Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003620.1 Hibiscus syriacus cultivar Beakdansim tig00007658_pilon, whole genome shotgun sequence
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: 323556
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:9592 original size:48 final size:48
Alignment explanation
Indices: 9521--9612 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
9511 ATAAAGATTA
*
9521 TTTTAAAATTACGTTTTTTCATTTTCAGATATAAAGCCACTAAATCAC
1 TTTTAAAATTACATTTTTTCATTTTCAGATATAAAGCCACTAAATCAC
* * *
9569 TTTTAAAATTATATTTTTTCATTTTCAGATGTAAAGCCGCTAAA
1 TTTTAAAATTACATTTTTTCATTTTCAGATATAAAGCCACTAAA
9613 CCACCTTCGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (48 bp):
TTTTAAAATTACATTTTTTCATTTTCAGATATAAAGCCACTAAATCAC
Found at i:22505 original size:20 final size:20
Alignment explanation
Indices: 22461--22648 Score: 114
Period size: 20 Copynumber: 9.2 Consensus size: 20
22451 AATGACCAAC
**
22461 AAAATCGCAACGCGA-TATC
1 AAAATCGCAACGCGATTAAG
*
22480 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTAAG
* * *
22500 AAAATCGTAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTAAG
*
22520 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TAAG
* ***
22540 AAAATCGCAACACGATATTCC
1 AAAATCGCAACGCGAT-TAAG
*
22561 AAGAATCGCAATGCGATTAAG
1 AA-AATCGCAACGCGATTAAG
* * ***
22582 AGAATCACAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TAAG
* *
22603 AAGAATCGCAATGCGATTCAG
1 AA-AATCGCAACGCGATTAAG
22624 AAAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTAAG
22644 AAAAT
1 AAAAT
22649 GAGTAAATTC
Statistics
Matches: 127, Mismatches: 32, Indels: 19
0.71 0.18 0.11
Matches are distributed among these distances:
18 1 0.01
19 15 0.12
20 73 0.57
21 13 0.10
22 25 0.20
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGATTAAG
Found at i:22603 original size:42 final size:42
Alignment explanation
Indices: 22537--22639 Score: 161
Period size: 42 Copynumber: 2.5 Consensus size: 42
22527 CAACGGTCAA
*
22537 AAGAAAATCGCAACACGATATTCCAAGAATCGCAATGCGATT
1 AAGAAAATCGCAACGCGATATTCCAAGAATCGCAATGCGATT
* * *
22579 AAGAGAATCACAACGCGATCTTCCAAGAATCGCAATGCGATT
1 AAGAAAATCGCAACGCGATATTCCAAGAATCGCAATGCGATT
*
22621 CAGAAAATCGCAACGCGAT
1 AAGAAAATCGCAACGCGAT
22640 TAAGAAAATG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.17
Consensus pattern (42 bp):
AAGAAAATCGCAACGCGATATTCCAAGAATCGCAATGCGATT
Found at i:22758 original size:5 final size:5
Alignment explanation
Indices: 22748--22785 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
22738 CGTATTACCA
22748 CGACC CGACC CGACC CGACC CGACC CGACC CGACC CGA
1 CGACC CGACC CGACC CGACC CGACC CGACC CGACC CGA
22786 GACGGCGGCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.21, C:0.58, G:0.21, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:23336 original size:6 final size:6
Alignment explanation
Indices: 23277--23335 Score: 109
Period size: 6 Copynumber: 9.8 Consensus size: 6
23267 CGTCTCGGGT
23277 CGTGGC CGTGGC CGTGGC CGTGGC CGTGGC CGTGGC CGTGGC CGTGGC
1 CGTGGC CGTGGC CGTGGC CGTGGC CGTGGC CGTGGC CGTGGC CGTGGC
*
23325 CGTGGT CGTGG
1 CGTGGC CGTGG
23336 TAATACGTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.00, C:0.31, G:0.51, T:0.19
Consensus pattern (6 bp):
CGTGGC
Found at i:23462 original size:20 final size:19
Alignment explanation
Indices: 23431--23678 Score: 178
Period size: 20 Copynumber: 12.3 Consensus size: 19
23421 GAATTTACTC
*
23431 ATTTTCTGAATCGCATTGCG
1 ATTTT-TGAATCGCGTTGCG
*
23451 ATTTTATTAATCGCGTTGCG
1 ATTTT-TGAATCGCGTTGCG
* *
23471 ATTCTTGGAATCGCATTGCG
1 ATT-TTTGAATCGCGTTGCG
*
23491 ATTTTCTTAATCGCGTTGCG
1 ATTTT-TGAATCGCGTTGCG
*
23511 ATTCTTGGAATCGCGTTGCG
1 ATT-TTTGAATCGCGTTGCG
23531 ATTTTCTGAATCGCGTTGCG
1 ATTTT-TGAATCGCGTTGCG
* *
23551 ATTCTTGGAAGATCGCGTTGCA
1 ATT-TTTG-A-ATCGCGTTGCG
*
23573 ATTTTATGAATCGCATTGCG
1 ATTTT-TGAATCGCGTTGCG
*
23593 ATTCTTGGAAGATCGCGTTGCG
1 ATT-TTTG-A-ATCGCGTTGCG
* *
23615 ATCTTCTT--TTCAACGTTGCG
1 AT-TT-TTGAATC-GCGTTGCG
* *
23635 CTTTTCTAAATCGCGTTGCG
1 ATTTT-TGAATCGCGTTGCG
*
23655 -GTTTTGATATCGCGTTGCG
1 ATTTTTGA-ATCGCGTTGCG
23674 ATTTT
1 ATTTT
23679 GTTGGTCATT
Statistics
Matches: 181, Mismatches: 28, Indels: 38
0.73 0.11 0.15
Matches are distributed among these distances:
18 3 0.02
19 23 0.13
20 111 0.61
21 15 0.08
22 27 0.15
23 2 0.01
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (19 bp):
ATTTTTGAATCGCGTTGCG
Found at i:23524 original size:60 final size:60
Alignment explanation
Indices: 23431--23678 Score: 227
Period size: 62 Copynumber: 4.1 Consensus size: 60
23421 GAATTTACTC
* * * *
23431 ATTTTCTGAATCGCATTGCGATTTTATTAATCGCGTTGCGATTCTTGGAATCGCATTGCG
1 ATTTTCTTAATCGCGTTGCGATTTTATGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
* *
23491 ATTTTCTTAATCGCGTTGCGATTCTT-GGAATCGCGTTGCGATT-TTCTGAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATT-TTATGAATCGCGTTGCGATTCTT-GGAATCGCGTTGCG
*** * *
23551 ATTCTTGGAAGATCGCGTTGCAATTTTATGAATCGCATTGCGATTCTTGGAAGATCGCGTTGCG
1 ATT-TTCTTA-ATCGCGTTGCGATTTTATGAATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCG
* * * * * * *
23615 ATCTTCTT-TTCAACGTTGCGCTTTTCTAAATCGCGTTGCGGTT-TT-GATATCGCGTTGCG
1 ATTTTCTTAATC-GCGTTGCGATTTTATGAATCGCGTTGCGATTCTTGGA-ATCGCGTTGCG
23674 ATTTT
1 ATTTT
23679 GTTGGTCATT
Statistics
Matches: 152, Mismatches: 27, Indels: 19
0.77 0.14 0.10
Matches are distributed among these distances:
59 18 0.12
60 52 0.34
61 11 0.07
62 53 0.35
63 5 0.03
64 13 0.09
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (60 bp):
ATTTTCTTAATCGCGTTGCGATTTTATGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
Found at i:23583 original size:42 final size:40
Alignment explanation
Indices: 23438--23616 Score: 250
Period size: 40 Copynumber: 4.4 Consensus size: 40
23428 CTCATTTTCT
* *
23438 GAATCGCATTGCGATTTTATTAATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTTTATGAATCGCGTTGCGATTCTTG
* * *
23478 GAATCGCATTGCGATTTTCTTAATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTTTATGAATCGCGTTGCGATTCTTG
*
23518 GAATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTTTATGAATCGCGTTGCGATTCTTG
* *
23558 GAAGATCGCGTTGCAATTTTATGAATCGCATTGCGATTCTTG
1 G-A-ATCGCGTTGCGATTTTATGAATCGCGTTGCGATTCTTG
23600 GAAGATCGCGTTGCGAT
1 G-A-ATCGCGTTGCGAT
23617 CTTCTTTTCA
Statistics
Matches: 130, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 78 0.60
41 1 0.01
42 51 0.39
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (40 bp):
GAATCGCGTTGCGATTTTATGAATCGCGTTGCGATTCTTG
Found at i:26165 original size:30 final size:30
Alignment explanation
Indices: 26129--26201 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
26119 CCCGAAGGAC
26129 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
26159 CTATCCAGAGGTTATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
26189 CTGTCCATAGGTC
1 CTATCCAGAGGTC
26202 CCGAAGAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:26218 original size:30 final size:30
Alignment explanation
Indices: 26175--26268 Score: 89
Period size: 31 Copynumber: 3.1 Consensus size: 30
26165 AGAGGTTATA
* * *
26175 AAGATCCTCGGTAACTGTCCATAGGTCCCG
1 AAGAACCTAGGTAACTGTCCATATGTCCCG
* * *
26205 AAGAACCTAGGTAAACTATCCATATGTTCCT
1 AAGAACCTAGGT-AACTGTCCATATGTCCCG
* * *
26236 TAGAACATAGGTATACTGTCCATATGTCTCG
1 AAGAACCTAGGTA-ACTGTCCATATGTCCCG
26267 AA
1 AA
26269 AGACATAGGT
Statistics
Matches: 49, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
30 11 0.22
31 38 0.78
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (30 bp):
AAGAACCTAGGTAACTGTCCATATGTCCCG
Found at i:26275 original size:31 final size:30
Alignment explanation
Indices: 26184--26279 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 30
26174 AAAGATCCTC
* * *
26184 GGTAACTGTCCATAGGTCCCGAAGAACCTA
1 GGTAACTGTCCATATGTCTCGAAGAACATA
* **
26214 GGTAAACTATCCATATGT-TCCTTAGAACATA
1 GGT-AACTGTCCATATGTCT-CGAAGAACATA
26245 GGTATACTGTCCATATGTCTCGAA-AGACATA
1 GGTA-ACTGTCCATATGTCTCGAAGA-ACATA
26276 GGTA
1 GGTA
26280 GTTCTTTGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
30 5 0.10
31 46 0.88
32 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (30 bp):
GGTAACTGTCCATATGTCTCGAAGAACATA
Found at i:33127 original size:94 final size:95
Alignment explanation
Indices: 33017--33242 Score: 328
Period size: 95 Copynumber: 2.4 Consensus size: 95
33007 TTTTTTAACT
*
33017 GTTAATCGAACCAAAATTTATTTGAAAATTTTTAACCAAACCAAATTAACCAAAAT-TTTTTCCT
1 GTTAATCGAACCAAAATTTATTTGAAAATTATTAACCAAACCAAATTAACCAAAATATTTTTCCT
33081 TAAAATTAATCGAACCAAAATTATTTGACC
66 TAAAATTAATCGAACCAAAATTATTTGACC
* * * * * *
33111 GTTAATCGAACTAAAATTTATTTGAAAATTATTAAACGAACCAAATTAACCGAATTATTTTTCTT
1 GTTAATCGAACCAAAATTTATTTGAAAATTATTAACCAAACCAAATTAACCAAAATATTTTTCCT
* * *
33176 TAACATTAATTGAACCGAAATTATTTGACC
66 TAAAATTAATCGAACCAAAATTATTTGACC
* * *
33206 GTTAATTGAACCGAAATTTATTTGAAAATTGTTAACC
1 GTTAATCGAACCAAAATTTATTTGAAAATTATTAACC
33243 TAATTTTTTT
Statistics
Matches: 116, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
94 50 0.43
95 66 0.57
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.36
Consensus pattern (95 bp):
GTTAATCGAACCAAAATTTATTTGAAAATTATTAACCAAACCAAATTAACCAAAATATTTTTCCT
TAAAATTAATCGAACCAAAATTATTTGACC
Found at i:33203 original size:15 final size:15
Alignment explanation
Indices: 33180--33223 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
33170 TTTCTTTAAC
33180 ATTAATTGAACCGAA
1 ATTAATTGAACCGAA
*
33195 ATTATTTG-ACCG--
1 ATTAATTGAACCGAA
33207 -TTAATTGAACCGAA
1 ATTAATTGAACCGAA
33221 ATT
1 ATT
33224 TATTTGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 8
0.70 0.06 0.24
Matches are distributed among these distances:
11 6 0.26
12 4 0.17
14 4 0.17
15 9 0.39
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (15 bp):
ATTAATTGAACCGAA
Found at i:33265 original size:81 final size:81
Alignment explanation
Indices: 33155--33329 Score: 262
Period size: 81 Copynumber: 2.2 Consensus size: 81
33145 AACGAACCAA
* * * *
33155 ATTAACCGAATTATTTTTCTTTAACATTAATTGAACCGAAATTATTTGACCGTTAATTGAACCGA
1 ATTAACCAAATTATTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCCA
*
33220 AATTTATTTGAAAATT
66 AATTTATTTGAAAAAT
* *
33236 GTTAACCTAATT-TTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCC
1 ATTAACCAAATTATTTTTCTTTAA-CATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCC
*
33300 AATTTTATTTGAAAAAT
65 AAATTTATTTGAAAAAT
33317 ATTAACCAAATTA
1 ATTAACCAAATTA
33330 ACCGAATAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
80 11 0.13
81 72 0.87
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (81 bp):
ATTAACCAAATTATTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCCA
AATTTATTTGAAAAAT
Found at i:33605 original size:159 final size:163
Alignment explanation
Indices: 33239--33611 Score: 384
Period size: 169 Copynumber: 2.3 Consensus size: 163
33229 GAAAATTGTT
* * *
33239 AACCTAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCCAATT
1 AACCGAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAAAAT
* *
33304 TTATTTGAAAAATATTAACCAAATTAACCGAATAAAATAATTTATTTTTCTTTAACTGTTTAATC
66 TTATTTG-AAAATATT-----AATTAACCGAATAAAATAA-TTATTTTTCCTTAACCGTTTAATC
* * **
33369 GTACCAAAATTTATTTGAGAATAATTAACCGAACCAAATC
124 GAACCAAAATTTATTTGAAAATAATTAACAAAACCAAATC
* *
33409 AACCG-ATTTTTTTCTTTAACCATTAA-CTGAACCGAAATTATTTGATCGTTAATCGAAAATCAA
1 AACCGAATTTTTTTCTTTAACCATTAATC-GAACCGAAATTATTTGACCGTTAATCG--AACCAA
* * *
33472 AATTTATTTG-AAA-ATT-ATTAATCGAATAAAATAA-T-TTTTTCCTTAACCG-TTAGTTGAAC
63 AATTTATTTGAAAATATTAATTAACCGAATAAAATAATTATTTTTCCTTAACCGTTTAATCGAAC
* * * * * *
33531 CGAAATTTATTTGAAAATTATTAATAAAATCGAATT
128 CAAAATTTATTTGAAAATAATTAACAAAACCAAATC
* * *
33567 AACTGAATTTTTTTCTTTAATCATTAATCGAACTGAAATTTATTT
1 AACCGAATTTTTTTCTTTAACCATTAATCGAACCGAAA-TTATTT
33612 AAACAAATAA
Statistics
Matches: 174, Mismatches: 23, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
158 38 0.22
159 40 0.23
160 8 0.05
162 17 0.10
168 4 0.02
169 50 0.29
170 4 0.02
171 13 0.07
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (163 bp):
AACCGAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAAAAT
TTATTTGAAAATATTAATTAACCGAATAAAATAATTATTTTTCCTTAACCGTTTAATCGAACCAA
AATTTATTTGAAAATAATTAACAAAACCAAATC
Found at i:33606 original size:69 final size:62
Alignment explanation
Indices: 33471--33611 Score: 147
Period size: 69 Copynumber: 2.2 Consensus size: 62
33461 TCGAAAATCA
* * *
33471 AAATTTATTTGAAAATTATTAATCGAATAAAATAATTTTTTCCTTAACCGTTAGTTGAACCG
1 AAATTTATTTGAAAATTATTAATCGAATAAAATAATTTTTTCCTTAACCATTAATCGAACCG
* * * *
33533 AAATTTATTTGAAAATTATTAATAAAATCGAATTAACTGAATTTTTTTCTTTAATCATTAATCGA
1 AAATTTATTTGAAAATTA-T--T--AATCGAATAAAAT-AA-TTTTTTCCTTAACCATTAATCGA
*
33598 ACTG
59 ACCG
33602 AAATTTATTT
1 AAATTTATTT
33612 AAACAAATAA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
62 18 0.28
63 1 0.02
65 1 0.02
67 11 0.17
68 2 0.03
69 31 0.48
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (62 bp):
AAATTTATTTGAAAATTATTAATCGAATAAAATAATTTTTTCCTTAACCATTAATCGAACCG
Found at i:39837 original size:20 final size:20
Alignment explanation
Indices: 39794--39987 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
39784 TCAGTTTCCA
* ** *
39794 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
39814 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
39834 AAATCGCAACTCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
39854 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
39874 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
39894 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
39914 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
39934 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
39954 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
39975 AAATCGCAACGCG
1 AAATCGCAACGCG
39988 ATATTTAAAG
Statistics
Matches: 144, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:39839 original size:60 final size:58
Alignment explanation
Indices: 39733--39864 Score: 158
Period size: 60 Copynumber: 2.2 Consensus size: 58
39723 AAATGACCAA
* * * *
39733 CAAAATCGCAACGCGAAATAAAAATCGCAACGCGATCCCCAGAATCGCAAATCAGTTTC
1 CAAAATCGCAACGCGAAATAAAAATCGCAACGCGATACACAAAATCGCAAATC-GTATC
* *
39792 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA-ACACATAAATCGCAACTCGTATC
1 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGATACACA-AAATCGCAAATCGTATC
*
39851 CGTAAATCGCAACG
1 C-AAAATCGCAACG
39865 TGTATCCGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
59 25 0.40
60 38 0.60
ACGTcount: A:0.41, C:0.28, G:0.16, T:0.15
Consensus pattern (58 bp):
CAAAATCGCAACGCGAAATAAAAATCGCAACGCGATACACAAAATCGCAAATCGTATC
Found at i:39878 original size:60 final size:60
Alignment explanation
Indices: 39794--39987 Score: 237
Period size: 60 Copynumber: 3.2 Consensus size: 60
39784 TCAGTTTCCA
* ** * *
39794 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACTCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACTCGTATCCGT
* * ***
39854 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAA-TGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACT-CGTATCCGT
* ** *
39914 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACTCGTATCCGT
39975 AAATCGCAACGCG
1 AAATCGCAACGCG
39988 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
59 1 0.01
60 80 0.72
61 30 0.27
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACTCGTATCCGT
Found at i:40407 original size:33 final size:33
Alignment explanation
Indices: 40368--40438 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
40358 TTCACTTAGA
*
40368 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
40401 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
40434 TTTCA
1 TTTCA
40439 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:40575 original size:41 final size:41
Alignment explanation
Indices: 40517--40594 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
40507 TTGCAGAAGA
*
40517 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
40558 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
40595 CGCAACGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:40591 original size:21 final size:21
Alignment explanation
Indices: 40518--40593 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
40508 TGCAGAAGAG
*
40518 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
***
40539 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
40559 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
40580 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
40594 TCGCAACGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.46, C:0.17, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:40597 original size:14 final size:14
Alignment explanation
Indices: 40578--40634 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
40568 GAGAAATGAA
40578 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
40592 AATCGCAACGCGATATGAA
1 AATCGCAA--CG--A-GAG
40611 AATCGCAACGAGAG
1 AATCGCAACGAGAG
40625 AATCGCAACG
1 AATCGCAACG
40635 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:40613 original size:33 final size:33
Alignment explanation
Indices: 40573--40637 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
40563 AACGAGAGAA
40573 ATGAAAATCGCAACGAGAGAATCGCAACGCGAT
1 ATGAAAATCGCAACGAGAGAATCGCAACGCGAT
40606 ATGAAAATCGCAACGAGAGAATCGCAACGCGA
1 ATGAAAATCGCAACGAGAGAATCGCAACGCGA
40638 AACCAAAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.11
Consensus pattern (33 bp):
ATGAAAATCGCAACGAGAGAATCGCAACGCGAT
Found at i:40646 original size:33 final size:33
Alignment explanation
Indices: 40576--40650 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
40566 GAGAGAAATG
* **
40576 AAAATCGCAACGAGAGAATCGCAACGCGATATG
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
40609 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
40642 AAAATCGCA
1 AAAATCGCA
40651 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.45, C:0.24, G:0.21, T:0.09
Consensus pattern (33 bp):
AAAATCGCAACGAGAGAATCGCAACGCGAAACC
Found at i:40668 original size:19 final size:19
Alignment explanation
Indices: 40646--40743 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
40636 GAAACCAAAA
*
40646 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
40665 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
40679 TCTCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
40698 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
40712 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
40731 TCGCGTTGCGATT
1 TCGCGTTGCGATT
40744 CTCTCGTTGC
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
14 20 0.33
16 4 0.07
17 5 0.08
19 32 0.52
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:40687 original size:14 final size:14
Alignment explanation
Indices: 40668--40757 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
40658 TTTCATTTCG
40668 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
40682 CGTTGCGATTTTTATTTCG
1 CGTTGCGA----T-TCTCT
40701 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
40715 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
40734 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
40748 CGTTGCGATT
1 CGTTGCGATT
40758 TTCATTTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 31 0.52
15 2 0.03
16 2 0.03
17 2 0.03
18 2 0.03
19 21 0.35
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:40693 original size:33 final size:33
Alignment explanation
Indices: 40651--40765 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
40641 CAAAATCGCA
40651 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
40684 TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
40717 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
40750 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
40766 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:42621 original size:93 final size:93
Alignment explanation
Indices: 42462--43116 Score: 1285
Period size: 93 Copynumber: 7.1 Consensus size: 93
42452 TAGATTGCTT
*
42462 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
42527 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
42555 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
42620 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
42648 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
42713 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
42741 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
42806 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
42834 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
42899 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
42927 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
42992 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
43020 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAATA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
43085 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
43112 AGTAA
1 AGTAA
43117 TGCAATCCAT
Statistics
Matches: 560, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
92 6 0.01
93 554 0.99
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:43204 original size:19 final size:19
Alignment explanation
Indices: 43164--43292 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
43154 TAGTTTACTT
* *
43164 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
43184 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
43203 TCGCAACGCGAAATAAAAA
1 TCGCAACGCGAAACCAAAA
*
43222 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
43236 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
43255 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
43269 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
43288 TCGCA
1 TCGCA
43293 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:43238 original size:33 final size:32
Alignment explanation
Indices: 43200--43292 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
43190 CGCGAAACCA
**
43200 AAATCGCAACGCGAAATAAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
43232 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
43265 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
43293 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:43290 original size:52 final size:52
Alignment explanation
Indices: 43164--43292 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 52
43154 TAGTTTACTT
* **
43164 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACGCGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
*** *
43216 TAAAAATCGC--AACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAA-CGCGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
43269 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACGCGAAACACAAAATCGCA
43293 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
51 3 0.05
52 47 0.78
53 7 0.12
54 3 0.05
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (52 bp):
TCGCAACGCGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:43310 original size:19 final size:19
Alignment explanation
Indices: 43288--43422 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
43278 GAAACCAAAA
*
43288 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
43307 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
43323 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
43340 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
43356 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
43373 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
43392 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
43412 TCGTGTTGCGA
1 TCGCGTTGCGA
43423 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:43329 original size:14 final size:14
Alignment explanation
Indices: 43310--43366 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
43300 TTTCATTTCG
43310 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
43324 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
43341 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
43357 CGTTGCGATT
1 CGTTGCGATT
43367 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:43335 original size:33 final size:33
Alignment explanation
Indices: 43293--43385 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
43283 CAAAATCGCA
*
43293 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
43326 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
43359 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
43386 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:45361 original size:14 final size:14
Alignment explanation
Indices: 45342--45377 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
45332 ATTGTTTAAT
45342 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
45356 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
45370 TGATTTGT
1 TGATTTGT
45378 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:45500 original size:19 final size:19
Alignment explanation
Indices: 45484--45528 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
45474 AAAAATGACT
45484 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
45503 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
45522 ATCGCAA
1 ATCGCAA
45529 CGAGAGAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:45590 original size:33 final size:33
Alignment explanation
Indices: 45553--45805 Score: 205
Period size: 33 Copynumber: 7.3 Consensus size: 33
45543 TGCGTTTATA
45553 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
45586 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * *
45626 -TTT-GCGATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGC-A-TTGCGATTCTCTCGTTGCGATTTTC
45657 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
45690 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * *
45730 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
45761 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
45794 ATTTCCGCATTG
1 ATTT-CGCATTG
45806 TAACACCCTC
Statistics
Matches: 175, Mismatches: 20, Indels: 49
0.72 0.08 0.20
Matches are distributed among these distances:
31 14 0.08
32 13 0.07
33 78 0.45
34 7 0.04
35 10 0.06
36 8 0.05
37 4 0.02
38 18 0.10
39 9 0.05
40 14 0.08
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:45593 original size:52 final size:52
Alignment explanation
Indices: 45553--45805 Score: 488
Period size: 52 Copynumber: 4.8 Consensus size: 52
45543 TGCGTTTATA
45553 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
45605 ATTTCGCATTGCGATTCTCTCTTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
45657 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
45709 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
45761 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTG
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTG
45806 TAACACCCTC
Statistics
Matches: 198, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
52 191 0.96
53 7 0.04
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:45599 original size:19 final size:19
Alignment explanation
Indices: 45575--45805 Score: 268
Period size: 19 Copynumber: 13.2 Consensus size: 19
45565 GATTCTCTCG
45575 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
45594 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
45613 TTGCGA--TTC---TCTCT
1 TTGCGATTTTCATTTCGCA
45627 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
45646 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
45665 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
45679 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
45698 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
45717 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
45731 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
45750 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
45769 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
45783 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
45803 TTG
1 TTG
45806 TAACACCCTC
Statistics
Matches: 181, Mismatches: 10, Indels: 41
0.78 0.04 0.18
Matches are distributed among these distances:
14 27 0.15
16 24 0.13
17 22 0.12
18 2 0.01
19 103 0.57
20 3 0.02
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:54334 original size:12 final size:12
Alignment explanation
Indices: 54317--54341 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54307 TCTTCGGGGA
54317 CTTTTTCTTCTT
1 CTTTTTCTTCTT
54329 CTTTTTCTTCTT
1 CTTTTTCTTCTT
54341 C
1 C
54342 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:55271 original size:20 final size:20
Alignment explanation
Indices: 55243--55472 Score: 228
Period size: 20 Copynumber: 11.5 Consensus size: 20
55233 AAATTTCAGT
* * *
55243 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
55263 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
55283 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
55303 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
55323 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
55343 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
55363 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
55383 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
55403 GTTGCGATTTACGGATACGA
1 GTTGCGATTTACGGATTCGC
*
55423 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
55443 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
55463 GTTGCGATTT
1 GTTGCGATTT
55473 TGGAAAATCG
Statistics
Matches: 180, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 179 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:55489 original size:21 final size:21
Alignment explanation
Indices: 55459--55541 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
55449 ATTTTCATAT
*
55459 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
55480 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
55501 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
55522 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
55542 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:55532 original size:42 final size:43
Alignment explanation
Indices: 55439--55537 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
55429 ATTTATGTGT
* *
55439 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
55480 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
55522 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
55538 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:64259 original size:172 final size:172
Alignment explanation
Indices: 63973--64316 Score: 672
Period size: 172 Copynumber: 2.0 Consensus size: 172
63963 TTATCAATTT
63973 CTACATCAAGTCTATTCATATGACACCTATACATTTTAATACTTACCGCTTCTTAATTATACTAA
1 CTACATCAAGTCTATTCATATGACACCTATACATTTTAATACTTACCGCTTCTTAATTATACTAA
64038 CAATAGTTTCGATTAAACGAGTCGTACCTCTGAAGAGCCTATGGTTACGCTCCTCCCATATAAAA
66 CAATAGTTTCGATTAAACGAGTCGTACCTCTGAAGAGCCTATGGTTACGCTCCTCCCATATAAAA
64103 TAAATGAAACCAGACCAGGCCAGCTTAAGGACCTGAACCATA
131 TAAATGAAACCAGACCAGGCCAGCTTAAGGACCTGAACCATA
64145 CTACATCAAGTCTATTCATATGACACCTATACATTTTAATACTTACCGCTTCTTTAATTATACTA
1 CTACATCAAGTCTATTCATATGACACCTATACATTTTAATACTTACCGCTTC-TTAATTATACTA
64210 ACAATAG-TTCGATTAAACGAGTCGTACCTCTGAAGAGCCTATGGTTACGCTCCTCCCATATAAA
65 ACAATAGTTTCGATTAAACGAGTCGTACCTCTGAAGAGCCTATGGTTACGCTCCTCCCATATAAA
64274 ATAAATGAAACCAGACCAGGCCAGCTTAAGGACCTGAACCATA
130 ATAAATGAAACCAGACCAGGCCAGCTTAAGGACCTGAACCATA
64317 AGAGATTTCC
Statistics
Matches: 171, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
172 152 0.89
173 19 0.11
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.28
Consensus pattern (172 bp):
CTACATCAAGTCTATTCATATGACACCTATACATTTTAATACTTACCGCTTCTTAATTATACTAA
CAATAGTTTCGATTAAACGAGTCGTACCTCTGAAGAGCCTATGGTTACGCTCCTCCCATATAAAA
TAAATGAAACCAGACCAGGCCAGCTTAAGGACCTGAACCATA
Found at i:72320 original size:2 final size:2
Alignment explanation
Indices: 72313--72346 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
72303 ATGTAGACAA
72313 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72347 GGGTGTCTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:79067 original size:31 final size:31
Alignment explanation
Indices: 79032--79093 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
79022 CCACATACTG
79032 ATGATATCGAGGAAAGCCATCATGCATACAT
1 ATGATATCGAGGAAAGCCATCATGCATACAT
79063 ATGATATCGAGGAAAGCCATCATGCATACAT
1 ATGATATCGAGGAAAGCCATCATGCATACAT
79094 CTGAGTGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (31 bp):
ATGATATCGAGGAAAGCCATCATGCATACAT
Found at i:83521 original size:18 final size:18
Alignment explanation
Indices: 83483--83529 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
83473 TTTTAAATAA
*
83483 AAATTAATATAATATTTTT
1 AAATTAAT-TAATAGTTTT
*
83502 AAATTAATTTATAGTTTT
1 AAATTAATTAATAGTTTT
83520 AAA-TAATTAA
1 AAATTAATTAA
83530 AAAACCACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 6 0.24
18 11 0.44
19 8 0.32
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
AAATTAATTAATAGTTTT
Found at i:96136 original size:24 final size:24
Alignment explanation
Indices: 96103--96148 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
96093 CCCAGATTCA
96103 GTAGCCAATTCATG-TTGAGGCTCG
1 GTAGCCAATTCATGCTT-AGGCTCG
*
96127 GTAGCTAATTCATGCTTAGGCT
1 GTAGCCAATTCATGCTTAGGCT
96149 TAGCCTGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.33
Consensus pattern (24 bp):
GTAGCCAATTCATGCTTAGGCTCG
Found at i:96158 original size:36 final size:36
Alignment explanation
Indices: 96118--96189 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
96108 CAATTCATGT
* * *
96118 TGAGGCTCGGTAGCTAATTCATG-CTTAGGCTTAGCC
1 TGAGGCTCAGTAGCTAACTCATGTC-GAGGCTTAGCC
*
96154 TGAGGTTCAGTAGCTAACTCATGTCGAGGCTTAGCC
1 TGAGGCTCAGTAGCTAACTCATGTCGAGGCTTAGCC
96190 AGATGTTCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 30 0.97
37 1 0.03
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (36 bp):
TGAGGCTCAGTAGCTAACTCATGTCGAGGCTTAGCC
Found at i:96198 original size:36 final size:36
Alignment explanation
Indices: 96127--96199 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
96117 TTGAGGCTCG
* * *
96127 GTAGCTAATTCATGCTTAGGCTTAGCCTGAGGTTCA
1 GTAGCTAACTCATGCTGAGGCTTAGCCAGAGGTTCA
*
96163 GTAGCTAACTCATG-TCGAGGCTTAGCCAGATGTTCA
1 GTAGCTAACTCATGCT-GAGGCTTAGCCAGAGGTTCA
96199 G
1 G
96200 GCTTAGCCTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 1 0.03
36 31 0.97
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (36 bp):
GTAGCTAACTCATGCTGAGGCTTAGCCAGAGGTTCA
Found at i:96230 original size:54 final size:54
Alignment explanation
Indices: 96144--96253 Score: 159
Period size: 54 Copynumber: 2.0 Consensus size: 54
96134 ATTCATGCTT
*
96144 AGGCTTAGCCTGAGGTTCAGTAGCTAACTCATG-TCGAGGCTTAGCCAGATGTTC
1 AGGCTTAGCCTGAGGTTCAGTAGCTAACTCATGCT-GAGGCTTAGCCAGAGGTTC
** * *
96198 AGGCTTAGCCTGAGGTTTGGTAGCTAATTCATGCTGAGGCTTAGCCTGAGGTTC
1 AGGCTTAGCCTGAGGTTCAGTAGCTAACTCATGCTGAGGCTTAGCCAGAGGTTC
96252 AG
1 AG
96254 TAGCTAATTC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 49 0.98
55 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (54 bp):
AGGCTTAGCCTGAGGTTCAGTAGCTAACTCATGCTGAGGCTTAGCCAGAGGTTC
Found at i:96245 original size:36 final size:36
Alignment explanation
Indices: 96198--96539 Score: 425
Period size: 36 Copynumber: 9.5 Consensus size: 36
96188 CCAGATGTTC
*
96198 AGGCTTAGCCTGAGGTTTGGTAGCTAATTCATGCTG
1 AGGCTTAGCCTGAGGTTCGGTAGCTAATTCATGCTG
* *
96234 AGGCTTAGCCTGAGGTTCAGTAGCTAATTCATGCCG
1 AGGCTTAGCCTGAGGTTCGGTAGCTAATTCATGCTG
* * *
96270 AGGCTTAGCTTGAGATTCGGTAGCTAATTCATGCCG
1 AGGCTTAGCCTGAGGTTCGGTAGCTAATTCATGCTG
* * *
96306 AGGCTTAGCCTGAGGTTCGGTTGCTAATTCATCCCG
1 AGGCTTAGCCTGAGGTTCGGTAGCTAATTCATGCTG
* * *
96342 AGGCTTAGCCTGAGGTTCGGTAGTTAATTCATCCCG
1 AGGCTTAGCCTGAGGTTCGGTAGCTAATTCATGCTG
* *
96378 AGGCTTAGTCTGAGGTTTGGTAGCTAATTCATG-TCG
1 AGGCTTAGCCTGAGGTTCGGTAGCTAATTCATGCT-G
* ** * *
96414 AGGCTTGGCCTGAGGTTCAATAGCTAATTCATGTTT
1 AGGCTTAGCCTGAGGTTCGGTAGCTAATTCATGCTG
* * * *
96450 AGGCTTAGCATGAGGTTTGGTAGCTAATTCATGTTT
1 AGGCTTAGCCTGAGGTTCGGTAGCTAATTCATGCTG
* *
96486 AGGCTTAACCTGAGGTTCGGTAGCTAATTCATGTTG
1 AGGCTTAGCCTGAGGTTCGGTAGCTAATTCATGCTG
* *
96522 ATGCTTAGCTTGAGGTTC
1 AGGCTTAGCCTGAGGTTC
96540 AGGATCAAAC
Statistics
Matches: 269, Mismatches: 35, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
36 268 1.00
37 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.33
Consensus pattern (36 bp):
AGGCTTAGCCTGAGGTTCGGTAGCTAATTCATGCTG
Found at i:99402 original size:13 final size:13
Alignment explanation
Indices: 99384--99417 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
99374 ACCAAAAGAT
*
99384 ATTTAAATATCAA
1 ATTTAAATATAAA
99397 ATTTAAATATAAA
1 ATTTAAATATAAA
*
99410 ATTAAAAT
1 ATTTAAAT
99418 CATATAACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTTAAATATAAA
Found at i:101291 original size:21 final size:20
Alignment explanation
Indices: 101264--101322 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 20
101254 TTTAATTTTA
*
101264 TATTATTAAAATATATTCAT
1 TATTATTAAAATATATTAAT
**
101284 TAATTATTAAAAATATAAAAAT
1 T-ATTATT-AAAATATATTAAT
101306 TATTA-TAAAATATATTA
1 TATTATTAAAATATATTA
101323 TTTTAAATGT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 9 0.28
20 2 0.06
21 10 0.31
22 11 0.34
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TATTATTAAAATATATTAAT
Found at i:101354 original size:32 final size:33
Alignment explanation
Indices: 101301--101376 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 33
101291 TAAAAATATA
101301 AAAATTATTATAAAATATATTATTTTAA-ATGTTT
1 AAAA-TATTATAAAATATATTATTTTAATAT-TTT
101335 AAAATATTAT-AAATATATTATTTTAATTATTTT
1 AAAATATTATAAAATATATTATTTTAA-TATTTT
101368 AAAATATTA
1 AAAATATTA
101377 ATATATTCGG
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
32 16 0.40
33 18 0.45
34 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (33 bp):
AAAATATTATAAAATATATTATTTTAATATTTT
Found at i:102423 original size:37 final size:37
Alignment explanation
Indices: 102370--102467 Score: 124
Period size: 37 Copynumber: 2.6 Consensus size: 37
102360 GTCCTATTAC
* * *
102370 GATTCAAACTCTTAAAAATAGGATAGAATTTTGCTAG
1 GATTCAAACTCCTAAAAATAGGATAGAATTCTACTAG
* * *
102407 GATTCAAACTCCTAAAAATATGATAGAGTTCTACTAT
1 GATTCAAACTCCTAAAAATAGGATAGAATTCTACTAG
* *
102444 GATTTAAACTCCTAAAGATAGGAT
1 GATTCAAACTCCTAAAAATAGGAT
102468 CAACAAACAC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (37 bp):
GATTCAAACTCCTAAAAATAGGATAGAATTCTACTAG
Found at i:103021 original size:19 final size:19
Alignment explanation
Indices: 102935--103022 Score: 67
Period size: 19 Copynumber: 4.6 Consensus size: 19
102925 TTTTTTACAC
*
102935 TATATAT-TA-TTATTATA
1 TATATATATATTTATTATT
*
102952 TATACATATATATT-TTATT
1 TATATATATAT-TTATTATT
* *
102971 TATTTATATTCATTTGATTTTT
1 TATATATA-T-ATTT-ATTATT
102993 TA-ATACTATATTTATTATT
1 TATATA-TATATTTATTATT
103012 TATATATATAT
1 TATATATATAT
103023 ATATACCTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
17 6 0.11
18 2 0.04
19 22 0.40
20 12 0.22
21 5 0.09
22 8 0.15
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (19 bp):
TATATATATATTTATTATT
Found at i:103340 original size:4 final size:4
Alignment explanation
Indices: 103327--103360 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
103317 TATATATTAA
103327 TATT TCATT TATT TATT TATT TATT TATT TATT T
1 TATT T-ATT TATT TATT TATT TATT TATT TATT T
103361 TTCCTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:103369 original size:16 final size:16
Alignment explanation
Indices: 103350--103408 Score: 54
Period size: 15 Copynumber: 3.8 Consensus size: 16
103340 TATTTATTTA
*
103350 TTTATTTATTTTTCCT
1 TTTATTTATTTTTACT
103366 TTTATTT-TTTTTACT
1 TTTATTTATTTTTACT
103381 TATT-TTTATTCTTTA-T
1 T-TTATTTATT-TTTACT
*
103397 TTT-TTCATTTTT
1 TTTATTTATTTTT
103409 TCCTCTAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 3 0.08
15 18 0.47
16 13 0.34
17 4 0.11
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATTTATTTTTACT
Found at i:103383 original size:13 final size:13
Alignment explanation
Indices: 103350--103401 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
103340 TATTTATTTA
103350 TTTATTTATTTTTCC
1 TTTATTT-TTTTT-C
103365 TTTTATTTTTTTTAC
1 -TTTATTTTTTTT-C
*
103380 -TTATTTTTATTC
1 TTTATTTTTTTTC
103392 TTTATTTTTT
1 TTTATTTTTT
103402 CATTTTTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 1 0.03
13 18 0.56
15 6 0.19
16 7 0.22
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATTTTTTTTC
Found at i:103401 original size:25 final size:24
Alignment explanation
Indices: 103342--103401 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
103332 CATTTATTTA
* * *
103342 TTTATTTATTTATTTATTTTTCCT
1 TTTATTTTTTTACTTATTTTTACT
*
103366 TTTATTTTTTTTACTTATTTTTATT
1 TTTA-TTTTTTTACTTATTTTTACT
103391 CTTTATTTTTT
1 -TTTATTTTTT
103402 CATTTTTTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 4 0.13
25 22 0.73
26 4 0.13
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTATTTTTTTACTTATTTTTACT
Found at i:103410 original size:8 final size:7
Alignment explanation
Indices: 103334--103409 Score: 50
Period size: 8 Copynumber: 10.4 Consensus size: 7
103324 TAATATTTCA
103334 TTTATTT
1 TTTATTT
103341 ATTTATTT
1 -TTTATTT
103349 ATTTATTT
1 -TTTATTT
103357 ATTT-TTCCT
1 -TTTATT--T
103366 TTTATTT
1 TTTATTT
*
103373 TTT-TTA
1 TTTATTT
*
103379 CTTA-TT
1 TTTATTT
*
103385 TTTATTC
1 TTTATTT
103392 TTTATTT
1 TTTATTT
103399 TTTCATTT
1 TTT-ATTT
103407 TTT
1 TTT
103410 CCTCTAACAC
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
6 8 0.14
7 16 0.29
8 29 0.52
9 3 0.05
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTATTT
Found at i:107829 original size:10 final size:9
Alignment explanation
Indices: 107813--107886 Score: 67
Period size: 10 Copynumber: 7.4 Consensus size: 9
107803 TCCAATCAAG
107813 AAAAAGAAA
1 AAAAAGAAA
107822 AGAAAAGAAGCA
1 A-AAAAGAA--A
107834 AAAGAAGAAA
1 AAA-AAGAAA
107844 AAAGAAGAAA
1 AAA-AAGAAA
*
107854 AAAGAGAAA
1 AAAAAGAAA
*
107863 CAAAAGAAAA
1 AAAAAG-AAA
107873 AAAAAGAACA
1 AAAAAGAA-A
107883 AAAA
1 AAAA
107887 TCAAAAAGAA
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
9 12 0.22
10 34 0.62
11 2 0.04
12 7 0.13
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:107838 original size:19 final size:19
Alignment explanation
Indices: 107813--107886 Score: 78
Period size: 21 Copynumber: 3.7 Consensus size: 19
107803 TCCAATCAAG
107813 AAAAAGAAAAGAAAAGAAG-
1 AAAAAGAAAA-AAAAGAAGA
*
107832 CAAAAGAAGAAAAAAGAAGA
1 AAAAAGAA-AAAAAAGAAGA
*
107852 AAAAAGAGAAACAAAAGAAAA
1 AAAAAGA-AAA-AAAAGAAGA
107873 AAAAAGAACAAAAA
1 AAAAAGAA-AAAAA
107887 TCAAAAAGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
19 15 0.32
20 14 0.30
21 18 0.38
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAAAAAGAAGA
Found at i:107854 original size:9 final size:9
Alignment explanation
Indices: 107810--107873 Score: 60
Period size: 9 Copynumber: 6.9 Consensus size: 9
107800 AGATCCAATC
107810 AAGAAAAAG
1 AAGAAAAAG
*
107819 AAAAGAAAAG
1 AAGA-AAAAG
*
107829 AAGCAAAAG
1 AAGAAAAAG
107838 AAGAAAAAAG
1 AAG-AAAAAG
107848 AAGAAAAA-
1 AAGAAAAAG
107856 AGAGAAACAA-
1 A-AGAAA-AAG
107866 AAGAAAAA
1 AAGAAAAA
107874 AAAAGAACAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
8 3 0.06
9 26 0.55
10 18 0.38
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:108578 original size:22 final size:22
Alignment explanation
Indices: 108504--108580 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
108494 GCTACCCCAT
*
108504 CAAACCGTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
108526 CAAACCTATGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
108548 CAAACCTTTGAGCATCAAAGGC
1 CAAACCTTTGAGCATCAAATGC
108570 CAAACCTTTGA
1 CAAACCTTTGA
108581 CCAAACATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.19
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:109614 original size:106 final size:106
Alignment explanation
Indices: 109406--110886 Score: 2151
Period size: 106 Copynumber: 14.0 Consensus size: 106
109396 ATATCGTGCC
* * * * *
109406 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
109470 AATTTC-GAATCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAG-AGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
109511 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
109576 AATTTCATATCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
109617 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAACTTT-C
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTTCC
109681 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
109723 ACTCCAGACAACGCAGGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
109788 AATTTCAGAGCCAATTTCAACTTCAAAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
109829 ACTCCAGAAAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
109894 AATTTCAAAGCCAATTTCAACTTCATAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
109935 ACTCCAAACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
110000 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATTTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
110041 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
**
110106 AATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
110147 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
110212 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
110253 ACTCAATACAACGCAAGTTCAACTTCACGATGAAGGGACTGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
110318 AATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
110359 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
110424 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
110465 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
110530 AATTTCAGAGCCAATTTCAACTTCACAACGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
110571 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* * * *
110636 AATTTCTGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGA
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
110677 AC-CCAAGGA-AACACAAGCTCAACTTCACGATGAAGGGGCGGCTGATTGTCAAC-AA-AATTT-
1 ACTCC-A-GACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTC
* *
110737 -C-A-TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGG
64 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
110777 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTAC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAATTTCC
** * *
110841 CGGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
110883 ACTC
1 ACTC
110887 AGAACAATGC
Statistics
Matches: 1250, Mismatches: 110, Indels: 31
0.90 0.08 0.02
Matches are distributed among these distances:
99 3 0.00
100 71 0.06
101 4 0.00
102 5 0.00
104 5 0.00
105 52 0.04
106 1105 0.88
107 5 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:111707 original size:37 final size:37
Alignment explanation
Indices: 111618--111721 Score: 127
Period size: 37 Copynumber: 2.8 Consensus size: 37
111608 CTTTTCGTCC
* * *
111618 TACTAGGATTCAAAATCCTAAAAATATGATAGAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTA
* * *
111655 TGCTAGGATTCAAACTCTTAAAAATAGGATAGAGTTA
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTA
* * *
111692 TACTATGATTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTCAAACTCCTAAAAATAGGAT
111722 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTA
Found at i:112272 original size:19 final size:19
Alignment explanation
Indices: 112187--112273 Score: 61
Period size: 19 Copynumber: 4.4 Consensus size: 19
112177 ATTTTTACAC
112187 TATATA-TTATTA-TTATA
1 TATATATTTATTATTTATA
* * *
112204 CATATATTTTTTATTTATT
1 TATATATTTATTATTTATA
* *
112223 TATATTCATTTGGTTATTTTTTAA
1 TATA-T-ATTT-ATTA-TTTAT-A
112247 TACTATATTTATTATTTATA
1 TA-TATATTTATTATTTATA
112267 TATATAT
1 TATATAT
112274 ATATATATAT
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
17 5 0.09
18 5 0.09
19 12 0.23
20 4 0.08
21 8 0.15
22 6 0.11
23 8 0.15
24 3 0.06
25 2 0.04
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (19 bp):
TATATATTTATTATTTATA
Found at i:112501 original size:33 final size:31
Alignment explanation
Indices: 112420--112508 Score: 83
Period size: 33 Copynumber: 2.8 Consensus size: 31
112410 TATAAGCCAA
*
112420 TTATCATTATATGTATACTTTTATATTTGATTT
1 TTAT-ATTATAT-TATATTTTTATATTTGATTT
* * *
112453 ATATATT-TATT-TATTTTTATTTTTGGTTTTT
1 TTATATTATATTATATTTTTATATTT-G-ATTT
*
112484 TTATATTATATTATATTTTCATATT
1 TTATATTATATTATATTTTTATATT
112509 ACTATTATTA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
29 11 0.24
30 2 0.04
31 12 0.27
32 7 0.16
33 13 0.29
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.66
Consensus pattern (31 bp):
TTATATTATATTATATTTTTATATTTGATTT
Found at i:112507 original size:18 final size:19
Alignment explanation
Indices: 112481--112516 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
112471 ATTTTTGGTT
*
112481 TTTTTATATTA-TATTATA
1 TTTTCATATTACTATTATA
112499 TTTTCATATTACTATTAT
1 TTTTCATATTACTATTAT
112517 TATTGTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTCATATTACTATTATA
Found at i:112519 original size:3 final size:3
Alignment explanation
Indices: 112505--112550 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
112495 TATATTTTCA
* * * *
112505 TAT TAC TAT TAT TAT TGT TAT GAT TAT TAT TAT TAT TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
112551 TTACTCATTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:112600 original size:25 final size:25
Alignment explanation
Indices: 112545--112602 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
112535 TATTATTATT
*
112545 TTTATTTTACTCATTTATATATATA
1 TTTATTTTAATCATTTATATATATA
* * *
112570 TATATTTTAAT-ATTTCATTTATTTA
1 TTTATTTTAATCATTT-ATATATATA
112595 TTTATTTT
1 TTTATTTT
112603 TCCTTTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 4 0.15
25 23 0.85
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTATTTTAATCATTTATATATATA
Found at i:116663 original size:14 final size:15
Alignment explanation
Indices: 116644--116676 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
116634 TATCAACATT
*
116644 TTAAATTATTAA-AA
1 TTAAATTAATAATAA
116658 TTAAATTAATAATAA
1 TTAAATTAATAATAA
116673 TTAA
1 TTAA
116677 TTAGAAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TTAAATTAATAATAA
Found at i:117150 original size:3 final size:3
Alignment explanation
Indices: 117142--117273 Score: 201
Period size: 3 Copynumber: 43.3 Consensus size: 3
117132 TTTTTATCCA
* *
117142 TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
117190 TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
*
117239 TAT TAT TAT TAT TAA TAT TAT ATAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT T
117274 TAATAAATAA
Statistics
Matches: 117, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
3 112 0.96
4 5 0.04
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:120936 original size:28 final size:27
Alignment explanation
Indices: 120893--120945 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 27
120883 CATACATGCA
120893 TTTGTATTTTACATTTGTACATTTTTACG
1 TTTGTATTTTACA-TT-TACATTTTTACG
120922 TTTGTA-TTTACATTTACATTTTTA
1 TTTGTATTTTACATTTACATTTTTA
120946 AATTTACATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 10 0.42
27 2 0.08
28 6 0.25
29 6 0.25
ACGTcount: A:0.23, C:0.09, G:0.08, T:0.60
Consensus pattern (27 bp):
TTTGTATTTTACATTTACATTTTTACG
Found at i:121082 original size:14 final size:14
Alignment explanation
Indices: 121063--121115 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
121053 TTTTAAATAA
*
121063 TTTACATTTACATT
1 TTTACATTTGCATT
*
121077 TTTACATTTGCATA
1 TTTACATTTGCATT
121091 TTTACATTTGGCATT
1 TTTACATTT-GCATT
*
121106 TTTGCATTTG
1 TTTACATTTG
121116 TATTGCACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.23, C:0.13, G:0.09, T:0.55
Consensus pattern (14 bp):
TTTACATTTGCATT
Found at i:121183 original size:26 final size:25
Alignment explanation
Indices: 121154--121211 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 25
121144 CATTCACATA
*
121154 TTTACATTTGAATTTGCATTTGCATT
1 TTTACATTTGAATTTACATTT-CATT
* *
121180 TTTACGTTTGTATTTACATTTCATT
1 TTTACATTTGAATTTACATTTCATT
121205 TTTACAT
1 TTTACAT
121212 AATTACATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.22, C:0.12, G:0.09, T:0.57
Consensus pattern (25 bp):
TTTACATTTGAATTTACATTTCATT
Found at i:122851 original size:2 final size:2
Alignment explanation
Indices: 122844--122869 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
122834 TTATCCTTTA
122844 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
122870 CCTTTGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123183 original size:13 final size:12
Alignment explanation
Indices: 123165--123197 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
123155 TCCAGCAAAG
123165 AAAGAAGAAAAAA
1 AAAGAA-AAAAAA
123178 AAAG-AAAAAAA
1 AAAGAAAAAAAA
123189 AAAGAAAAA
1 AAAGAAAAA
123198 GGAAAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.53
12 5 0.26
13 4 0.21
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAAA
Found at i:123183 original size:17 final size:17
Alignment explanation
Indices: 123161--123203 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
123151 CTCATCCAGC
*
123161 AAAGAAAGAAGAAAA-AA
1 AAAGAAA-AAAAAAAGAA
123178 AAAGAAAAAAAAAAGAA
1 AAAGAAAAAAAAAAGAA
123195 AAAGGAAAA
1 AAA-GAAAA
123204 TTGAATCAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 6 0.26
17 12 0.52
18 5 0.22
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAAAAGAA
Found at i:123188 original size:11 final size:11
Alignment explanation
Indices: 123172--123197 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
123162 AAGAAAGAAG
123172 AAAAAAAAAGA
1 AAAAAAAAAGA
123183 AAAAAAAAAGA
1 AAAAAAAAAGA
123194 AAAA
1 AAAA
123198 GGAAAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:125460 original size:83 final size:83
Alignment explanation
Indices: 125321--125879 Score: 881
Period size: 83 Copynumber: 6.7 Consensus size: 83
125311 CATTAACTGA
* * *
125321 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
125386 ACCAATCATTGAATTGGG
66 ACCAATCATTGAATTGGG
* * * *
125404 AAGATGAATTTGTTAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
125469 ACCAATCATTGAATTGGG
66 ACCAATCATTGAATTGGG
* *
125487 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAG
**
125551 AACCAATCATTGAATTTAG
65 AACCAATCATTGAATTGGG
*
125570 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAG
*
125634 AATCAATCATTGAATTTGGG
65 AACCAATCATTGAA-TTGGG
*
125654 -AGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
*
125718 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTGGG
*
125736 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
**
125801 ACCAATCATTGAATTTAG
66 ACCAATCATTGAATTGGG
* * *
125819 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATTTGATCTGGTTTGG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
125880 TAGGAACTAC
Statistics
Matches: 449, Mismatches: 23, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
82 7 0.02
83 435 0.97
84 7 0.02
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (83 bp):
AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
ACCAATCATTGAATTGGG
Found at i:128295 original size:22 final size:22
Alignment explanation
Indices: 128270--128324 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
128260 ATCTACATTC
*
128270 TTTAAAGATGATAGATTCCCTT
1 TTTAAAGATGACAGATTCCCTT
*
128292 TTTAAAGATGACAGATTCTCTT
1 TTTAAAGATGACAGATTCCCTT
*
128314 TTCAAAGATGA
1 TTTAAAGATGA
128325 AAGCTTTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTTAAAGATGACAGATTCCCTT
Found at i:128912 original size:92 final size:92
Alignment explanation
Indices: 128811--129001 Score: 292
Period size: 92 Copynumber: 2.1 Consensus size: 92
128801 GTTCATAATG
*** * *
128811 AGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTTGATGGATCATCATTACCAGTTAGAGT
1 AGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACCCGATGGATCAGCAGTACCAGTTAGAGT
*
128876 TCATAATGAGAAGAACTCATTTGAAGA
66 TCATAATGAGAAGAACTCATCTGAAGA
* **
128903 AGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACCCGGTGGATCAGCAGTGTCAGTTAGAGT
1 AGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACCCGATGGATCAGCAGTACCAGTTAGAGT
128968 TCATAATGAGAAGAACTCATCTGAAGA
66 TCATAATGAGAAGAACTCATCTGAAGA
*
128995 GGAAGAA
1 AGAAGAA
129002 GAAATTCATA
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (92 bp):
AGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACCCGATGGATCAGCAGTACCAGTTAGAGT
TCATAATGAGAAGAACTCATCTGAAGA
Found at i:129102 original size:112 final size:111
Alignment explanation
Indices: 128965--129993 Score: 1289
Period size: 112 Copynumber: 9.2 Consensus size: 111
128955 TGTCAGTTAG
* * *
128965 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * ** *
129030 ACCTTTTCCCTGAATTCATTACTTGATGAATTATTTTTTCCAGAGGA
66 ACCTTTT-CCTGAATTCATCACTTGATGGATTATCATTTCCAGAGAA
*
129077 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTA
1 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* *
129142 ACCTTTTGCTCGAATTCATCACTTGATGGATTAACATTTCCAGAGAA
66 ACCTTTTCCT-GAATTCATCACTTGATGGATTATCATTTCCAGAGAA
*
129189 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTA
1 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* *
129254 ACCTTTTGCTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAA
66 ACCTTTT-CCTGAATTCATCACTTGATGGATTATCATTTCCAGAGAA
* * * *
129301 GGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * *
129366 AACCTTTTGCTCAAATCCATCA-TTCGATGGATCAGCATTTCCAGAGAA
65 AACCTTTTCCT-GAATTCATCACTT-GATGGATTATCATTTCCAGAGAA
*
129414 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * * * * *
129479 AACTTTTTGCTTAAATTCATCATTTGATGGATCAGCTTTTCCAGAAAA
65 AACCTTTT-CCTGAATTCATCACTTGATGGATTATCATTTCCAGAGAA
*
129527 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTA
1 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* *
129592 ACCTTTTGCTCGAATTCATCACTTGATGGATTAACATTTCCAGAGAA
66 ACCTTTTCCT-GAATTCATCACTTGATGGATTATCATTTCCAGAGAA
* *
129639 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * * * * * * *
129704 ACCTTTTGCTCAAATCCATTATTTGATGGATTAACATTGCCAG-GTAG
66 ACCTTTTCCT-GAATTCATCACTTGATGGATTATCATTTCCAGAG-AA
* *
129751 AGTTCATAATGAGAAGAACTCGTCATCTG-A-A-GAAGAAGAAATTCATAATGAGAAGAATTTGT
1 AGTTCATAATGAGAAGAACT--T-ATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* * * * *
129813 TCAACCTTTTACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAA
63 TCAACCTTTT-CCTGAATTCATCACTTGATGGATTATCATTTCCAGAGAA
* *
129863 GGTTCATAATGAGAAGAACTCATCTG-A-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * * * * * *
129926 ACCTTTTACCTGAATCCGTCATTTGATGGATCAGCTTTTTTCAGAGAA
66 ACCTTTT-CCTGAATTCATCACTTGATGGATTATC-ATTTCCAGAGAA
*
129974 AGTTCATGAATGAAAAGAAC
1 AGTTCAT-AATGAGAAGAAC
129994 CTGAATCCAT
Statistics
Matches: 825, Mismatches: 75, Indels: 34
0.88 0.08 0.04
Matches are distributed among these distances:
109 7 0.01
110 64 0.08
111 21 0.03
112 523 0.63
113 200 0.24
114 5 0.01
115 5 0.01
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (111 bp):
AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACCTTTTCCTGAATTCATCACTTGATGGATTATCATTTCCAGAGAA
Found at i:130007 original size:59 final size:57
Alignment explanation
Indices: 129933--130050 Score: 173
Period size: 59 Copynumber: 2.0 Consensus size: 57
129923 TCAACCTTTT
* *
129933 ACCTGAATCCGTCATTTGATGGATCAGCTTTTTTCAGAGAAAGTTCATGAATGAAAAGA
1 ACCTGAATCCATCATTTGATGGATCAGC-TTTTCCAGAGAAAGTTCAT-AATGAAAAGA
* * *
129992 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGA
1 ACCTGAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAAAAGA
130049 AC
1 AC
130051 TCATCTGAAG
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 11 0.20
58 18 0.33
59 25 0.46
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (57 bp):
ACCTGAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAAAAGA
Found at i:130102 original size:169 final size:169
Alignment explanation
Indices: 129823--130127 Score: 558
Period size: 169 Copynumber: 1.8 Consensus size: 169
129813 TCAACCTTTT
*
129823 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
1 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
*
129888 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATCCGTCATTTGAT
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATCCATCATTTGAT
129953 GGATCAGCTTTTTTCAGAGAAAGTTCATGAATGAAAAGA
131 GGATCAGCTTTTTTCAGAGAAAGTTCATGAATGAAAAGA
129992 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
1 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
* *
130057 GAA-GAAGGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCATTTGA
66 GAAGGAA-GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATCCATCATTTGA
130121 TGGATCA
130 TGGATCA
130128 ACATTGCCAG
Statistics
Matches: 131, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
168 3 0.02
169 128 0.98
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (169 bp):
ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATCCATCATTTGAT
GGATCAGCTTTTTTCAGAGAAAGTTCATGAATGAAAAGA
Found at i:130162 original size:110 final size:113
Alignment explanation
Indices: 129992--130199 Score: 334
Period size: 110 Copynumber: 1.9 Consensus size: 113
129982 AATGAAAAGA
* * * *
129992 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
1 ACCTGAATCCATCATTTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
130057 GAAGAAGG-A-AG-AAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
66 GAAGAAGGTAGAGAAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
*
130102 ACCTGAATTCATCATTTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATC
1 ACCTGAATCCATCATTTGATGGATCAACATTGCCAGAG-AAAGTTCATAATGAGAAGAACTCATC
130166 TGAAGAAGGTAGAGAAAGTTCATAATGAGAAGAA
65 TGAAGAAGGTAGAGAAAGTTCATAATGAGAAGAA
130200 CTCATCAAGA
Statistics
Matches: 89, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
109 1 0.01
110 66 0.74
111 1 0.01
112 2 0.02
113 19 0.21
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (113 bp):
ACCTGAATCCATCATTTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
GAAGAAGGTAGAGAAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
Found at i:130456 original size:3 final size:3
Alignment explanation
Indices: 130448--130573 Score: 189
Period size: 3 Copynumber: 41.3 Consensus size: 3
130438 TTTTTATCCA
* *
130448 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
130496 TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
*
130542 TAT TAT TAT TAA TAT TAT ATAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT T
130574 TAATAAATAA
Statistics
Matches: 111, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
3 106 0.95
4 5 0.05
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:138946 original size:26 final size:26
Alignment explanation
Indices: 138917--138967 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
138907 TTTTGGTGAA
*
138917 TTTAATTCCACCTTTCGGTGGATTTG
1 TTTAATGCCACCTTTCGGTGGATTTG
138943 TTTAATGCCACCTTTCGGTGGATTT
1 TTTAATGCCACCTTTCGGTGGATTT
138968 TAATTTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.45
Consensus pattern (26 bp):
TTTAATGCCACCTTTCGGTGGATTTG
Found at i:140801 original size:33 final size:33
Alignment explanation
Indices: 140752--140815 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
140742 ACCTCCGCGG
*
140752 GAGAGATAAACTATAATCCACTATAAATGTAAA
1 GAGAGATAAACAATAATCCACTATAAATGTAAA
* * *
140785 GAGAGATGAACAATAATTCACTATAGATGTA
1 GAGAGATAAACAATAATCCACTATAAATGTA
140816 GAGAACAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (33 bp):
GAGAGATAAACAATAATCCACTATAAATGTAAA
Found at i:148279 original size:16 final size:16
Alignment explanation
Indices: 148239--148272 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
148229 TCGACTAACT
148239 CGTCTTTCTTCTTCCC
1 CGTCTTTCTTCTTCCC
148255 CGTCTTTCTTCTTCCC
1 CGTCTTTCTTCTTCCC
148271 CG
1 CG
148273 ATTTTCTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.44, G:0.09, T:0.47
Consensus pattern (16 bp):
CGTCTTTCTTCTTCCC
Found at i:149915 original size:23 final size:23
Alignment explanation
Indices: 149885--149928 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
149875 GGTACTTCTG
*
149885 TGCTGAATCATTCAACACTGATT
1 TGCTGAATCAGTCAACACTGATT
*
149908 TGCTGAATCAGTCAGCACTGA
1 TGCTGAATCAGTCAACACTGA
149929 ATCATTCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (23 bp):
TGCTGAATCAGTCAACACTGATT
Found at i:150073 original size:20 final size:20
Alignment explanation
Indices: 150048--150090 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
150038 TTACTTGATG
150048 AGAAAAAAATTAAATTATAA
1 AGAAAAAAATTAAATTATAA
150068 AGAAAAAAATTAAATTATAA
1 AGAAAAAAATTAAATTATAA
150088 AGA
1 AGA
150091 GTGTTATTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (20 bp):
AGAAAAAAATTAAATTATAA
Found at i:151352 original size:5 final size:5
Alignment explanation
Indices: 151342--151367 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
151332 ATTTATTTAG
151342 ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA A
151368 AAAGAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:152369 original size:30 final size:29
Alignment explanation
Indices: 152335--152424 Score: 100
Period size: 30 Copynumber: 3.2 Consensus size: 29
152325 AATAATCTAT
*
152335 TTATAATGATATTTTAATTAATTAATTAAA
1 TTATAAT-ATATTTTAATTAAATAATTAAA
* *
152365 TTAT-AT-T-TTTT--TTAAATAATTTAT
1 TTATAATATATTTTAATTAAATAATTAAA
152389 TTATAATAATATTTTAATTAAATAATTAAA
1 TTATAAT-ATATTTTAATTAAATAATTAAA
152419 TTATAA
1 TTATAA
152425 CTTTTTAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
24 14 0.29
25 2 0.04
26 4 0.08
27 2 0.04
28 4 0.08
29 2 0.04
30 21 0.43
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (29 bp):
TTATAATATATTTTAATTAAATAATTAAA
Found at i:152412 original size:16 final size:16
Alignment explanation
Indices: 152356--152414 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
152346 TTTTAATTAA
*
152356 TTAATTAAATTATATT
1 TTAATTAAATAATATT
**
152372 TTTTTTAAAT-A-A-T
1 TTAATTAAATAATATT
*
152385 TTATTTATAATAATATT
1 TTAATTA-AATAATATT
152402 TTAATTAAATAAT
1 TTAATTAAATAAT
152415 TAAATTATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 7 0.20
14 4 0.11
15 2 0.06
16 15 0.43
17 7 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAATTAAATAATATT
Found at i:152430 original size:54 final size:54
Alignment explanation
Indices: 152294--152434 Score: 187
Period size: 54 Copynumber: 2.6 Consensus size: 54
152284 ATTATAACTT
* ** *
152294 TTTTAATTAATTAATT-AATTATTAC-TGATAAAATAATCTATTTATAATGATA
1 TTTTAATTAATTAATTAAATTATAACTTTTTAAAATAATCTATTTATAATAATA
** * *
152346 TTTTAATTAATTAATTAAATTATATTTTTTTTAAATAATTTATTTATAATAATA
1 TTTTAATTAATTAATTAAATTATAACTTTTTAAAATAATCTATTTATAATAATA
*
152400 TTTTAATTAAATAATTAAATTATAACTTTTTAAAA
1 TTTTAATTAATTAATTAAATTATAACTTTTTAAAA
152435 AATAATTTGT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
52 16 0.21
53 6 0.08
54 53 0.71
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (54 bp):
TTTTAATTAATTAATTAAATTATAACTTTTTAAAATAATCTATTTATAATAATA
Found at i:163868 original size:16 final size:16
Alignment explanation
Indices: 163844--163875 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
163834 GTGAATTTTT
*
163844 CATTGAAAAACCGAAC
1 CATTAAAAAACCGAAC
163860 CATTAAAAAACCGAAC
1 CATTAAAAAACCGAAC
163876 AGAACCGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.25, G:0.09, T:0.12
Consensus pattern (16 bp):
CATTAAAAAACCGAAC
Found at i:167470 original size:29 final size:29
Alignment explanation
Indices: 167427--167509 Score: 121
Period size: 29 Copynumber: 2.8 Consensus size: 29
167417 CCCACCTAAC
* *
167427 TAAATTGATATAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
167457 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
167486 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
167510 ATTTAGTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 44 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:171434 original size:31 final size:30
Alignment explanation
Indices: 171399--171488 Score: 92
Period size: 30 Copynumber: 2.9 Consensus size: 30
171389 GAATTCAAAT
171399 GTCAAATTGTCATTTTATCTAAAGTTTAGAG
1 GTCAAATTGT-ATTTTATCTAAAGTTTAGAG
* * *
171430 GTCAAAATGATATTTCATCTAATGTTTA-AG
1 GTCAAATTG-TATTTTATCTAAAGTTTAGAG
* * *
171460 GTCAACTTAATATTTTATCTAAAATTTAG
1 GTCAAATT-GTATTTTATCTAAAGTTTAG
171489 GGATCATATT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
30 23 0.49
31 23 0.49
32 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (30 bp):
GTCAAATTGTATTTTATCTAAAGTTTAGAG
Found at i:171473 original size:30 final size:31
Alignment explanation
Indices: 171410--171488 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 31
171400 TCAAATTGTC
*
171410 ATTTTATCTAAAGTTTAGAGGTCAAAATGAT
1 ATTTTATCTAAAGTTTAGAGGTCAAAATAAT
* * **
171441 ATTTCATCTAATGTTTA-AGGTCAACTTAAT
1 ATTTTATCTAAAGTTTAGAGGTCAAAATAAT
*
171471 ATTTTATCTAAAATTTAG
1 ATTTTATCTAAAGTTTAG
171489 GGATCATATT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 24 0.62
31 15 0.38
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (31 bp):
ATTTTATCTAAAGTTTAGAGGTCAAAATAAT
Found at i:176386 original size:12 final size:13
Alignment explanation
Indices: 176369--176397 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
176359 CTTAATTACA
176369 AAAATTAAAA-TT
1 AAAATTAAAATTT
176381 AAAATTAAAATTT
1 AAAATTAAAATTT
176394 AAAA
1 AAAA
176398 ATTCGATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:176659 original size:27 final size:26
Alignment explanation
Indices: 176617--176668 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
176607 GCTACAAAAG
*
176617 AAAAACATAAAATTAAGGGATTAAAT
1 AAAAACATAAAATTAAAGGATTAAAT
*
176643 AAAAA-ATAGAAATTTAAAGTATTAAA
1 AAAAACATA-AAA-TTAAAGGATTAAA
176669 ATAGCGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 3 0.14
26 8 0.36
27 11 0.50
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (26 bp):
AAAAACATAAAATTAAAGGATTAAAT
Found at i:178520 original size:152 final size:152
Alignment explanation
Indices: 178240--178543 Score: 590
Period size: 152 Copynumber: 2.0 Consensus size: 152
178230 TCCTTCGTCG
178240 TGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCATGAAGTTGAAATTGGCTCTGA
1 TGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCATGAAGTTGAAATTGGCTCTGA
178305 ATGAAATTGGGAAACCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCATTCGCTATAAAGT
66 ATGAAATTGGGAAACCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCATTCGCTATAAAGT
178370 TGAAATCCAATGTTGTTTGTGA
131 TGAAATCCAATGTTGTTTGTGA
178392 TGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCATGAAGTTGAAATTGGCTCTGA
1 TGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCATGAAGTTGAAATTGGCTCTGA
* *
178457 ATGAAATTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCATTCGCTGTAAAGT
66 ATGAAATTGGGAAACCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCATTCGCTATAAAGT
178522 TGAAATCCAATGTTGTTTGTGA
131 TGAAATCCAATGTTGTTTGTGA
178544 GCACGATATC
Statistics
Matches: 150, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 150 1.00
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.34
Consensus pattern (152 bp):
TGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCATGAAGTTGAAATTGGCTCTGA
ATGAAATTGGGAAACCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCATTCGCTATAAAGT
TGAAATCCAATGTTGTTTGTGA
Found at i:178674 original size:170 final size:170
Alignment explanation
Indices: 178392--178702 Score: 604
Period size: 170 Copynumber: 1.8 Consensus size: 170
178382 TTGTTTGTGA
178392 TGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCATGAAGTTGAAATTGGCTCTGA
1 TGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCATGAAGTTGAAATTGGCTCTGA
*
178457 ATGAAATTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCATTCGCTGTAAAGT
66 ATGAAACTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCATTCGCTGTAAAGT
178522 TGAAATCCAATGTTGTTTGTGAGCACGATATCCTTCGTTG
131 TGAAATCCAATGTTGTTTGTGAGCACGATATCCTTCGTTG
*
178562 TGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGA
1 TGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCATGAAGTTGAAATTGGCTCTGA
178627 ATGAAACTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCATTCGCTGTAAAGT
66 ATGAAACTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCATTCGCTGTAAAGT
178692 TGAAATCCAAT
131 TGAAATCCAAT
178703 CTTCAGTAAA
Statistics
Matches: 139, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 139 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (170 bp):
TGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCATGAAGTTGAAATTGGCTCTGA
ATGAAACTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCATTCGCTGTAAAGT
TGAAATCCAATGTTGTTTGTGAGCACGATATCCTTCGTTG
Found at i:179522 original size:11 final size:11
Alignment explanation
Indices: 179506--179538 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
179496 ACCCACCTTA
179506 TTTTTTTTTT-
1 TTTTTTTTTTC
*
179516 GTTTTTTTTTC
1 TTTTTTTTTTC
179527 TTTTTTTTTTC
1 TTTTTTTTTTC
179538 T
1 T
179539 ATTTAGTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.91
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:179639 original size:76 final size:74
Alignment explanation
Indices: 179503--179646 Score: 182
Period size: 76 Copynumber: 1.9 Consensus size: 74
179493 TGAACCCACC
* * * * * * *
179503 TTATTTTTTTTTTGTTTTTTTTTCTTTTTTTTTTCTATTTAGTGTGCCCTTTCGGGTTTTCACCC
1 TTATTTTTTTGTTCTTTTTTTTTCTTTTTTTTTTCGACTTAGTGTGCCATCTCGAGTTTTCACCC
179568 TAAACATTT
66 TAAACATTT
179577 TTATCTTTTTTGTTCTTTTTTTTTCTTTTTCTTTTTCGACTTAG-GATGCCATCTCGAGTTTTCA
1 TTAT-TTTTTTGTTCTTTTTTTTTCTTTTT-TTTTTCGACTTAGTG-TGCCATCTCGAGTTTTCA
*
179641 TCCTAA
63 CCCTAA
179647 GCGAAGTATT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
74 4 0.07
75 24 0.41
76 31 0.53
ACGTcount: A:0.12, C:0.17, G:0.10, T:0.62
Consensus pattern (74 bp):
TTATTTTTTTGTTCTTTTTTTTTCTTTTTTTTTTCGACTTAGTGTGCCATCTCGAGTTTTCACCC
TAAACATTT
Found at i:186360 original size:39 final size:39
Alignment explanation
Indices: 186306--186385 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
186296 TTAACAGTAG
* *
186306 ATGCAGCTTTCCCTTTGGTAGAGGATGAGTCAC-CGGGTA
1 ATGCAACTTTCCCTTTAGTAGAGGATGAGTC-CTCGGGTA
*
186345 ATGCAACTTTCCCTTTAGTAGCGGATGAGTCCTCGGGTA
1 ATGCAACTTTCCCTTTAGTAGAGGATGAGTCCTCGGGTA
186384 AT
1 AT
186386 ACTCCGGGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.03
39 36 0.97
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (39 bp):
ATGCAACTTTCCCTTTAGTAGAGGATGAGTCCTCGGGTA
Found at i:189847 original size:12 final size:13
Alignment explanation
Indices: 189830--189858 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
189820 CTTAATTACA
189830 AAAATTAAAA-TT
1 AAAATTAAAATTT
189842 AAAATTAAAATTT
1 AAAATTAAAATTT
189855 AAAA
1 AAAA
189859 ATTCGATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:198324 original size:22 final size:22
Alignment explanation
Indices: 198283--198324 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
198273 AAAAACATTT
*
198283 TTTAAAAAAAAATAATATATAA
1 TTTAAAAAAAAATAAGATATAA
* *
198305 TTTATAAAAAAATAGGATAT
1 TTTAAAAAAAAATAAGATAT
198325 TTATTTATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (22 bp):
TTTAAAAAAAAATAAGATATAA
Found at i:198324 original size:24 final size:21
Alignment explanation
Indices: 198283--198332 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
198273 AAAAACATTT
*
198283 TTTAAAAAAAAATAATATATAA
1 TTTATAAAAAAATAATAT-TAA
*
198305 TTTATAAAAAAATAGGATATTTA
1 TTTATAAAAAAATA--ATATTAA
198328 TTTAT
1 TTTAT
198333 TTAAGAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 13 0.54
23 7 0.29
24 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (21 bp):
TTTATAAAAAAATAATATTAA
Found at i:199810 original size:3 final size:3
Alignment explanation
Indices: 199802--199883 Score: 105
Period size: 3 Copynumber: 27.7 Consensus size: 3
199792 TTATTTATTA
* *
199802 AAT AAT AAT -AT AA- AAT ATT AAT ATT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* *
199846 AAT AAT AAT ACT AAT AAT AAT ACT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
199884 ATTTAAATGA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
2 4 0.06
3 61 0.90
4 3 0.04
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:200163 original size:76 final size:76
Alignment explanation
Indices: 200014--201563 Score: 2714
Period size: 76 Copynumber: 20.4 Consensus size: 76
200004 GAAATGTTGA
* *
200014 AAACATCATGCACTGAAAGG-CTTACAGATGACCTGAAGGTTTTTGAAAACATCAAAAAGCTCCC
1 AAACATCATGCACTG-AAGGACTTACAGATGACCCGAAGG-TTTTGAAAACATCAAAAAGATCCC
*
200078 GAAGACTTTTTGG
64 GAAGGCTTTTTGG
* * * *
200091 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
200156 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
200167 AAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTTGAAAACATCAAAAAGATCCCG
200232 AAGGCTTTTTGG
65 AAGGCTTTTTGG
* * * *
200244 AAACATCATGCACTGTAGGACTTACAGATGACCCTAA-GTCTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
200308 AGGCTTTTTGG
66 AGGCTTTTTGG
*
200319 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTTGAAAACATCAAAAAGATCCCG
200384 AAGGCTTTTTGG
65 AAGGCTTTTTGG
* * * *
200396 AAACATCATGCACTGTAGGACTTACAGATGACCCTAA-GTCTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
200460 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
200471 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
200536 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
200547 AAACATCATGCACTGAAGGACTTATAGATGACCCTAAGGATTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
200612 AGGCTTTTTGG
66 AGGCTTTTTGG
200623 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
200688 AGGCTTTTTGG
66 AGGCTTTTTGG
200699 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
200764 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
200775 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGATTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
200840 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
200851 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGATTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
200916 AGGCTTTTTGG
66 AGGCTTTTTGG
*
200927 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
200992 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
201003 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGATTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
201068 AGGCTTTTTGG
66 AGGCTTTTTGG
201079 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
201144 AGGCTTTTTGG
66 AGGCTTTTTGG
201155 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
201220 AGGCTTTTTGG
66 AGGCTTTTTGG
201231 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
201296 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
201307 AAACATCATGCACTGAAGGACTTACAGATGA-CCTAAGGATTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
201371 AGGCTTTTTGG
66 AGGCTTTTTGG
201382 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
201447 AGGCTTTTTGG
66 AGGCTTTTTGG
*
201458 AAATATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
201523 AGGCTTTTTGG
66 AGGCTTTTTGG
201534 AAACATCATGCACT-ACAGGACTTACAGATG
1 AAACATCATGCACTGA-AGGACTTACAGATG
201564 TGGGAAATAG
Statistics
Matches: 1425, Mismatches: 41, Indels: 15
0.96 0.03 0.01
Matches are distributed among these distances:
75 217 0.15
76 1033 0.72
77 175 0.12
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGATCCCGA
AGGCTTTTTGG
Found at i:201840 original size:165 final size:168
Alignment explanation
Indices: 201566--201896 Score: 515
Period size: 171 Copynumber: 2.0 Consensus size: 168
201556 TACAGATGTG
* * *
201566 GGAAATAGTTTATTAAGTAAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTAATTT
1 GGAAATAGTTTACTAAGTAAAAAAAACTAAGAAAATCATTTTCTTACTTTTCAACAATTTAATTT
** *
201631 TTAGAAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTA-TTTTTCAAAATAACATGTT
66 TTAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTTCAAAATAACATGTT
201695 GATTGGGTAACATGCCCCAATCTCAAGATAAGGTTGTT
131 GATTGGGTAACATGCCCCAATCTCAAGATAAGGTTGTT
*
201733 GGAAATAGTTTACTAAGT-AAAAAAACTAAGAAAATCATTTTCTTACTTTTCAACAATTTCA-TT
1 GGAAATAGTTTACTAAGTAAAAAAAACTAAGAAAATCATTTTCTTACTTTTCAACAATTTAATTT
**
201796 TTAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATGTTTTTTTTTTGAAATAAC
66 TTAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTA-----TTTTTTCAAAATAAC
201861 ATGTTGATTGGGTAACATGCCCCAATCTCAAGATAA
126 ATGTTGATTGGGTAACATGCCCCAATCTCAAGATAA
201897 TGCTCATTTT
Statistics
Matches: 149, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
165 44 0.30
166 40 0.27
167 17 0.11
171 48 0.32
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.36
Consensus pattern (168 bp):
GGAAATAGTTTACTAAGTAAAAAAAACTAAGAAAATCATTTTCTTACTTTTCAACAATTTAATTT
TTAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTTCAAAATAACATGTT
GATTGGGTAACATGCCCCAATCTCAAGATAAGGTTGTT
Found at i:202436 original size:22 final size:22
Alignment explanation
Indices: 202411--202465 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
202401 CATAAAGCTT
202411 TCATCTTTGAAAAGAGAATATA
1 TCATCTTTGAAAAGAGAATATA
* *
202433 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATATA
202455 TCATCTTTGAA
1 TCATCTTTGAA
202466 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATATA
Found at i:202901 original size:54 final size:54
Alignment explanation
Indices: 202816--203033 Score: 296
Period size: 54 Copynumber: 4.1 Consensus size: 54
202806 AGAATAGCAG
* * *
202816 GTTCGTAAAACATTTGACAGTGCATTTATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAATACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
* **
202870 GTTCGTAAAACATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAATACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
* * *
202924 GTTCGTAAAACATTTGACAGTGCATTTATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAATACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
* * * **
202978 GTTC-TCAATCA-TTGACAAAACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAATACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
203030 GTTC
1 GTTC
203034 TCAATCATTG
Statistics
Matches: 144, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
52 39 0.27
53 5 0.03
54 100 0.69
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAATACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
Found at i:205238 original size:114 final size:114
Alignment explanation
Indices: 205038--205259 Score: 390
Period size: 114 Copynumber: 1.9 Consensus size: 114
205028 ACGATCAGGC
* * *
205038 AATTCATCTTTCAATTCCAATGATTGGTTTTAGGGTTCATACCAAATCAGATTAGATAACTCAAA
1 AATTCATCTTTCAAATCCAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAA
*
205103 GAACACTTCCAGAAGATGCTATTGGATCTCCTTATTTCTACTATGAGCA
66 GAACACTTCCAGAAGATGCTATTGGATCTCCTTATTCCTACTATGAGCA
* *
205152 AATTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTTATACCAAACCAGATCAGATAACTCAAA
1 AATTCATCTTTCAAATCCAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAA
205217 GAACACTTCCAGAAGATGCTATTGGATCTCCTTATTCCTACTA
66 GAACACTTCCAGAAGATGCTATTGGATCTCCTTATTCCTACTA
205260 CGAGAACGTG
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 102 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.33
Consensus pattern (114 bp):
AATTCATCTTTCAAATCCAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATGCTATTGGATCTCCTTATTCCTACTATGAGCA
Done.