACCAAAAAGCGCCGCTAATAA
1 AAGACC-AAACTCTGCATTTTGGTTAACATATTTTGCGGCGCTT-CTAGAAAGCGCCGCTAAT-G
* * *
21335361 TATGCTTTAGCGGCGATTTAT-CGTGAACGCCACTAATTCCAGTATACATC
63 TATGCTTTAGCGGCG-TTTTTCCGT-AACGCCACTAATTCTAATATACATC
*** * * * * * * * *
21335411 AAGATTTGAACGCAGCATTTCGGTTAATATATTCTGCGGCGCATCTAAAAACGCACCGCTAATAG
1 AAGA-CCAAACTCTGCATTTTGGTTAACATATTTTGCGGCGCTTCTAGAAA-GCGCCGCTAAT-G
* * * *
21335476 TATACTTTAGCGGCG-TTTTCCAATCAGCGCCACTAATTCTAATATACCTC
63 TATGCTTTAGCGGCGTTTTTCC-GT-AACGCCACTAATTCTAATATACATC
* * * *
21335526 AAGACCAAACTCTGCGTTTTGGTGT-GCATATCTTGCGGCGCTTAACTCA-AATG-GCCGCTAAT
1 AAGACCAAACTCTGCATTTTGGT-TAACATATTTTGCGGCGCTT--CT-AGAAAGCGCCGCTAAT
* ** * *
21335588 ACTATTATTTAGCGGCG-TTTTCTCGTAAGCGCCACTAATTATAGTATACATC
62 -GTATGCTTTAGCGGCGTTTTTC-CGTAA-CGCCACTAATTCTAATATACATC
* * * * *
21335640 AAGACCAAAACTCTG-AGTTTTGGTTAAGAAATTTAGCAGCGCTTTTGGAGAAA-CGCCGCTAAT
1 AAGACC-AAACTCTGCA-TTTTGGTTAACATATTTTGCGGCGCTTCT--AGAAAGCGCCGCTAAT
* * * * *
21335703 AGTACGCTTTAGCGGCGTTTTACAGTAAGCGCCACTAATCCTAATATACCTC
62 -GTATGCTTTAGCGGCGTTTTTCCGTAA-CGCCACTAATTCTAATATACATC
* * * * * *
21335755 AAGACCAAACTCTGCGTTTTGGTGT-GCATATCTTGCGGTGATTCTAGAAATTCGCCGCTAATGT
1 AAGACCAAACTCTGCATTTTGGT-TAACATATTTTGCGGCGCTTCTAGAAA-GCGCCGCTAATG-
* * *
21335819 TATGCTTTAGCGGCGTTTTTCCCTAACGCCACTAATTGTATTATACATC
63 TATGCTTTAGCGGCGTTTTTCCGTAACGCCACTAATTCTAATATACATC
* * * * *
21335868 GAGACCAAACCACTGCATTTTGGTTAACATTTTTTGCGGCGCTTCTATAAAGCGCCACTAAT
1 AAGACCAAA-CTCTGCATTTTGGTTAACATATTTTGCGGCGCTTCTAGAAAGCGCCGCTAAT
21335930 TCTAATATAC
Statistics
Matches: 402, Mismatches: 93, Indels: 50
0.74 0.17 0.09
Matches are distributed among these distances:
112 5 0.01
113 43 0.11
114 177 0.44
115 168 0.42
116 8 0.02
117 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (111 bp):
AAGACCAAACTCTGCATTTTGGTTAACATATTTTGCGGCGCTTCTAGAAAGCGCCGCTAATGTAT
GCTTTAGCGGCGTTTTTCCGTAACGCCACTAATTCTAATATACATC
Found at i:21335959 original size:75 final size:75
Alignment explanation
Indices: 21335845--21335986 Score: 212
Period size: 75 Copynumber: 1.9 Consensus size: 75
21335835 TTTTCCCTAA
* * * * *
21335845 CGCCACTAATTGTATTATACATCGAGACCAAACCACTGCATTTTGGTTAACATTTTTTGCGGCGC
1 CGCCACTAATTCTAATATACATCAAGACCAAAACACTGCATTTTGGTTAACATATTTTGCGGCGC
21335910 TTCTATAAAG
66 TTCTATAAAG
* * *
21335920 CGCCACTAATTCTAATATACATCAAGATCAAAACTCTGCATTTTGGTTATCATATTTTGCGGCGC
1 CGCCACTAATTCTAATATACATCAAGACCAAAACACTGCATTTTGGTTAACATATTTTGCGGCGC
21335985 TT
66 TT
21335987 TCCGTAAGCG
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 59 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (75 bp):
CGCCACTAATTCTAATATACATCAAGACCAAAACACTGCATTTTGGTTAACATATTTTGCGGCGC
TTCTATAAAG
Found at i:21335996 original size:75 final size:75
Alignment explanation
Indices: 21335836--21336003 Score: 205
Period size: 75 Copynumber: 2.3 Consensus size: 75
21335826 TAGCGGCGTT
* * * * * *
21335836 TTTCCCTAA-CGCCACTAATTGTATTATACATCGAGACCAAACCACTGCATTTTGGTTAACATTT
1 TTTCCATAAGCGCCACTAATTCTAATATACATCAAGACCAAAACACTGCATTTTGGTTAACATAT
21335900 TTTGCGGCGC
66 TTTGCGGCGC
* * * *
21335910 -TTCTATAAAGCGCCACTAATTCTAATATACATCAAGATCAAAACTCTGCATTTTGGTTATCATA
1 TTTCCAT-AAGCGCCACTAATTCTAATATACATCAAGACCAAAACACTGCATTTTGGTTAACATA
21335974 TTTTGCGGCGC
65 TTTTGCGGCGC
* *
21335985 TTTCCGTAAGCGCCGCTAA
1 TTTCCATAAGCGCCACTAA
21336004 GACTTGTTTT
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
73 4 0.05
74 2 0.03
75 68 0.87
76 4 0.05
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.33
Consensus pattern (75 bp):
TTTCCATAAGCGCCACTAATTCTAATATACATCAAGACCAAAACACTGCATTTTGGTTAACATAT
TTTGCGGCGC
Found at i:21336122 original size:113 final size:113
Alignment explanation
Indices: 21335914--21336189 Score: 313
Period size: 113 Copynumber: 2.4 Consensus size: 113
21335904 CGGCGCTTCT
* ** * * *
21335914 ATAAAGCGCCACTAATTCTAATATACATCAAGATCAAAACTCTGCATTTTGGTTATCATATTTTG
1 ATAAA-CGCCACTAATTCTAATATACATCAAGACCAAAACGATGCGTTTTCGTTAACATATTTTG
* * * * * *
21335979 CGGCGCTTTCCGTAAGCGCCGCTAAGACTTGTTTTA-CTGGCGTTTTTTT
65 CGGCACTTCCCGCAAGCGCCGCTAAGACTTGCTTTAGC-GGCGTTTTATC
* * * *
21336028 GTAAACGCCACTAATTCTAATATACATCGATACCAAAACGATGCGTTTTCGTTAAGAT-TTTTGC
1 ATAAACGCCACTAATTCTAATATACATCAAGACCAAAACGATGCGTTTTCGTTAACATATTTTGC
*
21336092 GGCACTTCCCGCAATGCGCCGCTAATACTTGCTTTAGCGGCGTTTTATC
66 GGCACTTCCCGCAA-GCGCCGCTAAGACTTGCTTTAGCGGCGTTTTATC
* * ** *
21336141 ATAATCGCCACTAATTATTGTATACATCAAGACAAAAACGATGCGTTTT
1 ATAAACGCCACTAATTCTAATATACATCAAGACCAAAACGATGCGTTTT
21336190 GGTCTTGAGA
Statistics
Matches: 135, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
112 17 0.13
113 113 0.84
114 5 0.04
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (113 bp):
ATAAACGCCACTAATTCTAATATACATCAAGACCAAAACGATGCGTTTTCGTTAACATATTTTGC
GGCACTTCCCGCAAGCGCCGCTAAGACTTGCTTTAGCGGCGTTTTATC
Found at i:21339311 original size:6 final size:7
Alignment explanation
Indices: 21339290--21339315 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21339280 ATATTTGTTG
21339290 TTTATTT
1 TTTATTT
21339297 TTTATTT
1 TTTATTT
21339304 TTTATTT
1 TTTATTT
21339311 TTTAT
1 TTTAT
21339316 GAAACTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTATTT
Found at i:21343446 original size:17 final size:19
Alignment explanation
Indices: 21343412--21343450 Score: 55
Period size: 17 Copynumber: 2.1 Consensus size: 19
21343402 TTTTAGAAGA
21343412 AAAAAAATCATATCAAAATT
1 AAAAAAATCATA-CAAAATT
21343432 AAAAAAA-CATA-AAAATT
1 AAAAAAATCATACAAAATT
21343449 AA
1 AA
21343451 TACATCCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
19 4 0.21
20 7 0.37
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (19 bp):
AAAAAAATCATACAAAATT
Found at i:21344585 original size:6 final size:6
Alignment explanation
Indices: 21344574--21344598 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21344564 CCCTTCATCC
21344574 ATCTAT ATCTAT ATCTAT ATCTAT A
1 ATCTAT ATCTAT ATCTAT ATCTAT A
21344599 ATATATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (6 bp):
ATCTAT
Found at i:21345415 original size:29 final size:28
Alignment explanation
Indices: 21345367--21345423 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
21345357 CTTTCTCCTC
21345367 TTAATTATATTCAATAAATAAAATAATA
1 TTAATTATATTCAATAAATAAAATAATA
* *
21345395 TTAATTCATATAT-AATTAATAAATTAATA
1 TTAATT-ATAT-TCAATAAATAAAATAATA
21345424 AAGTAACGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 18 0.72
30 1 0.04
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (28 bp):
TTAATTATATTCAATAAATAAAATAATA
Found at i:21355549 original size:16 final size:15
Alignment explanation
Indices: 21355524--21355557 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
21355514 AAAGTTGATA
*
21355524 ATAATTAATATATATT
1 ATAATAAATATA-ATT
21355540 ATAATAAATATAATT
1 ATAATAAATATAATT
21355555 ATA
1 ATA
21355558 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:21360264 original size:120 final size:120
Alignment explanation
Indices: 21360126--21360418 Score: 500
Period size: 120 Copynumber: 2.4 Consensus size: 120
21360116 AATTATTTTA
* * * *
21360126 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
*
21360189 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
21360246 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTACTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
21360311 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
21360366 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
21360419 TAAATATGAT
Statistics
Matches: 165, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
119 4 0.02
120 159 0.96
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:21360286 original size:15 final size:15
Alignment explanation
Indices: 21360251--21360292 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21360241 TTAAGAATTT
*
21360251 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21360265 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21360279 TATTTAATAATAAT
1 TATTTAATTATAAT
21360293 TATGTTACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21360401 original size:16 final size:16
Alignment explanation
Indices: 21360380--21360421 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
21360370 TTATTAAATT
*
21360380 ATATATTTTAATTATA
1 ATATATTTTAATAATA
21360396 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
21360411 AT-TATGTTTAA
1 ATATAT-TTTAA
21360422 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:21360406 original size:15 final size:15
Alignment explanation
Indices: 21360371--21360412 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21360361 TTAAGAATTT
*
21360371 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21360385 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21360399 TATTTAATAATAAT
1 TATTTAATTATAAT
21360413 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21360562 original size:157 final size:157
Alignment explanation
Indices: 21360355--21360671 Score: 555
Period size: 157 Copynumber: 2.0 Consensus size: 157
21360345 ATAAGAATAT
*
21360355 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
21360420 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
21360485 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
21360512 TAATTA-TAAGAATTTTATTAAATTATATATTATTAATTAAAATATATTTAATAATAATTATGTT
1 TAATTATTAAGAATTTTATTAAATTATATATT-TTAATTAAAATATATTTAATAATAATTATGTT
21360576 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
65 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
* *
21360641 ATAATCATTTACCAAAACAATTTTATGC
130 ATAATAATTTACCAAAACAAATTTATGC
21360669 TAA
1 TAA
21360672 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
156 25 0.16
157 127 0.84
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:21360788 original size:44 final size:45
Alignment explanation
Indices: 21360723--21360813 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
21360713 ACCTCTATTC
* * *
21360723 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
21360767 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
21360812 CA
1 CA
21360814 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:21360828 original size:17 final size:16
Alignment explanation
Indices: 21360794--21360846 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
21360784 GATTAGCTAT
21360794 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
21360810 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
21360827 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
21360843 TACA
1 TACA
21360847 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:21377879 original size:17 final size:18
Alignment explanation
Indices: 21377857--21377900 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
21377847 TCAATTTTGT
21377857 TATCGATTTT-AAAAAGG
1 TATCGATTTTAAAAAAGG
21377874 TATCGATTTTAAAAAAGG
1 TATCGATTTTAAAAAAGG
*
21377892 TATTGATTT
1 TATCGATTT
21377901 AGTATCAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.41
Consensus pattern (18 bp):
TATCGATTTTAAAAAAGG
Found at i:21378739 original size:14 final size:14
Alignment explanation
Indices: 21378720--21378751 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
21378710 CAGATTAAGT
21378720 TAATTATTTATGAG
1 TAATTATTTATGAG
*
21378734 TAATTATTTTTGAG
1 TAATTATTTATGAG
21378748 TAAT
1 TAAT
21378752 GACATGTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (14 bp):
TAATTATTTATGAG
Found at i:21388703 original size:27 final size:27
Alignment explanation
Indices: 21388658--21388909 Score: 295
Period size: 26 Copynumber: 9.5 Consensus size: 27
21388648 TATATCTATG
21388658 TAGGGT-AAATGACCGAAATACCCTCA
1 TAGGGTAAAATGACCGAAATACCCTCA
* **
21388684 TAGGATAAAATGACTAAAATACTCC-CA
1 TAGGGTAAAATGACCGAAATAC-CCTCA
* * *
21388711 TTGGGTAAAATGATCGAAATACCCCCA
1 TAGGGTAAAATGACCGAAATACCCTCA
* *
21388738 TAGGGT-AAATGATCGAAATACCCCCA
1 TAGGGTAAAATGACCGAAATACCCTCA
* * * *
21388764 TAAGGT-AAATGATCAAAATACCCTTA
1 TAGGGTAAAATGACCGAAATACCCTCA
*
21388790 TAGTGTAAAATGACCGAAATACCCTCA
1 TAGGGTAAAATGACCGAAATACCCTCA
21388817 TAGGGT-AAATGACCGAAATAGCCCT-A
1 TAGGGTAAAATGACCGAAATA-CCCTCA
21388843 TAGGGT-AAATGACCGAAATAACCC-CA
1 TAGGGTAAAATGACCGAAAT-ACCCTCA
*
21388869 TAGGGTAGAATGACCGAAATACCCTCA
1 TAGGGTAAAATGACCGAAATACCCTCA
21388896 TAGGGTAAAATGAC
1 TAGGGTAAAATGAC
21388910 TATTATGGCC
Statistics
Matches: 196, Mismatches: 21, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
26 101 0.52
27 93 0.47
28 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (27 bp):
TAGGGTAAAATGACCGAAATACCCTCA
Found at i:21388757 original size:53 final size:51
Alignment explanation
Indices: 21388658--21388909 Score: 299
Period size: 53 Copynumber: 4.8 Consensus size: 51
21388648 TATATCTATG
* **
21388658 TAGGGTAAATGACCGAAATACCCTCATAGGATAAAATGACTAAAATACTCCCA
1 TAGGGTAAATGACCGAAATACCCTCATAGGGT-AAATGACCGAAATAC-CCCA
* * * *
21388711 TTGGGTAAAATGATCGAAATACCCCCATAGGGTAAATGATCGAAATACCCCCA
1 TAGGGT-AAATGACCGAAATACCCTCATAGGGTAAATGACCGAAATA-CCCCA
* * * * *
21388764 TAAGGTAAATGATCAAAATACCCTTATAGTGTAAAATGACCGAAATACCCTCA
1 TAGGGTAAATGACCGAAATACCCTCATAGGGT-AAATGACCGAAATACCC-CA
21388817 TAGGGTAAATGACCGAAATAGCCCT-ATAGGGTAAATGACCGAAATAACCCCA
1 TAGGGTAAATGACCGAAATA-CCCTCATAGGGTAAATGACCGAAAT-ACCCCA
21388869 TAGGGTAGAATGACCGAAATACCCTCATAGGGTAAAATGAC
1 TAGGGTA-AATGACCGAAATACCCTCATAGGGT-AAATGAC
21388910 TATTATGGCC
Statistics
Matches: 172, Mismatches: 18, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
52 51 0.30
53 86 0.50
54 35 0.20
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (51 bp):
TAGGGTAAATGACCGAAATACCCTCATAGGGTAAATGACCGAAATACCCCA
Found at i:21388802 original size:79 final size:77
Alignment explanation
Indices: 21388658--21388909 Score: 308
Period size: 79 Copynumber: 3.2 Consensus size: 77
21388648 TATATCTATG
* *
21388658 TAGGGTAAATGACCGAAATACCCTCAT-AGGATAAAATGACTAAAATACTCCCATTGGGTAAAAT
1 TAGGGTAAATGACCGAAATACCCCCATAAGG-T-AAATGAC-AAAATAC-CCCATAGGGTAAAAT
* *
21388722 GATCGAAATACCCCCA
62 GACCGAAATACCCTCA
* * *
21388738 TAGGGTAAATGATCGAAATACCCCCATAAGGTAAATGATCAAAATACCCTTATAGTGTAAAATGA
1 TAGGGTAAATGACCGAAATACCCCCATAAGGTAAATGA-CAAAATACCC-CATAGGGTAAAATGA
21388803 CCGAAATACCCTCA
64 CCGAAATACCCTCA
* * * * *
21388817 TAGGGTAAATGACCGAAATAGCCCTATAGGGTAAATGACCGAAATAACCCCATAGGGTAGAATGA
1 TAGGGTAAATGACCGAAATACCCCCATAAGGTAAATGA-CAAAAT-ACCCCATAGGGTAAAATGA
21388882 CCGAAATACCCTCA
64 CCGAAATACCCTCA
21388896 TAGGGTAAAATGAC
1 TAGGGT-AAATGAC
21388910 TATTATGGCC
Statistics
Matches: 151, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
78 2 0.01
79 108 0.72
80 38 0.25
81 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (77 bp):
TAGGGTAAATGACCGAAATACCCCCATAAGGTAAATGACAAAATACCCCATAGGGTAAAATGACC
GAAATACCCTCA
Found at i:21395516 original size:14 final size:15
Alignment explanation
Indices: 21395487--21395530 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
21395477 CAAAATAGAC
*
21395487 ATTTTCATTAAATTA
1 ATTTTAATTAAATTA
21395502 ATTTTAATT-AATTA
1 ATTTTAATTAAATTA
21395516 ATTTTCTAATTAAAT
1 A-TTT-TAATTAAAT
21395531 GATTTTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 6 0.24
15 11 0.44
16 5 0.20
17 3 0.12
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTTAATTAAATTA
Found at i:21402750 original size:25 final size:22
Alignment explanation
Indices: 21402703--21402750 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 22
21402693 ATGCAAGCAT
21402703 TTTCATTATTTTTTTAATTCAA
1 TTTCATTATTTTTTTAATTCAA
*
21402725 TTTCTTTAGTTTTGTTTACATTCAA
1 TTTCATTA-TTTT-TTTA-ATTCAA
21402750 T
1 T
21402751 AAAATTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 4 0.18
24 4 0.18
25 7 0.32
ACGTcount: A:0.23, C:0.10, G:0.04, T:0.62
Consensus pattern (22 bp):
TTTCATTATTTTTTTAATTCAA
Found at i:21406830 original size:32 final size:29
Alignment explanation
Indices: 21406786--21406844 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 29
21406776 TCTTTTATTT
21406786 TCCTACTCCTTTTTTCCATCCTCCTCCTTTGC
1 TCCTACTCCTTTTTT-C-TCCTCC-CCTTTGC
21406818 TCCT-CTCTCTTTTTTCTCCTCCCCTTT
1 TCCTACTC-CTTTTTTCTCCTCCCCTTT
21406845 TACACCACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 5 0.19
30 6 0.23
31 4 0.15
32 11 0.42
ACGTcount: A:0.03, C:0.44, G:0.02, T:0.51
Consensus pattern (29 bp):
TCCTACTCCTTTTTTCTCCTCCCCTTTGC
Found at i:21418394 original size:42 final size:42
Alignment explanation
Indices: 21418330--21418433 Score: 190
Period size: 42 Copynumber: 2.5 Consensus size: 42
21418320 ACAGCCAAGC
* *
21418330 CACATGCCCGTGTGCCAGGCTGTGTAACTCTCGAAATGGCCT
1 CACACGCCCGTGTGCCAGGCTGTGTAACTCTCAAAATGGCCT
21418372 CACACGCCCGTGTGCCAGGCTGTGTAACTCTCAAAATGGCCT
1 CACACGCCCGTGTGCCAGGCTGTGTAACTCTCAAAATGGCCT
21418414 CACACGCCCGTGTGCCAGGC
1 CACACGCCCGTGTGCCAGGC
21418434 CATGTGCTAG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.19, C:0.35, G:0.26, T:0.20
Consensus pattern (42 bp):
CACACGCCCGTGTGCCAGGCTGTGTAACTCTCAAAATGGCCT
Found at i:21419287 original size:41 final size:41
Alignment explanation
Indices: 21419242--21419405 Score: 213
Period size: 41 Copynumber: 4.0 Consensus size: 41
21419232 GTGCTATTTG
* * *
21419242 GGGTACCGTAGTACAAATAGGGGCACATATGTGCAGTTCAA
1 GGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAA
* * * *
21419283 GGGTACTGAAGTACAAACAGGGGCACTTATGTGGAATTCAG
1 GGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAA
* * *
21419324 GGGTACCGAAGTACAAACAGGGGCACTTATGTGCAATTTAG
1 GGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAA
*
21419365 GGGTACCGAA-TAACAAACAAGGGCACATATGTGCAATTCAA
1 GGGTACCGAAGT-ACAAACAGGGGCACATATGTGCAATTCAA
21419406 AGTATAATTA
Statistics
Matches: 108, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 1 0.01
41 107 0.99
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (41 bp):
GGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAA
Found at i:21421686 original size:16 final size:17
Alignment explanation
Indices: 21421659--21421707 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
21421649 CAGAATCGGG
*
21421659 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
21421676 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
* *
21421692 TTAATTAAAATTAATT
1 TTGA-GAAAATTAATT
21421708 TATGATGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 13 0.48
17 5 0.19
18 9 0.33
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:21441244 original size:14 final size:14
Alignment explanation
Indices: 21441225--21441256 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
21441215 ATGGTCTAAC
21441225 TTCTCATGCAACAT
1 TTCTCATGCAACAT
21441239 TTCTCATGCAACAT
1 TTCTCATGCAACAT
21441253 TTCT
1 TTCT
21441257 AACTTAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (14 bp):
TTCTCATGCAACAT
Found at i:21443427 original size:27 final size:27
Alignment explanation
Indices: 21443075--21443426 Score: 436
Period size: 27 Copynumber: 13.1 Consensus size: 27
21443065 TCGATATCTA
* **
21443075 GACCGAAATACCCCTAAAGGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
* **
21443102 GACCGAAATACCCCCATAGGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
*
21443129 GACCGTAATACCCCAGTAGGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
*
21443156 GACCATAATACCCCTGTAGGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
* * * *
21443183 AATCGTAATACCCCTATAGAGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
* * * *
21443210 AATCGTAATGCCCCTATAGGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
*
21443237 GACCATAATACCCCTGTAGGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
* * *
21443264 AACCGTAATGCCCCTGTAAGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
* *
21443291 GATCGTAAT-GCCCTGTAGGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
*
21443317 GACCGTAATGCCCCTGTAGGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
* * *
21443344 GATCGTAATGCCCCTATAGGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
*
21443371 GACCGTAATACCCCTGTAAGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
* *
21443398 GATCGTAATACCCCTGTAAGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
21443425 GA
1 GA
21443427 TTATTTTTTT
Statistics
Matches: 288, Mismatches: 36, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 23 0.08
27 265 0.92
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (27 bp):
GACCGTAATACCCCTGTAGGGTAAAAT
Found at i:21443696 original size:32 final size:32
Alignment explanation
Indices: 21443650--21443833 Score: 162
Period size: 32 Copynumber: 5.8 Consensus size: 32
21443640 GCTGCGATGC
* * *
21443650 TACTAATGGCTTTGTGTCGATCATAGTACCAT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
21443682 TACTGATGGCTTTGTGCCGATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* * * * *
21443714 TGCTAATGGCATTGTACCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* *
21443746 TA-TCGATGG-TTGTGTGCCGATCAT-TTCACTGT
1 TACT-GATGGCTT-TGTGCCGATCATAGT-ACCGT
* * **
21443778 TACTGAT-GATTGTGTGCCAATCATA-TCACAAT
1 TACTGATGGCTT-TGTGCCGATCATAGT-ACCGT
21443810 TACTGATGGCTTTGTGCCGATCAT
1 TACTGATGGCTTTGTGCCGATCAT
21443834 GTTATCGTTA
Statistics
Matches: 127, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
31 5 0.04
32 118 0.93
33 4 0.03
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAGTACCGT
Found at i:21443895 original size:96 final size:96
Alignment explanation
Indices: 21443664--21443896 Score: 265
Period size: 96 Copynumber: 2.4 Consensus size: 96
21443654 AATGGCTTTG
* * ** *
21443664 TGTCGATCATAGT-ACCATTACTGATGGCTTTGTGCCGATCATAGTACCGTTGCTAATGGCATTG
1 TGTCGATCATA-TCACTATTACTGATGGCTTTGTGCCAATCATAGTACAATTACTAATGGCATTG
*
21443728 TACCGATCATATTACCGTTATCGATGGTTGTG
65 TACCGATCATATTACCGTTATCGATGGTTGTA
* * * * * *
21443760 TGCCGATCATTTCACTGTTACTGAT-GATTGTGTGCCAATCATA-TCACAATTACTGATGGCTTT
1 TGTCGATCATATCACTATTACTGATGGCTT-TGTGCCAATCATAGT-ACAATTACTAATGGCATT
* * *
21443823 GTGCCGATCATGTTATCGTTATCGATGGTTGTA
64 GTACCGATCATATTACCGTTATCGATGGTTGTA
* *
21443856 TGTCGATCATATCACTACTACTGATGGCTTTGTGTCAATCA
1 TGTCGATCATATCACTATTACTGATGGCTTTGTGCCAATCA
21443897 CATTACTGTA
Statistics
Matches: 112, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
95 5 0.04
96 104 0.93
97 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (96 bp):
TGTCGATCATATCACTATTACTGATGGCTTTGTGCCAATCATAGTACAATTACTAATGGCATTGT
ACCGATCATATTACCGTTATCGATGGTTGTA
Found at i:21452246 original size:40 final size:40
Alignment explanation
Indices: 21452180--21452275 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
21452170 AGCGCTAATA
*
21452180 GAAAAACACCGCAATAA-GTAAAGCAATAGCGGCATTTATAG
1 GAAAAACGCCGCAA-AAGGT-AAGCAATAGCGGCATTTATAG
* * *
21452221 GAAAAACGCCTCAAAAGGTAAGCAATAGCGGCGTTTATGG
1 GAAAAACGCCGCAAAAGGTAAGCAATAGCGGCATTTATAG
21452261 GAAAAACGCCGCAAA
1 GAAAAACGCCGCAAA
21452276 TTTTTTTACT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 35 0.71
41 14 0.29
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.15
Consensus pattern (40 bp):
GAAAAACGCCGCAAAAGGTAAGCAATAGCGGCATTTATAG
Found at i:21452407 original size:48 final size:48
Alignment explanation
Indices: 21452341--21452467 Score: 170
Period size: 48 Copynumber: 2.6 Consensus size: 48
21452331 GCACGAATTA
* *
21452341 TTTTCTTTCTCAGTCTTTTCTTTACTTGAAACCCCAAAA-TCTTGTCCC
1 TTTTCTTTCTCAGACTTTTCTTTACTTGAAACCCCAAAATTC-CGTCCC
*
21452389 TTTTCTTT-TCCAGACTTTTCTTTGCTTGAAACCCCAAAATTCCGTCCC
1 TTTTCTTTCT-CAGACTTTTCTTTACTTGAAACCCCAAAATTCCGTCCC
*
21452437 TTTTCTTTCTCA-ATCTTTTCGTTACTTGAAA
1 TTTTCTTTCTCAGA-CTTTTCTTTACTTGAAA
21452468 AAAATATACA
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
47 2 0.03
48 65 0.93
49 3 0.04
ACGTcount: A:0.19, C:0.28, G:0.07, T:0.46
Consensus pattern (48 bp):
TTTTCTTTCTCAGACTTTTCTTTACTTGAAACCCCAAAATTCCGTCCC
Found at i:21454412 original size:22 final size:22
Alignment explanation
Indices: 21454387--21454436 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
21454377 TTGTTAAGAA
* *
21454387 CTATAAACAGGATAGCTATAAG
1 CTATAAACAGAATAGCTACAAG
*
21454409 CTATAAACAGAATGGCTACAAG
1 CTATAAACAGAATAGCTACAAG
*
21454431 CCATAA
1 CTATAA
21454437 GTACAGTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.20
Consensus pattern (22 bp):
CTATAAACAGAATAGCTACAAG
Found at i:21454528 original size:32 final size:32
Alignment explanation
Indices: 21454485--21454663 Score: 277
Period size: 32 Copynumber: 5.6 Consensus size: 32
21454475 TGATATGTTT
* *
21454485 GGCACACAGCCATCAGTAACGGTAATATGACC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* * *
21454517 GGTATAAAGCCATTAGTAACGGTAATATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* *
21454549 GGCACAAAGCCATCAGTAACGATAATATGACC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
21454581 GGCACAAAGCCATCAGTAACGGTAATATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
*
21454613 GGCACAAAGCCATCAGTAACGATAATATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
*
21454645 GGCACAAATCCATCAGTAA
1 GGCACAAAGCCATCAGTAA
21454664 TATCGCAGCA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 133 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (32 bp):
GGCACAAAGCCATCAGTAACGGTAATATGATC
Found at i:21454532 original size:64 final size:64
Alignment explanation
Indices: 21454456--21454663 Score: 290
Period size: 64 Copynumber: 3.2 Consensus size: 64
21454446 TATGATTTGT
* * * * * * * * *
21454456 ACAAAGTCATTAGTAGCAGTGATATGTTTGGCACACAGCCATCAGTAACGGTAATATGACCGGT
1 ACAAAGCCATTAGTAACGGTAATATGATCGGCACAAAGCCATCAGTAACGATAATATGACCGGC
*
21454520 ATAAAGCCATTAGTAACGGTAATATGATCGGCACAAAGCCATCAGTAACGATAATATGACCGGC
1 ACAAAGCCATTAGTAACGGTAATATGATCGGCACAAAGCCATCAGTAACGATAATATGACCGGC
* *
21454584 ACAAAGCCATCAGTAACGGTAATATGATCGGCACAAAGCCATCAGTAACGATAATATGATCGGC
1 ACAAAGCCATTAGTAACGGTAATATGATCGGCACAAAGCCATCAGTAACGATAATATGACCGGC
* *
21454648 ACAAATCCATCAGTAA
1 ACAAAGCCATTAGTAA
21454664 TATCGCAGCA
Statistics
Matches: 130, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 130 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (64 bp):
ACAAAGCCATTAGTAACGGTAATATGATCGGCACAAAGCCATCAGTAACGATAATATGACCGGC
Found at i:21454736 original size:27 final size:26
Alignment explanation
Indices: 21454706--21454770 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
21454696 AGCAAAGCTG
21454706 CCAGTAATAGTATATGTGGCCA-AGCCA
1 CCAGTAATAGTAT-TGTGG-CAGAGCCA
*
21454733 CCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAATAGT-ATTGTGGCAGAGCCA
*
21454760 CCAAT-ATAGTA
1 CCAGTAATAGTA
21454771 CTTCCTCCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 1 0.03
26 6 0.18
27 24 0.73
28 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (26 bp):
CCAGTAATAGTATTGTGGCAGAGCCA
Found at i:21454912 original size:24 final size:24
Alignment explanation
Indices: 21454854--21454916 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
21454844 ACATGCTTAG
** * *
21454854 AATCAATCATACAAATTATAGACA
1 AATCAATCATTTACATTACAGACA
*
21454878 AATCAGTCATTTACATTACAGACA
1 AATCAATCATTTACATTACAGACA
21454902 AATCAATCATTTACA
1 AATCAATCATTTACA
21454917 CTTAAGGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.48, C:0.19, G:0.05, T:0.29
Consensus pattern (24 bp):
AATCAATCATTTACATTACAGACA
Found at i:21455010 original size:27 final size:27
Alignment explanation
Indices: 21454933--21455212 Score: 305
Period size: 27 Copynumber: 10.4 Consensus size: 27
21454923 GGGCAAAATA
**
21454933 GTCA-TTTACCCCCCAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* ** * *
21454959 ATCATTTTACGTTA-TGGGAGTATTACG
1 GTCATTTTACCCTACAGGG-GCATTACG
21454986 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
21455013 GTCATTTTACCCTACAGAGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
** * *
21455040 GTCATTTTACCCTATGGGGGTATTACT
1 GTCATTTTACCCTACAGGGGCATTACG
* **
21455067 GTTATTTTACCCTATGGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
21455094 GTCATTTTACCCCACA-GGGCTATTATG
1 GTCATTTTACCCTACAGGGGC-ATTACG
* *
21455121 GTTATTTTACCTTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
** *
21455148 ACCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
21455175 GTCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
21455202 GTCATTATACC
1 GTCATTTTACC
21455213 TATTTTAGGG
Statistics
Matches: 211, Mismatches: 38, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
26 10 0.05
27 194 0.92
28 7 0.03
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:21458557 original size:32 final size:32
Alignment explanation
Indices: 21458511--21458668 Score: 192
Period size: 32 Copynumber: 4.9 Consensus size: 32
21458501 ATAAGTGCAA
* *
21458511 TAATATGA-CTGGCACAAAGCCATCAGTAGCAG
1 TAATATGATC-GGCACAAAGCCATCAGTAACGG
* * * *
21458543 TGATATGTTCGGCACACAGCCAACAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
21458575 TAATATGATCGGCACAAAGCCATCAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
* * *
21458607 TAATATGATCAGCATAAAGCCATTAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
* * *
21458639 TAATATGATCGGTACAAATCCATCAATAAC
1 TAATATGATCGGCACAAAGCCATCAGTAAC
21458669 ATCGCAGCAA
Statistics
Matches: 106, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
32 105 0.99
33 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.22
Consensus pattern (32 bp):
TAATATGATCGGCACAAAGCCATCAGTAACGG
Found at i:21458741 original size:27 final size:27
Alignment explanation
Indices: 21458710--21458773 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
21458700 AACAATGTTG
*
21458710 CCAGTAATAGT-ATATGTGGCCA-AGCCA
1 CCAGTAACAGTGAT-TGTGG-CAGAGCCA
21458737 CCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAACAGTGATTGTGGCAGAGCCA
*
21458764 CTAGT-ACAGT
1 CCAGTAACAGT
21458774 ACTTCCTCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 7 0.21
27 24 0.73
28 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCAGAGCCA
Found at i:21458879 original size:24 final size:24
Alignment explanation
Indices: 21458852--21458900 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
21458842 AGTCATACAA
21458852 ATCACAGACAAATCAATCATTTAC
1 ATCACAGACAAATCAATCATTTAC
* * * *
21458876 ATCACGGACAAGTTAATTATTTAC
1 ATCACAGACAAATCAATCATTTAC
21458900 A
1 A
21458901 CTCGAAGGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (24 bp):
ATCACAGACAAATCAATCATTTAC
Found at i:21458967 original size:27 final size:27
Alignment explanation
Indices: 21458917--21459187 Score: 265
Period size: 27 Copynumber: 10.1 Consensus size: 27
21458907 GGGTAAAATA
* * *
21458917 GTCA-TTTACCCTTTATGGGCATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
*** *
21458943 GTCATTTTATGTTATGGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* * *
21458970 GTTATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
*
21458997 ATCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* * *
21459024 GTTATTTTACCCTACAGGGGTATTACA
1 GTCATTTTACCCTATAGGGGTATTACG
* * * * *
21459051 GTTATTTTAACCTATAAGGGCATTATG
1 GTCATTTTACCCTATAGGGGTATTACG
* *
21459078 GTCATTTTACCCTATGGGGGCATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* * * * *
21459105 ATTAATTTACCCTACAGGGGTATTATG
1 GTCATTTTACCCTATAGGGGTATTACG
* *
21459132 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* *
21459159 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
21459186 GT
1 GT
21459188 TATTATACTT
Statistics
Matches: 199, Mismatches: 45, Indels: 1
0.81 0.18 0.00
Matches are distributed among these distances:
26 4 0.02
27 195 0.98
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTACG
Found at i:21458991 original size:54 final size:54
Alignment explanation
Indices: 21458933--21459187 Score: 303
Period size: 54 Copynumber: 4.7 Consensus size: 54
21458923 TACCCTTTAT
*** * *
21458933 GGGCATTACGGTCATTTTATGTTATGGGGGTATTACGGTTATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAG
* *
21458987 GGGCATTACGATCATTTTACCCTATAGGGGTATTACGGTTATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAG
* * * * * * * **
21459041 GGGTATTACAGTTATTTTAACCTATAAGGGCATTATGGTCATTTTACCCTATGG
1 GGGCATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAG
* * * * *
21459095 GGGCATTACGATTAATTTACCCTACAGGGGTATTATGGTCATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAG
* *
21459149 GGGCATTACGGTCATTTTACCCTACAGGGGCATTACGGT
1 GGGCATTACGGTCATTTTACCCTATAGGGGTATTACGGT
21459188 TATTATACTT
Statistics
Matches: 170, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 170 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (54 bp):
GGGCATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAG
Found at i:21459022 original size:81 final size:81
Alignment explanation
Indices: 21458917--21459191 Score: 354
Period size: 81 Copynumber: 3.4 Consensus size: 81
21458907 GGGTAAAATA
* * * *** **
21458917 GTCA-TTTACCCTTTATGGGCATTACGGTCATTTTATGTTATGGGGGTATTACGGTTATTTTACC
1 GTCATTTTACCCTATAGGGGCATTACGGTTATTTTACCCTACAGGGGTATTACGGTTATTTTACC
21458981 CTACAGGGGCATTACG
66 CTACAGGGGCATTACG
* * * *
21458997 ATCATTTTACCCTATAGGGGTATTACGGTTATTTTACCCTACAGGGGTATTACAGTTATTTTAAC
1 GTCATTTTACCCTATAGGGGCATTACGGTTATTTTACCCTACAGGGGTATTACGGTTATTTTACC
* * *
21459062 CTATAAGGGCATTATG
66 CTACAGGGGCATTACG
* * * * *
21459078 GTCATTTTACCCTATGGGGGCATTACGATTAATTTACCCTACAGGGGTATTATGGTCATTTTACC
1 GTCATTTTACCCTATAGGGGCATTACGGTTATTTTACCCTACAGGGGTATTACGGTTATTTTACC
21459143 CTACAGGGGCATTACG
66 CTACAGGGGCATTACG
*
21459159 GTCATTTTACCCTACAGGGGCATTACGGTTATT
1 GTCATTTTACCCTATAGGGGCATTACGGTTATT
21459192 ATACTTATTT
Statistics
Matches: 163, Mismatches: 31, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
80 3 0.02
81 160 0.98
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (81 bp):
GTCATTTTACCCTATAGGGGCATTACGGTTATTTTACCCTACAGGGGTATTACGGTTATTTTACC
CTACAGGGGCATTACG
Found at i:21463962 original size:22 final size:22
Alignment explanation
Indices: 21463895--21463962 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 22
21463885 TGACTTAAAC
*
21463895 CTATTTAGAACACTTACGTAAT
1 CTATTTAGAACACTTAAGTAAT
* * *
21463917 CATAGTATA-AACA-TGAATTAAAT
1 C-TA-TTTAGAACACTTAAGT-AAT
21463940 CTATTTAGAACACTTAAGTAAT
1 CTATTTAGAACACTTAAGTAAT
21463962 C
1 C
21463963 GTAATTTATT
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
21 3 0.09
22 14 0.41
23 14 0.41
24 3 0.09
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.34
Consensus pattern (22 bp):
CTATTTAGAACACTTAAGTAAT
Found at i:21472365 original size:43 final size:42
Alignment explanation
Indices: 21472299--21472498 Score: 199
Period size: 43 Copynumber: 4.7 Consensus size: 42
21472289 TAAATTTAGT
* *
21472299 GATACGGGGAATCACCACATAGCAACCCCTTTCACAATCAAA
1 GATACGGGGAATCAGCACTTAGCAACCCCTTTCACAATCAAA
* * * * **
21472341 GATACGGTGGAATCAACACTTAGCACCCACCTTTC-TATTCACT
1 GATACGG-GGAATCAGCACTTAGCAACC-CCTTTCACAATCAAA
*
21472384 GATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAA
1 GATACGGGGAATCAGCACTTAGCAACCCCTTTCACAATCAAA
* * * * *
21472426 TATACAGTGCAATCAGTACTTAGCAACCACCTTT-AGAATCAATA
1 GATAC-GGGGAATCAGCACTTAGCAACC-CCTTTCACAATCAA-A
*
21472470 -ATTCGGGGAATCAGCACTTAGCAACCCCT
1 GATACGGGGAATCAGCACTTAGCAACCCCT
21472499 CGGGGAATCC
Statistics
Matches: 128, Mismatches: 24, Indels: 13
0.78 0.15 0.08
Matches are distributed among these distances:
41 9 0.07
42 51 0.40
43 56 0.44
44 12 0.09
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.22
Consensus pattern (42 bp):
GATACGGGGAATCAGCACTTAGCAACCCCTTTCACAATCAAA
Found at i:21472406 original size:85 final size:85
Alignment explanation
Indices: 21472273--21472498 Score: 285
Period size: 85 Copynumber: 2.7 Consensus size: 85
21472263 GTGGATTTAG
* * *
21472273 CACTTAGCAACCACC-TTA-AATTTAGTGATACGGGGAATCACCACATAGCAACCCCTTTCACAA
1 CACTTAGCAACCACCTTTAGAA-TCAATGATACGGGGAATCAGCACATAGCAACCCCTTTCACAA
* *
21472336 TCAAAGATACGGTGGAATCAA
65 TCAAAGATACAGTGCAATCAA
* ** * *
21472357 CACTTAGCACCCACCTTTCTATTCACTGATACGGGGAATCAGCACATAGCAACCCCTTTCACAAT
1 CACTTAGCAACCACCTTTAGAATCAATGATACGGGGAATCAGCACATAGCAACCCCTTTCACAAT
* *
21472422 CAAATATACAGTGCAATCAG
66 CAAAGATACAGTGCAATCAA
* * * *
21472442 TACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCCT
1 CACTTAGCAACCACCTTTAGAATCAATGATACGGGGAATCAGCACATAGCAACCCCT
21472499 CGGGGAATCC
Statistics
Matches: 121, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
84 14 0.12
85 106 0.88
86 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (85 bp):
CACTTAGCAACCACCTTTAGAATCAATGATACGGGGAATCAGCACATAGCAACCCCTTTCACAAT
CAAAGATACAGTGCAATCAA
Found at i:21472501 original size:26 final size:26
Alignment explanation
Indices: 21472472--21472524 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
21472462 AATCAATAAT
21472472 TCGGGGAAT-CAGCACTTAGCA-ACCCC
1 TCGGGGAATCCA-CACTTAG-AGACCCC
21472498 TCGGGGAATCCACACTTAGAGACCCC
1 TCGGGGAATCCACACTTAGAGACCCC
21472524 T
1 T
21472525 TTTTATCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 1 0.04
26 22 0.88
27 2 0.08
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (26 bp):
TCGGGGAATCCACACTTAGAGACCCC
Found at i:21477280 original size:26 final size:26
Alignment explanation
Indices: 21477251--21477302 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
21477241 AGTTAACCTA
21477251 CTGCTACTGTCCAAAACTATTTTAGT
1 CTGCTACTGTCCAAAACTATTTTAGT
*
21477277 CTGCTACTGTCCAAAACTGTTTTAGT
1 CTGCTACTGTCCAAAACTATTTTAGT
21477303 GCAAAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.38
Consensus pattern (26 bp):
CTGCTACTGTCCAAAACTATTTTAGT
Done.