Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006478.1 Hibiscus syriacus cultivar Beakdansim tig00015700_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: 120918
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2992 original size:12 final size:12
Alignment explanation
Indices: 2975--3014 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
2965 GCACCATTAT
2975 CATCATCATCAC
1 CATCATCATCAC
**
2987 CATCATCATCGT
1 CATCATCATCAC
*
2999 CATTATCATCAC
1 CATCATCATCAC
3011 CATC
1 CATC
3015 GCTATCTGCA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.30, C:0.38, G:0.03, T:0.30
Consensus pattern (12 bp):
CATCATCATCAC
Found at i:14673 original size:45 final size:45
Alignment explanation
Indices: 14613--14717 Score: 194
Period size: 45 Copynumber: 2.4 Consensus size: 45
14603 ATTGGTGAAC
14613 AAATAAGCAGAAAATTGCAGTTACTTGAAACAAAAGTAATAAAAT
1 AAATAAGCAGAAAATTGCAGTTACTTGAAACAAAAGTAATAAAAT
14658 AAATAAGCAGAAAATTGCAGTTACTTGAAACAAAAGTAATAAAAT
1 AAATAAGCAGAAAATTGCAGTTACTTGAAACAAAAGTAATAAAAT
*
14703 AAATAAACA-AAAATT
1 AAATAAGCAGAAAATT
14718 AAAGTTTTCC
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
44 6 0.10
45 53 0.90
ACGTcount: A:0.58, C:0.09, G:0.11, T:0.22
Consensus pattern (45 bp):
AAATAAGCAGAAAATTGCAGTTACTTGAAACAAAAGTAATAAAAT
Found at i:28215 original size:75 final size:75
Alignment explanation
Indices: 28089--28233 Score: 222
Period size: 75 Copynumber: 1.9 Consensus size: 75
28079 TTGAGACTTT
* *
28089 GTTCTTCTAATAGGTTCGAGTAGAAACATTAGTCCAAAGAATCATATATTATGGACTCTGGTGCA
1 GTTCTTATAATAGGTTCGAGTAGAAACATTAGTCCAAAGAATCATATATTATGGACTCTGGTACA
28154 TGTATAATTA
66 TGTATAATTA
* *
28164 GTTCTTATAATAGGTTCGAGTAGAAATATTAGTCCAAAGAA-GAT-TGCATTATGGACTCTGGTA
1 GTTCTTATAATAGGTTCGAGTAGAAACATTAGTCCAAAGAATCATAT--ATTATGGACTCTGGTA
28227 CATGTAT
64 CATGTAT
28234 CATTCCCCCA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
73 1 0.02
74 2 0.03
75 61 0.95
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.34
Consensus pattern (75 bp):
GTTCTTATAATAGGTTCGAGTAGAAACATTAGTCCAAAGAATCATATATTATGGACTCTGGTACA
TGTATAATTA
Found at i:29779 original size:6 final size:6
Alignment explanation
Indices: 29768--29794 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
29758 GCTTGGAAAC
29768 GTGGTT GTGGTT GTGGTT GTGGTT GTG
1 GTGGTT GTGGTT GTGGTT GTGGTT GTG
29795 CTCATCTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (6 bp):
GTGGTT
Found at i:30637 original size:21 final size:21
Alignment explanation
Indices: 30612--30709 Score: 119
Period size: 21 Copynumber: 4.6 Consensus size: 21
30602 ATGCTCGGAT
*
30612 GGTACAGATACCCCCTCAGGA
1 GGTACCGATACCCCCTCAGGA
30633 GGTACCGATA--CCCTCAGGAAA
1 GGTACCGATACCCCCTCAGG--A
*
30654 TGGCACCGATACCCCCTCAGGA
1 -GGTACCGATACCCCCTCAGGA
*
30676 GGTATCGATACCCCCTCAGGA
1 GGTACCGATACCCCCTCAGGA
*
30697 GGCACCGATACCC
1 GGTACCGATACCC
30710 TATGGATGGG
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
19 8 0.12
21 40 0.61
22 10 0.15
24 8 0.12
ACGTcount: A:0.27, C:0.36, G:0.23, T:0.14
Consensus pattern (21 bp):
GGTACCGATACCCCCTCAGGA
Found at i:30679 original size:43 final size:41
Alignment explanation
Indices: 30618--30709 Score: 132
Period size: 43 Copynumber: 2.2 Consensus size: 41
30608 GGATGGTACA
30618 GATACCCCCTCAGGAGGTACCGATA-CCCTCAGGAAATGGCACC
1 GATACCCCCTCAGGAGGTACCGATACCCCTCAGG--A-GGCACC
*
30661 GATACCCCCTCAGGAGGTATCGATACCCCCTCAGGAGGCACC
1 GATACCCCCTCAGGAGGTACCGATA-CCCCTCAGGAGGCACC
30703 GATACCC
1 GATACCC
30710 TATGGATGGG
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
42 13 0.28
43 25 0.54
45 8 0.17
ACGTcount: A:0.26, C:0.37, G:0.23, T:0.14
Consensus pattern (41 bp):
GATACCCCCTCAGGAGGTACCGATACCCCTCAGGAGGCACC
Found at i:36456 original size:23 final size:23
Alignment explanation
Indices: 36430--36511 Score: 89
Period size: 23 Copynumber: 3.7 Consensus size: 23
36420 CTTAACACAT
*
36430 GTATCGATACCCCCTTTGAATAG
1 GTATCGATACCCCCTTTGAATGG
* *
36453 GTATTGATACCCCC-AT-AA-GG
1 GTATCGATACCCCCTTTGAATGG
* * *
36473 GTACCGATATCCTCTTTGAATGG
1 GTATCGATACCCCCTTTGAATGG
36496 GTATCGATACCCCCTT
1 GTATCGATACCCCCTT
36512 GGGGGTACCG
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
20 11 0.24
21 3 0.07
22 3 0.07
23 28 0.62
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (23 bp):
GTATCGATACCCCCTTTGAATGG
Found at i:36481 original size:20 final size:20
Alignment explanation
Indices: 36458--36527 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
36448 AATAGGTATT
*
36458 GATACCCCCATAAGGGTACC
1 GATACCCCCTTAAGGGTACC
* * *
36478 GATATCCTCTTTGAATGGGTATC
1 GATA-CCCCCTT-AA-GGGTACC
**
36501 GATACCCCCTTGGGGGTACC
1 GATACCCCCTTAAGGGTACC
36521 GATACCC
1 GATACCC
36528 TTCACGGTGT
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
20 17 0.45
21 4 0.11
22 7 0.18
23 10 0.26
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (20 bp):
GATACCCCCTTAAGGGTACC
Found at i:36490 original size:43 final size:43
Alignment explanation
Indices: 36434--36527 Score: 125
Period size: 43 Copynumber: 2.2 Consensus size: 43
36424 ACACATGTAT
*
36434 CGATACCCCCTTTGAATAGGTATTGATACCCCCATAAGGGTAC
1 CGATACCCCCTTTGAATAGGTATCGATACCCCCATAAGGGTAC
* * * * **
36477 CGATATCCTCTTTGAATGGGTATCGATACCCCCTTGGGGGTAC
1 CGATACCCCCTTTGAATAGGTATCGATACCCCCATAAGGGTAC
36520 CGATACCC
1 CGATACCC
36528 TTCACGGTGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (43 bp):
CGATACCCCCTTTGAATAGGTATCGATACCCCCATAAGGGTAC
Found at i:38594 original size:15 final size:14
Alignment explanation
Indices: 38560--38590 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
38550 TAATTGTTGG
*
38560 TTTGAATGTTTTTA
1 TTTGAATATTTTTA
38574 TTTGAATATTTTTA
1 TTTGAATATTTTTA
38588 TTT
1 TTT
38591 TGAACTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (14 bp):
TTTGAATATTTTTA
Found at i:39262 original size:22 final size:19
Alignment explanation
Indices: 39236--39294 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 19
39226 GCTCAGATGA
39236 TACCGATACCCTCAGGCAATGG
1 TACCGATACCCTCAGG--A-GG
*
39258 TACCGATACCCCCTCAAGAGG
1 TACCGATA--CCCTCAGGAGG
39279 TACCGATACCCTCAGG
1 TACCGATACCCTCAGG
39295 TATATAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
19 7 0.21
21 10 0.30
22 9 0.27
24 7 0.21
ACGTcount: A:0.27, C:0.36, G:0.20, T:0.17
Consensus pattern (19 bp):
TACCGATACCCTCAGGAGG
Found at i:42092 original size:75 final size:75
Alignment explanation
Indices: 41969--42115 Score: 240
Period size: 75 Copynumber: 2.0 Consensus size: 75
41959 TCGAGACTTT
*
41969 GTTCTTCTAATAGGTCCGAGTAGAAAAATTAGTCCAAAGAAGCATGTATTATGGACTCTGGTACA
1 GTTCTTCTAATAGGTCCGAGTAGAAAAATTAGTCCAAAGAAGCATGTATTATGGACTCCGGTACA
42034 TGTATCATTA
66 TGTATCATTA
* * * * *
42044 GTTCTTCTAATAGGTTCGAGTAGAAACATTAGTCTAAAGAAGTATGTATTATGGACTCCGGTGCA
1 GTTCTTCTAATAGGTCCGAGTAGAAAAATTAGTCCAAAGAAGCATGTATTATGGACTCCGGTACA
42109 TGTATCA
66 TGTATCA
42116 GATAGCAACA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 66 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (75 bp):
GTTCTTCTAATAGGTCCGAGTAGAAAAATTAGTCCAAAGAAGCATGTATTATGGACTCCGGTACA
TGTATCATTA
Found at i:44323 original size:20 final size:20
Alignment explanation
Indices: 44298--44352 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
44288 TTTTGAATAG
44298 TAGTATCGATACCATATGCA
1 TAGTATCGATACCATATGCA
44318 TAGTATCGATACCATATGCA
1 TAGTATCGATACCATATGCA
44338 TAGTATCGATACCAT
1 TAGTATCGATACCAT
44353 CAGGCCCCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (20 bp):
TAGTATCGATACCATATGCA
Found at i:46699 original size:32 final size:32
Alignment explanation
Indices: 46657--46718 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
46647 TTTAAACTAA
46657 AATACCTAAAACAAAAATAAAATA-TAAAAAT
1 AATACCTAAAACAAAAATAAAATACTAAAAAT
** *
46688 AATATCCTAAAACTTAATTAAAATACTAAAA
1 AATA-CCTAAAACAAAAATAAAATACTAAAA
46719 CCTATTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 4 0.15
32 17 0.65
33 5 0.19
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (32 bp):
AATACCTAAAACAAAAATAAAATACTAAAAAT
Found at i:48699 original size:5 final size:5
Alignment explanation
Indices: 48689--48803 Score: 92
Period size: 5 Copynumber: 22.8 Consensus size: 5
48679 TGTTTAGAGG
* * *
48689 AAAAT AAAAT AAAAT TAATT AAAAT AAAAT AAAAT -AAAT AGAAT AAAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT
* * *
48739 AAAGTTT ACAAT AAAAT AAAAT -AAA- AAAAT GAAAT AAAAT GAAAAT
1 AAA--AT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT
* * *
48785 AAAAC GAAAT GAAAT AAAA
1 AAAAT AAAAT AAAAT AAAA
48804 AATAGAACGA
Statistics
Matches: 87, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
4 10 0.11
5 65 0.75
6 9 0.10
7 3 0.03
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:48805 original size:22 final size:22
Alignment explanation
Indices: 48748--48814 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 22
48738 TAAAGTTTAC
* *
48748 AATAAAATAAAATAAAAAAATGA
1 AATAAAATAAAA-AATAAAACGA
*
48771 AATAAAAT-GAAAATAAAACGA
1 AATAAAATAAAAAATAAAACGA
* *
48792 AATGAAATAAAAAATAGAACGA
1 AATAAAATAAAAAATAAAACGA
48814 A
1 A
48815 TGGGTTGGTG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.41
22 14 0.38
23 8 0.22
ACGTcount: A:0.73, C:0.03, G:0.09, T:0.15
Consensus pattern (22 bp):
AATAAAATAAAAAATAAAACGA
Found at i:49660 original size:444 final size:448
Alignment explanation
Indices: 48823--49663 Score: 1255
Period size: 444 Copynumber: 1.9 Consensus size: 448
48813 AATGGGTTGG
* *
48823 TGTTGGGTTATGGGGTCCAGCGATCACCCTTAGGGATTCTATCGTGTATGGGCGCGATATCAAGT
1 TGTTGGGTTATGGGGTCCAGCGATCACCATTAGGGATTCTATCGTGTATGGGCACGATATCAAGT
* * *
48888 GCGTGATGGCCCAACCTGCTGAGGCCCACGTGTGCCTTGTGAAGCCCTTAGGCTAGCCCGCAACA
66 GCGTGATGGCCCAACCTACCGAGGCCCACGTGTGCCTTGCGAAGCCC----GCTAGCCCGCAACA
* ** *
48953 CGCTATAGATGTGGGGCTCTGCAATGCTGTGATGAACTGTGAGGGGTGCGCCACAAGAATCCATC
127 CGCTATAGATGCGGGGCTCTGCAATGCCATGATGAACTGTGAGGGGTGCGCCACAAGAATCCACC
* * * *
49018 TTGGCTTGGGGGAAATCAATGATCACCCGCTACAAAGATATGAGTTTAAAATGACCCATCTACTT
192 TTGGCTTGGGGAAAACCAATGATCACCCGCTACAAAGATATGAGGTTAAAATGACCCACCTACTT
* * *
49083 ATCACCAATTGGTTTTAAGAAGGAATGTTGACCATTCGCTTAAGAACTCTGTAGTTAAGCGTGCT
257 ATCACCAATTGGTTTTAAGAAGGAATGTTGACAATTCGCTTAAGAACTCTATAGTTAAGCATGCT
* ** * *
49148 TGAACCAGAGTAATCCAAGGATGGGTGATTCACTAGGAAGTTGTTCCAAAAATTAATGACTCGAT
322 TAAACCAGAGTAATCCAAGGATGGGTGACCCACTAGGAAGTTGTTCAAAAAATGAATGACTCGAT
49213 CCTATCAAGTGGTATCAGATAAGGTTGAAGGTTTGAATCCCCCAGGTGTTGTTGGGGGTGAT
387 CCTATCAAGTGGTATCAGATAAGGTTGAAGGTTTGAATCCCCCAGGTGTTGTTGGGGGTGAT
* *
49275 TGTTGGGTTATGGGGTCCAGCGATCACCATTAGGGATTCTATCGTGTATGGGCATGATATCAGGT
1 TGTTGGGTTATGGGGTCCAGCGATCACCATTAGGGATTCTATCGTGTATGGGCACGATATCAAGT
* *
49340 GCGTGACT-GCCCAACCTACCGAGGCCCACGTGTGCCTTGCGAAGCCC-CTAG-GC-CAGCACGC
66 GCGTGA-TGGCCCAACCTACCGAGGCCCACGTGTGCCTTGCGAAGCCCGCTAGCCCGCAACACGC
*
49401 TATAGATGCGGGGCTCTGCAATGCCATGGTGAACTGTG-GGGGTGC-CTCACAAGAATCCACCTT
130 TATAGATGCGGGGCTCTGCAATGCCATGATGAACTGTGAGGGGTGCGC-CACAAGAATCCACCTT
* *
49464 GGCTTGGGGAAAACCATTGATCACCCGCTACAAAGATATGAGGTTAAAATGGCCCACCTACTTAT
194 GGCTTGGGGAAAACCAATGATCACCCGCTACAAAGATATGAGGTTAAAATGACCCACCTACTTAT
* * * *
49529 CACCAATTTGTTTTAAGAATGAATAG-TGATAATTCGCTTCAGAACTCTATAGTTAAGCATGCTT
259 CACCAATTGGTTTTAAGAAGGAAT-GTTGACAATTCGCTTAAGAACTCTATAGTTAAGCATGCTT
* * *
49593 AAACCAGAGTAATCCAATGATGGGTGACCCATTGGGAAGTTGTTCAAAAAATGAATGACTCGATC
323 AAACCAGAGTAATCCAAGGATGGGTGACCCACTAGGAAGTTGTTCAAAAAATGAATGACTCGATC
49658 CTATCA
388 CTATCA
49664 GTTGCCTCCC
Statistics
Matches: 351, Mismatches: 35, Indels: 14
0.88 0.09 0.04
Matches are distributed among these distances:
443 1 0.00
444 199 0.57
445 42 0.12
446 1 0.00
447 4 0.01
452 103 0.29
453 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (448 bp):
TGTTGGGTTATGGGGTCCAGCGATCACCATTAGGGATTCTATCGTGTATGGGCACGATATCAAGT
GCGTGATGGCCCAACCTACCGAGGCCCACGTGTGCCTTGCGAAGCCCGCTAGCCCGCAACACGCT
ATAGATGCGGGGCTCTGCAATGCCATGATGAACTGTGAGGGGTGCGCCACAAGAATCCACCTTGG
CTTGGGGAAAACCAATGATCACCCGCTACAAAGATATGAGGTTAAAATGACCCACCTACTTATCA
CCAATTGGTTTTAAGAAGGAATGTTGACAATTCGCTTAAGAACTCTATAGTTAAGCATGCTTAAA
CCAGAGTAATCCAAGGATGGGTGACCCACTAGGAAGTTGTTCAAAAAATGAATGACTCGATCCTA
TCAAGTGGTATCAGATAAGGTTGAAGGTTTGAATCCCCCAGGTGTTGTTGGGGGTGAT
Found at i:50195 original size:18 final size:18
Alignment explanation
Indices: 50168--50219 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
50158 ACAGAAAAGG
*
50168 TATAATAAAATAAATAAT
1 TATAAAAAAATAAATAAT
* *
50186 TATAAAAAAAGAAAAAAT
1 TATAAAAAAATAAATAAT
* *
50204 AATAAAATAATAAATA
1 TATAAAAAAATAAATA
50220 TTAATAGTAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (18 bp):
TATAAAAAAATAAATAAT
Found at i:50218 original size:15 final size:15
Alignment explanation
Indices: 50169--50240 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
50159 CAGAAAAGGT
50169 ATAATAAAATAAATAA
1 ATAATAAAAT-AATAA
* * *
50185 TTATAAAAAAAGAAAAA
1 --ATAATAAAATAATAA
50202 ATAATAAAATAATAA
1 ATAATAAAATAATAA
* *
50217 ATATTAATAGTAATAA
1 ATAATAA-AATAATAA
50233 AT-ATAAAA
1 ATAATAAAA
50241 GGTTTTTTTT
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
14 1 0.02
15 21 0.49
16 9 0.21
17 4 0.09
18 8 0.19
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
ATAATAAAATAATAA
Found at i:50224 original size:18 final size:18
Alignment explanation
Indices: 50169--50225 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
50159 CAGAAAAGGT
*
50169 ATAATAAAATAAATAATT-
1 ATAAAAAAATAAAT-ATTA
* * *
50187 ATAAAAAAAGAAAAAATA
1 ATAAAAAAATAAATATTA
*
50205 ATAAAATAATAAATATTA
1 ATAAAAAAATAAATATTA
50223 ATA
1 ATA
50226 GTAATAAATA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
17 2 0.07
18 28 0.93
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (18 bp):
ATAAAAAAATAAATATTA
Found at i:54758 original size:59 final size:60
Alignment explanation
Indices: 54693--54828 Score: 179
Period size: 59 Copynumber: 2.3 Consensus size: 60
54683 AATAGTTGGT
* *
54693 GACCATTTTGTAACTTTTAATAGTC-GAGAAACTCAACAAAATAATATTATATAGTCAGGG
1 GACCATTTTGTAACTTTTAATAGTCAGAG-AACTCAACAAAACAATATCATATAGTCAGGG
* * **
54753 G-CCATTTTGTAACTTTTAATAGTCAGAGGACTCGACAAAACAATATCATATAGTTGGGG
1 GACCATTTTGTAACTTTTAATAGTCAGAGAACTCAACAAAACAATATCATATAGTCAGGG
54812 GACCA-TTTGTATACTTT
1 GACCATTTTGTA-ACTTT
54829 ACCCTAAATA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
59 55 0.82
60 12 0.18
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (60 bp):
GACCATTTTGTAACTTTTAATAGTCAGAGAACTCAACAAAACAATATCATATAGTCAGGG
Found at i:55950 original size:21 final size:22
Alignment explanation
Indices: 55900--55946 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 22
55890 ATTAGTAAGT
*
55900 AAAATAAAGAAAAATATATTAA
1 AAAATAAAGAAAAAAATATTAA
55922 AAAATAAAGAAAAAGAATATATAA
1 AAAATAAAGAAAAA-AATAT-TAA
55946 A
1 A
55947 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.64
23 4 0.18
24 4 0.18
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (22 bp):
AAAATAAAGAAAAAAATATTAA
Found at i:56107 original size:2 final size:2
Alignment explanation
Indices: 56102--56137 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
56092 CTGAAAAAAC
56102 AT 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 AT
56138 GTTCCAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56428 original size:59 final size:59
Alignment explanation
Indices: 56295--56437 Score: 175
Period size: 59 Copynumber: 2.4 Consensus size: 59
56285 AACATAATAA
* * * *
56295 ATAGTTGGTGACCATTTTGTAACTTTTAATAGTCGAGAAACTCAACAAAATAATATTAT
1 ATAGTTGGGGACCATTTTGTAACTTTTAATAGACGAGAAACTCAACAAAACAATATCAT
* * *
56354 ATAGTCAGGGG-CCATTTTGTAACTTTTAATAGAC-AGAGGACTCGACAAAACAATATCAT
1 ATAGT-TGGGGACCATTTTGTAACTTTTAATAGACGAGA-AACTCAACAAAACAATATCAT
56413 ATAGTTGGGGACCA-TTTGTATACTT
1 ATAGTTGGGGACCATTTTGTA-ACTT
56438 ACCCTAATAA
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
58 13 0.18
59 56 0.78
60 3 0.04
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (59 bp):
ATAGTTGGGGACCATTTTGTAACTTTTAATAGACGAGAAACTCAACAAAACAATATCAT
Found at i:57538 original size:11 final size:11
Alignment explanation
Indices: 57522--57557 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
57512 AATAGTAAGT
57522 AAAATAAAGAA
1 AAAATAAAGAA
* *
57533 AAAATATATAA
1 AAAATAAAGAA
57544 AAAATAAAGAA
1 AAAATAAAGAA
57555 AAA
1 AAA
57558 GAATATATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.14
Consensus pattern (11 bp):
AAAATAAAGAA
Found at i:57567 original size:24 final size:22
Alignment explanation
Indices: 57522--57612 Score: 78
Period size: 22 Copynumber: 4.0 Consensus size: 22
57512 AATAGTAAGT
57522 AAAATAAAGAAAAAATATATAA
1 AAAATAAAGAAAAAATATATAA
57544 AAAATAAAGAAAAAGAATATATAAA
1 AAAATAAAG-AAAA-AATATAT-AA
* *
57569 TAAAACAAATAAATAAA-ATAATAA
1 -AAAATAAAGAAA-AAATAT-ATAA
* *
57593 TAAA-AAAGTAAAAATATATA
1 AAAATAAAGAAAAAATATATA
57613 TATATATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
21 6 0.11
22 16 0.28
23 7 0.12
24 11 0.19
25 9 0.16
26 8 0.14
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (22 bp):
AAAATAAAGAAAAAATATATAA
Found at i:57631 original size:48 final size:47
Alignment explanation
Indices: 57576--57714 Score: 157
Period size: 48 Copynumber: 3.0 Consensus size: 47
57566 AAATAAAACA
57576 AATAAATAAAATAATAATAAAAAAGTAAAAATATATATATATATATAT
1 AATAAATAAAA-AATAATAAAAAAGTAAAAATATATATATATATATAT
*
57624 AATAAATAAAAACATAA-AAAAATAGTAAACATATATATATA-A-AT-T
1 AATAAATAAAAA-ATAATAAAAA-AGTAAAAATATATATATATATATAT
* * *
57669 AAT-AA-AACAGATAATAAAAAA-TAACATATATATATATATATATAT
1 AATAAATAAAAAATAATAAAAAAGTAA-AAATATATATATATATATAT
57714 A
1 A
57715 TATATGTAAT
Statistics
Matches: 80, Mismatches: 4, Indels: 17
0.79 0.04 0.17
Matches are distributed among these distances:
41 3 0.04
42 17 0.21
43 9 0.11
44 4 0.05
45 6 0.08
46 2 0.03
47 7 0.09
48 32 0.40
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.29
Consensus pattern (47 bp):
AATAAATAAAAAATAATAAAAAAGTAAAAATATATATATATATATAT
Found at i:57658 original size:40 final size:39
Alignment explanation
Indices: 57614--57704 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 39
57604 AAATATATAT
57614 ATATATATATAATAAATAAAA-ACATAA-AAAAATAGTAAAC
1 ATATATATATAATAAATAAAACACATAATAAAAA-A-T-AAC
* *
57654 ATATATATATAAATTAATAAAACAGATAATAAAAAATAAC
1 ATATATATAT-AATAAATAAAACACATAATAAAAAATAAC
57694 ATATATATATA
1 ATATATATATA
57705 TATATATATA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
39 1 0.02
40 23 0.50
41 11 0.24
42 6 0.13
43 5 0.11
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (39 bp):
ATATATATATAATAAATAAAACACATAATAAAAAATAAC
Found at i:57699 original size:2 final size:2
Alignment explanation
Indices: 57694--57719 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
57684 AAAAAATAAC
57694 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
57720 GTAATCTGAA
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:58143 original size:37 final size:37
Alignment explanation
Indices: 58093--58204 Score: 181
Period size: 37 Copynumber: 3.0 Consensus size: 37
58083 ATGCTTATGG
*
58093 ATCCTATTTTTAGGAGCTTGAATCATAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
*
58130 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
*
58167 ATCTTATTTTTAGGAGTTTGAAT-ACTAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCA-TAGTAAAACTCT
58204 A
1 A
58205 ACGTTATGTT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
Found at i:60418 original size:16 final size:16
Alignment explanation
Indices: 60397--60433 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
60387 GCTATCTTTG
60397 GGAAATGGTTAAACAA
1 GGAAATGGTTAAACAA
60413 GGAAATGGTTAAACAA
1 GGAAATGGTTAAACAA
*
60429 TGAAA
1 GGAAA
60434 CAAAGTCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.51, C:0.05, G:0.24, T:0.19
Consensus pattern (16 bp):
GGAAATGGTTAAACAA
Found at i:61162 original size:16 final size:15
Alignment explanation
Indices: 61135--61212 Score: 56
Period size: 16 Copynumber: 5.1 Consensus size: 15
61125 TTTTCTTCAC
61135 TTTTTC-CTTTTTTT
1 TTTTTCTCTTTTTTT
61149 TTGTTTCTC-TTTTTT
1 TT-TTTCTCTTTTTTT
*
61164 ATTTTCTCTTTGTTTT
1 TTTTTCTCTTT-TTTT
*
61180 TTCTTTAT-TTTTTCTAT
1 TT-TTTCTCTTTTT-T-T
61197 TTTTTCT-TTTTGTTT
1 TTTTTCTCTTTT-TTT
61212 T
1 T
61213 GATTGAATCT
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
14 8 0.15
15 17 0.33
16 19 0.37
17 8 0.15
ACGTcount: A:0.04, C:0.12, G:0.04, T:0.81
Consensus pattern (15 bp):
TTTTTCTCTTTTTTT
Found at i:61163 original size:14 final size:13
Alignment explanation
Indices: 61144--61206 Score: 58
Period size: 14 Copynumber: 4.8 Consensus size: 13
61134 CTTTTTCCTT
61144 TTTTTTTGTTTCTC
1 TTTTTTT-TTTCTC
61158 TTTTTTATTTTCTC
1 TTTTTT-TTTTCTC
*
61172 -TTTGTTTTT-TC
1 TTTTTTTTTTCTC
* *
61183 TTTATTTTTTCTA
1 TTTTTTTTTTCTC
61196 TTTTTTCTTTT
1 TTTTTT-TTTT
61207 TGTTTTGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
11 2 0.05
12 11 0.28
13 10 0.25
14 16 0.40
15 1 0.03
ACGTcount: A:0.05, C:0.11, G:0.03, T:0.81
Consensus pattern (13 bp):
TTTTTTTTTTCTC
Found at i:61175 original size:24 final size:23
Alignment explanation
Indices: 61148--61207 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 23
61138 TTCCTTTTTT
61148 TTTGTTTCTCTTTTTTATTTTCTC
1 TTTGTTT-TCTTTTTTATTTTCTC
* *
61172 TTTGTTTT-TTCTTTATTTTTTC
1 TTTGTTTTCTTTTTTATTTTCTC
61194 TATT-TTTTCTTTTT
1 T-TTGTTTTCTTTTT
61208 GTTTTGATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 17 0.55
23 7 0.23
24 7 0.23
ACGTcount: A:0.05, C:0.12, G:0.03, T:0.80
Consensus pattern (23 bp):
TTTGTTTTCTTTTTTATTTTCTC
Found at i:61198 original size:31 final size:30
Alignment explanation
Indices: 61136--61212 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 30
61126 TTTCTTCACT
* *
61136 TTTTC-CTTTTTTTTTGTTTCTCTTTTTTA
1 TTTTCTCTTTTTTTTTCTTTATCTTTTTTA
61165 TTTTCTCTTTGTTTTTTCTTTAT-TTTTTCTA
1 TTTTCTCTTT-TTTTTTCTTTATCTTTTT-TA
*
61196 TTTTTTCTTTTTGTTTT
1 TTTTCTCTTTTT-TTTT
61213 GATTGAATCT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 5 0.12
30 11 0.27
31 25 0.61
ACGTcount: A:0.04, C:0.12, G:0.04, T:0.81
Consensus pattern (30 bp):
TTTTCTCTTTTTTTTTCTTTATCTTTTTTA
Found at i:61212 original size:22 final size:22
Alignment explanation
Indices: 61148--61212 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 22
61138 TTCCTTTTTT
*
61148 TTTGTTTCTCTTTTTTATTTTCTC
1 TTTGTTTCT-TTTTTT-TTTTCTA
*
61172 TTTGTTTTTTCTTTATTTTTTCTA
1 TTTGTTTCTT-TTT-TTTTTTCTA
*
61196 TTT-TTTCTTTTTGTTTT
1 TTTGTTTCTTTTTTTTTT
61213 GATTGAATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
21 4 0.11
22 3 0.09
23 6 0.17
24 20 0.57
25 2 0.06
ACGTcount: A:0.05, C:0.11, G:0.05, T:0.80
Consensus pattern (22 bp):
TTTGTTTCTTTTTTTTTTTCTA
Found at i:64110 original size:8 final size:8
Alignment explanation
Indices: 64099--64199 Score: 62
Period size: 8 Copynumber: 12.5 Consensus size: 8
64089 AGGTAAAAAG
64099 AATATATA
1 AATATATA
* *
64107 AATAAACA
1 AATATATA
64115 AATA-AT-
1 AATATATA
*
64121 AATATAAA
1 AATATATA
*
64129 AAGTAAATA
1 AA-TATATA
64138 ACATATATA
1 A-ATATATA
*
64147 TATATATA
1 AATATATA
*
64155 AATAAAATA
1 AAT-ATATA
*
64164 AAAATATA
1 AATATATA
*
64172 GATATATA
1 AATATATA
*
64180 TATATATA
1 AATATATA
* *
64188 TATATATT
1 AATATATA
64196 AATA
1 AATA
64200 AAACGATAAT
Statistics
Matches: 71, Mismatches: 17, Indels: 10
0.72 0.17 0.10
Matches are distributed among these distances:
6 4 0.06
7 2 0.03
8 48 0.68
9 16 0.23
10 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (8 bp):
AATATATA
Found at i:64145 original size:20 final size:21
Alignment explanation
Indices: 64100--64146 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
64090 GGTAAAAAGA
*
64100 ATATATAAATAAACAAATAAT
1 ATATATAAATAAACAAATAAC
**
64121 A-ATATAAA-AAGTAAATAAC
1 ATATATAAATAAACAAATAAC
64140 ATATATA
1 ATATATA
64147 TATATATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 9 0.41
20 12 0.55
21 1 0.05
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (21 bp):
ATATATAAATAAACAAATAAC
Found at i:64147 original size:2 final size:2
Alignment explanation
Indices: 64140--64194 Score: 58
Period size: 2 Copynumber: 28.0 Consensus size: 2
64130 AGTAAATAAC
* * * * *
64140 AT AT AT AT AT AT AT AA AT A- AA AT AA AA AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64181 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
64195 TAATAAAACG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (2 bp):
AT
Found at i:64846 original size:35 final size:35
Alignment explanation
Indices: 64782--64883 Score: 168
Period size: 35 Copynumber: 2.9 Consensus size: 35
64772 TTGGATCTAT
*
64782 TTTTAGGAGTTTGAATCATAGTAGAACTCTATCCTA
1 TTTTAGGAGTTTGAATC-TAGTAAAACTCTATCCTA
*
64818 TTTTAGGAGTTTGAATCTAGTAAAACTCTATCTTA
1 TTTTAGGAGTTTGAATCTAGTAAAACTCTATCCTA
64853 TTTTAGGAGTTTGAATCCTAGTAAAACTCTA
1 TTTTAGGAGTTTGAAT-CTAGTAAAACTCTA
64884 ACGTTATGTT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
35 32 0.51
36 31 0.49
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (35 bp):
TTTTAGGAGTTTGAATCTAGTAAAACTCTATCCTA
Found at i:67733 original size:24 final size:24
Alignment explanation
Indices: 67706--67755 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
67696 TATATCAAAA
*
67706 ATCAAAACACAATCCAAGTCAAGT
1 ATCAAAACAAAATCCAAGTCAAGT
* * *
67730 ATCAGATCAAAATCCAGGTCAAGT
1 ATCAAAACAAAATCCAAGTCAAGT
67754 AT
1 AT
67756 TTGATCAGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.46, C:0.22, G:0.12, T:0.20
Consensus pattern (24 bp):
ATCAAAACAAAATCCAAGTCAAGT
Found at i:67761 original size:24 final size:24
Alignment explanation
Indices: 67716--67803 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 24
67706 ATCAAAACAC
67716 AATCCAAGTCAAGTATCAGATCAA
1 AATCCAAGTCAAGTATCAGATCAA
* **
67740 AATCCAGGTCAAGTATTTGATCAGA
1 AATCCAAGTCAAGTATCAGATCA-A
* * *
67765 AA-CCAGGTCAAGTATCCGATCAG
1 AATCCAAGTCAAGTATCAGATCAA
*
67788 AATCCAAGTCAGGTAT
1 AATCCAAGTCAAGTAT
67804 TATAATAGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
23 2 0.04
24 49 0.91
25 3 0.06
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (24 bp):
AATCCAAGTCAAGTATCAGATCAA
Found at i:67814 original size:48 final size:48
Alignment explanation
Indices: 67723--67814 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
67713 CACAATCCAA
* *
67723 GTCAAGTATCAGATCAAAATCCAGGTCAAGTATTTGATCAGAAACCAG
1 GTCAAGTATCAGATCAAAATCCAAGTCAAGTATTTAATCAGAAACCAG
* * *
67771 GTCAAGTATCCGATCAGAATCCAAGTCAGGTATTATAAT-AGAAA
1 GTCAAGTATCAGATCAAAATCCAAGTCAAGTATT-TAATCAGAAA
67815 TCAAATCGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
48 35 0.92
49 3 0.08
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.24
Consensus pattern (48 bp):
GTCAAGTATCAGATCAAAATCCAAGTCAAGTATTTAATCAGAAACCAG
Found at i:72308 original size:12 final size:12
Alignment explanation
Indices: 72252--72308 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 12
72242 TTTTCCTTTG
*
72252 TTTTTGTTTCTC
1 TTTTTTTTTCTC
72264 TATTTTATTTTCTC
1 T-TTTT-TTTTCTC
*
72278 TTTGCTTTTTCT-
1 TTT-TTTTTTCTC
72290 TTGTTTTTTTCTC
1 TT-TTTTTTTCTC
72303 TTTTTT
1 TTTTTT
72309 CTTTTTGTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
12 14 0.38
13 15 0.41
14 8 0.22
ACGTcount: A:0.04, C:0.14, G:0.05, T:0.77
Consensus pattern (12 bp):
TTTTTTTTTCTC
Found at i:75348 original size:4 final size:4
Alignment explanation
Indices: 75339--75505 Score: 76
Period size: 4 Copynumber: 41.0 Consensus size: 4
75329 AAAAAGTAAG
* *
75339 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAATT AAATT AAAAT GAAG AAA-
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA-T AAA-T -AAAT AAAT AAAT
* * * * * * *
75389 AAAC AAATT AAAT AAA- AGAT AAGAT AAAG AAAG CAA- AGAT AAA- ATAGT
1 AAAT AAA-T AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT A-AAT
* * * * *
75437 AAGT AAAAT AAAT AAA- AAAT AAAG AAAA AGAAT ATAT AAAT AAAAC AAAT
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT -AAAT AAAT
*
75487 AAAT AAAT ACAT AAA- AAAT
1 AAAT AAAT AAAT AAAT AAAT
75506 TGTAAATATA
Statistics
Matches: 127, Mismatches: 22, Indels: 28
0.72 0.12 0.16
Matches are distributed among these distances:
3 13 0.10
4 87 0.69
5 24 0.19
6 3 0.02
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:75481 original size:17 final size:17
Alignment explanation
Indices: 75453--75495 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
75443 AATAAATAAA
*
75453 AAATAAAGAAAA-AGAAT
1 AAATAAATAAAACA-AAT
*
75470 ATATAAATAAAACAAAT
1 AAATAAATAAAACAAAT
75487 AAATAAATA
1 AAATAAATA
75496 CATAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (17 bp):
AAATAAATAAAACAAAT
Found at i:75500 original size:21 final size:20
Alignment explanation
Indices: 75339--75504 Score: 74
Period size: 21 Copynumber: 8.1 Consensus size: 20
75329 AAAAAGTAAG
*
75339 AAATAAATAAATAAATAAAT
1 AAATAAATAAATAAATAAAA
75359 AAATAAATAAATTAAATTAAAA
1 AAATAAATAAA-TAAA-TAAAA
* * * *
75381 TGAAGAAA-AAACAAATTAAAT
1 -AAATAAATAAATAAA-TAAAA
* * *
75402 AAA-AGATAAGATAAAGAAAG
1 AAATAAATAA-ATAAATAAAA
* * * *
75422 CAA-AGATAAA-ATAGTAAGTA
1 AAATAAATAAATA-AATAA-AA
75442 AAATAAATAAA-AAATAAAGA
1 AAATAAATAAATAAATAAA-A
*
75462 AAA-AGAATATATAAATAAAA
1 AAATA-AATAAATAAATAAAA
*
75482 CAAATAAATAAATACATAAAA
1 -AAATAAATAAATAAATAAAA
75503 AA
1 AA
75505 TTGTAAATAT
Statistics
Matches: 111, Mismatches: 22, Indels: 26
0.70 0.14 0.16
Matches are distributed among these distances:
18 1 0.01
19 7 0.06
20 44 0.40
21 46 0.41
22 8 0.07
23 5 0.05
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (20 bp):
AAATAAATAAATAAATAAAA
Found at i:75516 original size:2 final size:2
Alignment explanation
Indices: 75511--75540 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
75501 AAAATTGTAA
75511 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
75541 TAATAAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76012 original size:37 final size:37
Alignment explanation
Indices: 75971--76078 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
75961 TTGTGGATCT
* * *
75971 TATTTTTAGGAGTTTGAATCATAATAGAACTCTATCA
1 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
* *
76008 TATTTTTAGGAGTTTGAATCCTAGTAAAATTTTATCA
1 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
*
76045 TATTTTTAAGAGTTTGAATCCTAGTAAAACTCTA
1 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTA
76079 ACTTTATGTT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (37 bp):
TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
Found at i:77004 original size:72 final size:72
Alignment explanation
Indices: 76887--77034 Score: 296
Period size: 72 Copynumber: 2.1 Consensus size: 72
76877 ATAAAGTAAA
76887 AGTATGTCCTTTCACATTCCACTAATCCGGTTTCAAATTTCAAAACCAATGTAAAAAATAGTACA
1 AGTATGTCCTTTCACATTCCACTAATCCGGTTTCAAATTTCAAAACCAATGTAAAAAATAGTACA
76952 TTTTATG
66 TTTTATG
76959 AGTATGTCCTTTCACATTCCACTAATCCGGTTTCAAATTTCAAAACCAATGTAAAAAATAGTACA
1 AGTATGTCCTTTCACATTCCACTAATCCGGTTTCAAATTTCAAAACCAATGTAAAAAATAGTACA
77024 TTTTATG
66 TTTTATG
77031 AGTA
1 AGTA
77035 AAATAAAAAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 76 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.34
Consensus pattern (72 bp):
AGTATGTCCTTTCACATTCCACTAATCCGGTTTCAAATTTCAAAACCAATGTAAAAAATAGTACA
TTTTATG
Found at i:83365 original size:37 final size:36
Alignment explanation
Indices: 83323--83396 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 36
83313 GTTAGAAAAT
*
83323 ATTTATAT-ATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATAATTTT-TTTAAAAAATTTAAAAT-ATAAA
* *
83360 ATTTATATAATTTTTTTATAATATTTAAAATATAAA
1 ATTTATATAATTTTTTTAAAAAATTTAAAATATAAA
83396 A
1 A
83397 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 6 0.18
37 22 0.67
38 5 0.15
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (36 bp):
ATTTATATAATTTTTTTAAAAAATTTAAAATATAAA
Found at i:88705 original size:14 final size:14
Alignment explanation
Indices: 88686--88715 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
88676 TTTTTCAATT
*
88686 TCGAGTTATTCTAG
1 TCGAGTTATTCGAG
88700 TCGAGTTATTCGAG
1 TCGAGTTATTCGAG
88714 TC
1 TC
88716 AACTCAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (14 bp):
TCGAGTTATTCGAG
Found at i:90524 original size:21 final size:21
Alignment explanation
Indices: 90451--90525 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
90441 TCGGGATATG
* *
90451 TATGTAATCATTTGGAACATA
1 TATGTGATCCTTTGGAACATA
* * *
90472 TATGCGATTCTTCAGGACACATA
1 TATGTGATCCTT-TGGA-ACATA
* *
90495 T-T-TGGTCCTTTGGAATATA
1 TATGTGATCCTTTGGAACATA
90514 TATGTGATCCTT
1 TATGTGATCCTT
90526 AAGGAGTTGT
Statistics
Matches: 39, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
19 5 0.13
20 4 0.10
21 20 0.51
22 4 0.10
23 6 0.15
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (21 bp):
TATGTGATCCTTTGGAACATA
Found at i:96439 original size:17 final size:16
Alignment explanation
Indices: 96417--96450 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
96407 TTTTTACTTC
*
96417 ATTTATATTATTAATTA
1 ATTTATAATA-TAATTA
96434 ATTTATAATATAATTA
1 ATTTATAATATAATTA
96450 A
1 A
96451 CATATTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTATAATATAATTA
Found at i:97759 original size:20 final size:20
Alignment explanation
Indices: 97734--97771 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
97724 AATTAAGTTT
*
97734 TTATAAATAGATGTTAAGGG
1 TTATAAATAGAAGTTAAGGG
*
97754 TTATAATTAGAAGTTAAG
1 TTATAAATAGAAGTTAAG
97772 TTGGATAGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (20 bp):
TTATAAATAGAAGTTAAGGG
Found at i:100556 original size:20 final size:20
Alignment explanation
Indices: 100531--100597 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
100521 TTTTCCGACT
100531 ATCGCAATGCGAATATGTA-A
1 ATCGCAATGCGAATATG-ACA
* *
100551 ATCGCAATGCGATTATGACT
1 ATCGCAATGCGAATATGACA
* * *
100571 ATCGCAATGCGATTCTGACT
1 ATCGCAATGCGAATATGACA
100591 ATCGCAA
1 ATCGCAA
100598 CGAGATTCTG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 1 0.02
20 42 0.98
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (20 bp):
ATCGCAATGCGAATATGACA
Found at i:100595 original size:40 final size:40
Alignment explanation
Indices: 100527--100664 Score: 152
Period size: 40 Copynumber: 3.5 Consensus size: 40
100517 ACGATTTTCC
* * * * *
100527 GACTATCGCAATGCGAATATGTA-AATCGCAATGCGATTAT
1 GACTATCGCAATGCGATTCTG-ACTATCGCAAAGCGATTCT
* *
100567 GACTATCGCAATGCGATTCTGACTATCGCAACGAGATTCT
1 GACTATCGCAATGCGATTCTGACTATCGCAAAGCGATTCT
* * * *
100607 GACTATCGTAACGCGATTCTGACTGTCGCAAAGCGATGCT
1 GACTATCGCAATGCGATTCTGACTATCGCAAAGCGATTCT
*
100647 GATTATCGCAATGCGATT
1 GACTATCGCAATGCGATT
100665 TTCAAAGCAC
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 81 0.99
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (40 bp):
GACTATCGCAATGCGATTCTGACTATCGCAAAGCGATTCT
Found at i:100604 original size:20 final size:20
Alignment explanation
Indices: 100551--100664 Score: 138
Period size: 20 Copynumber: 5.7 Consensus size: 20
100541 GAATATGTAA
* *
100551 ATCGCAATGCGATTATGACT
1 ATCGCAACGCGATTCTGACT
*
100571 ATCGCAATGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
100591 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
100611 ATCGTAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* * * *
100631 GTCGCAAAGCGATGCTGATT
1 ATCGCAACGCGATTCTGACT
*
100651 ATCGCAATGCGATT
1 ATCGCAACGCGATT
100665 TTCAAAGCAC
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 81 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:100798 original size:27 final size:27
Alignment explanation
Indices: 100758--100828 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
100748 CACAGTATAT
* * *
100758 CCCTTAATCGCAACTTATAACCGAAAA
1 CCCTAAATCACAACTCATAACCGAAAA
100785 CCCTAAATCACAACTCATAACCGAAAA
1 CCCTAAATCACAACTCATAACCGAAAA
100812 CCCTAAATCACAACTCA
1 CCCTAAATCACAACTCA
100829 GTCCCATCTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.44, C:0.34, G:0.04, T:0.18
Consensus pattern (27 bp):
CCCTAAATCACAACTCATAACCGAAAA
Found at i:100891 original size:22 final size:22
Alignment explanation
Indices: 100866--100908 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
100856 GGCGACATCT
100866 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
100888 GTCCCCATCTCCGGCGAAATC
1 GTCCCCATCTCCGACGAAATC
100909 CGTCTATCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.42, G:0.16, T:0.19
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:101369 original size:20 final size:19
Alignment explanation
Indices: 101295--101381 Score: 68
Period size: 20 Copynumber: 4.5 Consensus size: 19
101285 AGAGTCGCAA
*
101295 TGCGATTTT-AGTTTCGTGT
1 TGCGATTTTCA-TTTCGCGT
* *
101314 TGTGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCGT
* ** *
101333 TGTGATAGTCAAATTCGCGT
1 TGCGATTTTC-ATTTCGCGT
*
101353 TGCGATTTTCATTTTCGTGT
1 TGCGATTTTCA-TTTCGCGT
101373 TGCGATTTT
1 TGCGATTTT
101382 AAGTTTCAGA
Statistics
Matches: 53, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
19 23 0.43
20 30 0.57
ACGTcount: A:0.15, C:0.14, G:0.22, T:0.49
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:101388 original size:20 final size:20
Alignment explanation
Indices: 101346--101388 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
101336 GATAGTCAAA
* *
101346 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTAAGT
*
101366 TTCGTGTTGCGATTTTAAGT
1 TTCGCGTTGCGATTTTAAGT
101386 TTC
1 TTC
101389 AGAAACTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.51
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTAAGT
Found at i:103426 original size:20 final size:20
Alignment explanation
Indices: 103401--103485 Score: 111
Period size: 20 Copynumber: 4.3 Consensus size: 20
103391 GATTATCTCA
*
103401 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCATATTCGCG
*
103421 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATATTCGCG
* *
103441 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATATTCGCG
*
103461 TTGCGATAGTC--ATTCGTG
1 TTGCGATAGTCATATTCGCG
103479 TTGCGAT
1 TTGCGAT
103486 TTTAAGTTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
18 11 0.19
20 48 0.81
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATATTCGCG
Found at i:104066 original size:21 final size:21
Alignment explanation
Indices: 103977--104079 Score: 73
Period size: 21 Copynumber: 4.9 Consensus size: 21
103967 CTCACCTGTA
* *
103977 ATCGTTCAAGAGGCCTC-CCC
1 ATCGTTCAAGAGGCCACTCTC
* *
103997 TATCGTTCAAGAGGCCCCTATC
1 -ATCGTTCAAGAGGCCACTCTC
** * * *
104019 ATCCCTCAAGAGTCCCCTCCC
1 ATCGTTCAAGAGGCCACTCTC
* *
104040 ACCGTTCAAGAGGCCACTGTC
1 ATCGTTCAAGAGGCCACTCTC
* *
104061 ATCGTTGAAGAGGTCACTC
1 ATCGTTCAAGAGGCCACTC
104080 CCAACATTCT
Statistics
Matches: 62, Mismatches: 19, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
21 61 0.98
22 1 0.02
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.22
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCACTCTC
Found at i:105519 original size:14 final size:14
Alignment explanation
Indices: 105482--105543 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
105472 TTTCTTGTTT
*
105482 AATTGATTTATAAA
1 AATTGATTTGTAAA
105496 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* *
105510 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
105525 TATTGATGTGTAAA
1 AATTGATTTGTAAA
105539 TAATT
1 -AATT
105544 CTTATTTGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 13 0.34
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.47
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:105693 original size:20 final size:20
Alignment explanation
Indices: 105657--105695 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
105647 ACGCTAAACT
*
105657 CAAAATCGCAATACGAAAGA
1 CAAAATCGCAACACGAAAGA
*
105677 CAAAATCGCAACGCGAAAG
1 CAAAATCGCAACACGAAAG
105696 TCAATTTACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.23, G:0.18, T:0.08
Consensus pattern (20 bp):
CAAAATCGCAACACGAAAGA
Found at i:105763 original size:20 final size:20
Alignment explanation
Indices: 105738--105962 Score: 222
Period size: 20 Copynumber: 11.8 Consensus size: 20
105728 GCGATTTTCT
* *
105738 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
*
105758 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
105778 CGTTGCGATACTCAAATTTG
1 CGTTGCGATAGTCAAATTCG
105798 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
105818 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
105838 CATTGCGATAGACAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
105858 CATTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
*
105872 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
* *
105892 TGTTACGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
105912 CGTTGTGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
*
105926 AGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
105946 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
105963 GAATGTGTAA
Statistics
Matches: 168, Mismatches: 25, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
14 21 0.12
16 2 0.01
18 1 0.01
20 144 0.86
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:105961 original size:54 final size:54
Alignment explanation
Indices: 105758--105962 Score: 239
Period size: 54 Copynumber: 3.7 Consensus size: 54
105748 GTCAAATACC
* * * *
105758 CGTTGCGATAATCAAATTCGCGTTGCGATACTCAAATTTGCGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT--T----TTTG
* * *
105818 CGTTGCGATAGTCAAATTCGCATTGCGATAGACAAATTCGCATTGCGATTTTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
* * * *
105872 CGTTGCGATAGTCATATTCGTGTTACGATAGTCAAATTCGCGTTGTGATTTTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
* *
105926 AGTTGCGATAGTCAAATTCGCGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAAT
105963 GAATGTGTAA
Statistics
Matches: 126, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
54 82 0.65
58 1 0.01
60 43 0.34
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (54 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
Found at i:108193 original size:14 final size:14
Alignment explanation
Indices: 108174--108210 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
108164 TCCCGTGGCA
108174 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
108188 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
108202 TTCTTCTTC
1 TT-TTCTTC
108211 TTCAAGGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:108422 original size:24 final size:24
Alignment explanation
Indices: 108388--108441 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
108378 CTAAAACATC
*
108388 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
* *
108412 ATCAAAGTCCGGGTATTAACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
108436 ATCAAA
1 ATCAAA
108442 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTAACCAAG
Found at i:109220 original size:20 final size:20
Alignment explanation
Indices: 109195--109241 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
109185 GAAATTCAGT
109195 GTTGCGACAGTCAGAATCGC
1 GTTGCGACAGTCAGAATCGC
* *
109215 GTTGCGATAGTCATAATCGC
1 GTTGCGACAGTCAGAATCGC
*
109235 ATTGCGA
1 GTTGCGA
109242 TTTACATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (20 bp):
GTTGCGACAGTCAGAATCGC
Found at i:109242 original size:20 final size:20
Alignment explanation
Indices: 109226--109302 Score: 145
Period size: 20 Copynumber: 3.9 Consensus size: 20
109216 TTGCGATAGT
*
109226 CATAATCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
109246 CATATTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
109266 CATATTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
109286 CATATTCGCATTGCGAT
1 CATATTCGCATTGCGAT
109303 AATCGGAAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (20 bp):
CATATTCGCATTGCGATTTA
Found at i:109260 original size:40 final size:41
Alignment explanation
Indices: 109211--109303 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 41
109201 ACAGTCAGAA
*
109211 TCGCGTTGCGATAGT-CATAATCGCATTGCGATTTACATAT
1 TCGCATTGCGATAGTACATAATCGCATTGCGATTTACATAT
* *
109251 TCGCATTGCGAT-TTACATATTCGCATTGCGATTTACATAT
1 TCGCATTGCGATAGTACATAATCGCATTGCGATTTACATAT
109291 TCGCATTGCGATA
1 TCGCATTGCGATA
109304 ATCGGAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 1 0.02
40 47 0.98
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (41 bp):
TCGCATTGCGATAGTACATAATCGCATTGCGATTTACATAT
Done.