Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000755.1 Hibiscus syriacus cultivar Beakdansim tig00001458_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: 86145
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:1144 original size:64 final size:62
Alignment explanation
Indices: 1059--1218 Score: 162
Period size: 64 Copynumber: 2.5 Consensus size: 62
1049 TTGTTTAAGG
* * * * *
1059 TGCATCGATGCACATGCAGTGCATCGATGCAT-TAATTTAAAAAGAAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCAA-TTAAAAA-AAAACATCGAATAAGA-TTA
* * * *
1123 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAATATCGAATAAGATTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCAT-CCAATTAAAAAAAAACATCGAATAAGATTA
*
1186 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
1219 ACCTCCATTA
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
62 1 0.01
63 17 0.21
64 57 0.70
65 6 0.07
66 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (62 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCAATTAAAAAAAAACATCGAATAAGATTA
Found at i:1875 original size:103 final size:102
Alignment explanation
Indices: 1651--1867 Score: 389
Period size: 103 Copynumber: 2.1 Consensus size: 102
1641 GTAGAGGGTC
*
1651 TATGTGGTCCTTCGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATACT
1 TATGTGGTCCTTCGGACATATATGTATTCTTTGGAACATGTGTGAGGTATGGTGAGACACATACT
* *
1716 TGATCCTTGGCATATGTATATTATTCTTAAGGAATGA
66 TGATCATTGGCATATGTATATGATTCTTAAGGAATGA
*
1753 TATATGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTATGGTGAGACACATAC
1 TATGTGGTCCTTC-GGACATATATGTATTCTTTGGAACATGTGTGAGGTATGGTGAGACACATAC
1818 TTGATCATTGGCATATGTATATGATTCTTAAGGAATGA
65 TTGATCATTGGCATATGTATATGATTCTTAAGGAATGA
1856 TATGTGGTCCTT
1 TATGTGGTCCTT
1868 ATGGACATTA
Statistics
Matches: 109, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
102 12 0.11
103 97 0.89
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (102 bp):
TATGTGGTCCTTCGGACATATATGTATTCTTTGGAACATGTGTGAGGTATGGTGAGACACATACT
TGATCATTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:1917 original size:23 final size:23
Alignment explanation
Indices: 1884--1946 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
1874 ATTATTATAT
1884 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
1907 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
1930 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
1947 ATATGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 35 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:3770 original size:23 final size:22
Alignment explanation
Indices: 3744--3822 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
3734 ATGGCAGTGT
3744 CATCGATGCACATTCAAGGCATG
1 CATCGATGCACATTCAAGG-ATG
* * *
3767 CATCGGTGCACCTTCATGG-TG
1 CATCGATGCACATTCAAGGATG
* **
3788 TATCGATGCACATTCAAAGGGACA
1 CATCGATGCACATTC-AA-GGATG
3812 CATCGATGCAC
1 CATCGATGCAC
3823 TGTTAAGTGT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 14 0.33
22 1 0.02
23 18 0.42
24 10 0.23
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (22 bp):
CATCGATGCACATTCAAGGATG
Found at i:3797 original size:21 final size:21
Alignment explanation
Indices: 3740--3804 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
3730 ATGCATGGCA
3740 GTGTCATCGATGCACATTCAAG
1 GTGT-ATCGATGCACATTCAAG
* * * *
3762 GCATGCATCGGTGCACCTTCATG
1 G--TGTATCGATGCACATTCAAG
3785 GTGTATCGATGCACATTCAA
1 GTGTATCGATGCACATTCAA
3805 AGGGACACAT
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
21 15 0.45
22 1 0.03
23 15 0.45
24 2 0.06
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (21 bp):
GTGTATCGATGCACATTCAAG
Found at i:10411 original size:23 final size:22
Alignment explanation
Indices: 10381--10453 Score: 89
Period size: 23 Copynumber: 3.4 Consensus size: 22
10371 TATTTTATTC
10381 ATATATTATTCTTGTTTAAATTA
1 ATATATTATTCTTG-TTAAATTA
*
10404 ATATATTA--ATTGTT-AATTA
1 ATATATTATTCTTGTTAAATTA
10423 ATATATTATTCTTGGTTAAATTA
1 ATATATTATTCTT-GTTAAATTA
*
10446 ATAAATTA
1 ATATATTA
10454 ATAAATTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
19 13 0.30
20 2 0.05
21 5 0.12
22 3 0.07
23 20 0.47
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (22 bp):
ATATATTATTCTTGTTAAATTA
Found at i:10413 original size:42 final size:43
Alignment explanation
Indices: 10367--10456 Score: 130
Period size: 42 Copynumber: 2.1 Consensus size: 43
10357 TTATTGGTTT
* * * *
10367 TTAATAT-TTTATTCATATATTATTCTTGTTTAAATTAATATA
1 TTAATATGTTAATTAATATATTATTCTTGGTTAAATTAATAAA
10409 TTAAT-TGTTAATTAATATATTATTCTTGGTTAAATTAATAAA
1 TTAATATGTTAATTAATATATTATTCTTGGTTAAATTAATAAA
10451 TTAATA
1 TTAATA
10457 AATTAATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
41 1 0.02
42 41 0.98
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.53
Consensus pattern (43 bp):
TTAATATGTTAATTAATATATTATTCTTGGTTAAATTAATAAA
Found at i:10452 original size:8 final size:8
Alignment explanation
Indices: 10439--10505 Score: 77
Period size: 8 Copynumber: 8.5 Consensus size: 8
10429 TATTCTTGGT
10439 TAAATTAA
1 TAAATTAA
10447 TAAATTAA
1 TAAATTAA
10455 TAAATTAA
1 TAAATTAA
10463 TAAATTAA
1 TAAATTAA
10471 TATAATCT-A
1 TA-AAT-TAA
*
10480 TAAATTTA
1 TAAATTAA
10488 TAAA--AA
1 TAAATTAA
*
10494 TTAATTAA
1 TAAATTAA
10502 TAAA
1 TAAA
10506 ATTTGTTTGG
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
6 4 0.08
7 1 0.02
8 39 0.76
9 6 0.12
10 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (8 bp):
TAAATTAA
Found at i:10580 original size:25 final size:25
Alignment explanation
Indices: 10552--10658 Score: 91
Period size: 25 Copynumber: 4.4 Consensus size: 25
10542 AATTAGTAGT
10552 AATCATTAGTAAATCATTATTATTC-
1 AATCATTAGTAAATCATTATTA-TCA
* * *
10577 AATCATCATTAAA-AAGTTATTATCA
1 AATCATTAGTAAATCA-TTATTATCA
* *
10602 AATCATTATTAAATCATTAGTATCA
1 AATCATTAGTAAATCATTATTATCA
* *
10627 AATCA-T--TAAATTATTA-TATTA
1 AATCATTAGTAAATCATTATTATCA
10648 AATCATTAGTA
1 AATCATTAGTA
10659 CTAAATCATT
Statistics
Matches: 68, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
21 9 0.13
22 10 0.15
24 6 0.09
25 42 0.62
26 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (25 bp):
AATCATTAGTAAATCATTATTATCA
Found at i:10612 original size:14 final size:13
Alignment explanation
Indices: 10597--10634 Score: 53
Period size: 11 Copynumber: 3.0 Consensus size: 13
10587 AAAAAGTTAT
10597 TATCAAATCATTA
1 TATCAAATCATTA
10610 T-T-AAATCATTA
1 TATCAAATCATTA
10621 GTATCAAATCATTA
1 -TATCAAATCATTA
10635 AATTATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 9 0.41
12 2 0.09
13 2 0.09
14 9 0.41
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (13 bp):
TATCAAATCATTA
Found at i:10652 original size:21 final size:22
Alignment explanation
Indices: 10609--10655 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
10599 TCAAATCATT
10609 ATTAAATCATTAGTATCAAATC
1 ATTAAATCATTAGTATCAAATC
* *
10631 ATTAAATTATTA-TATTAAATC
1 ATTAAATCATTAGTATCAAATC
10652 ATTA
1 ATTA
10656 GTACTAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTAAATCATTAGTATCAAATC
Found at i:10665 original size:14 final size:13
Alignment explanation
Indices: 10633--10704 Score: 55
Period size: 14 Copynumber: 5.8 Consensus size: 13
10623 ATCAAATCAT
* *
10633 TAAATTATTATAT
1 TAAATCATTATAC
10646 TAAATCATTAGTAC
1 TAAATCATTA-TAC
10660 TAAATC---AT--
1 TAAATCATTATAC
* *
10668 TAAATTATTATAT
1 TAAATCATTATAC
10681 TAAATCATTAGTAC
1 TAAATCATTA-TAC
10695 TAAATCATTA
1 TAAATCATTA
10705 CATTATTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
8 5 0.11
10 1 0.02
11 3 0.06
13 18 0.38
14 20 0.43
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (13 bp):
TAAATCATTATAC
Found at i:10686 original size:21 final size:22
Alignment explanation
Indices: 10644--10690 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
10634 AAATTATTAT
10644 ATTAAATCATTAGTACTAAATC
1 ATTAAATCATTAGTACTAAATC
* *
10666 ATTAAATTATTA-TATTAAATC
1 ATTAAATCATTAGTACTAAATC
10687 ATTA
1 ATTA
10691 GTACTAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTAAATCATTAGTACTAAATC
Found at i:10744 original size:35 final size:35
Alignment explanation
Indices: 10608--10737 Score: 208
Period size: 35 Copynumber: 3.7 Consensus size: 35
10598 ATCAAATCAT
10608 TATTAAATCATTAGTA-TCAAATCATTAAATTATTA
1 TATTAAATCATTAGTACT-AAATCATTAAATTATTA
10643 TATTAAATCATTAGTACTAAATCATTAAATTATTA
1 TATTAAATCATTAGTACTAAATCATTAAATTATTA
*
10678 TATTAAATCATTAGTACTAAATCATTACATTATTA
1 TATTAAATCATTAGTACTAAATCATTAAATTATTA
* * *
10713 TTTTAAATCATTATTAGTAAATCAT
1 TATTAAATCATTAGTACTAAATCAT
10738 ATCATTACAC
Statistics
Matches: 90, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
35 89 0.99
36 1 0.01
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (35 bp):
TATTAAATCATTAGTACTAAATCATTAAATTATTA
Found at i:10815 original size:22 final size:22
Alignment explanation
Indices: 10748--10910 Score: 90
Period size: 22 Copynumber: 7.1 Consensus size: 22
10738 ATCATTACAC
*
10748 TTAAATCATTATTTATAAA--A
1 TTAAATCATTATTAATAAATCA
*
10768 TTAGTAATCATTAGTAATCAAATCA
1 TTA--AATCATTATTAAT-AAATCA
10793 TTAAATCATTATTAATAAATCA
1 TTAAATCATTATTAATAAATCA
* *
10815 -T--ATCATTAAGGTTCAA-ATATTA
1 TTAAATCATT-A--TT-AATAAATCA
10837 TTAGTAATCATTATT-ATCAAATCA
1 TTA--AATCATTATTAAT-AAATCA
*
10861 TTATCAAATCATTAGT-ATCAAATCA
1 -T-T-AAATCATTATTAAT-AAATCA
*
10886 TTAAATCATTATTATTAAATCA
1 TTAAATCATTATTAATAAATCA
10908 TTA
1 TTA
10911 GTAGGAAATC
Statistics
Matches: 113, Mismatches: 10, Indels: 38
0.70 0.06 0.24
Matches are distributed among these distances:
19 6 0.05
20 4 0.04
21 1 0.01
22 43 0.38
23 20 0.18
24 7 0.06
25 23 0.20
26 2 0.02
27 7 0.06
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (22 bp):
TTAAATCATTATTAATAAATCA
Found at i:10865 original size:11 final size:11
Alignment explanation
Indices: 10849--10888 Score: 53
Period size: 11 Copynumber: 3.4 Consensus size: 11
10839 AGTAATCATT
10849 ATTATCAAATC
1 ATTATCAAATC
10860 ATTATCAAATC
1 ATTATCAAATC
10871 ATTAGTATCAAATC
1 A-T--TATCAAATC
10885 ATTA
1 ATTA
10889 AATCATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 14 0.54
12 1 0.04
13 1 0.04
14 10 0.38
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.38
Consensus pattern (11 bp):
ATTATCAAATC
Found at i:10879 original size:25 final size:24
Alignment explanation
Indices: 10842--10910 Score: 97
Period size: 22 Copynumber: 2.9 Consensus size: 24
10832 TATTATTAGT
10842 AATCATTATTATCAAATCATTATCA
1 AATCATTATTATCAAATCATTAT-A
*
10867 AATCATTAGTATCAAATCA-T-TA
1 AATCATTATTATCAAATCATTATA
*
10889 AATCATTATTATTAAATCATTA
1 AATCATTATTATCAAATCATTA
10911 GTAGGAAATC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
22 18 0.46
23 2 0.05
24 1 0.03
25 18 0.46
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.41
Consensus pattern (24 bp):
AATCATTATTATCAAATCATTATA
Found at i:10902 original size:14 final size:14
Alignment explanation
Indices: 10666--10924 Score: 65
Period size: 14 Copynumber: 17.9 Consensus size: 14
10656 GTACTAAATC
*
10666 ATTAAATTATTA-T
1 ATTAAATCATTATT
*
10679 ATTAAATCATTAGT
1 ATTAAATCATTATT
* *
10693 ACTAAATCATTA-C
1 ATTAAATCATTATT
10706 A-T---T-ATTATT
1 ATTAAATCATTATT
10715 -TTAAATCATTATT
1 ATTAAATCATTATT
*
10728 AGTAAATCATATCATT
1 ATTAAATCAT-T-ATT
10744 ACACTTAAATCATTATTT
1 --A-TTAAATCATTA-TT
* * * *
10762 ATAAAATTAGTAATC
1 ATTAAATCA-TTATT
* *
10777 ATTAGTAATCA-AATC
1 ATTA--AATCATTATT
10792 ATTAAATCATTATT
1 ATTAAATCATTATT
*
10806 AATAAATCATATCATT
1 ATTAAATCAT-T-ATT
10822 AAGGTTCAAAT-ATTATT
1 -A--TT-AAATCATTATT
*
10839 AGT-AATCATTATT
1 ATTAAATCATTATT
*
10852 ATCAAATCATTATCAAAT
1 ATTAAATCATTAT----T
* * *
10870 CATTAGTATCA-AATC
1 -ATTA-AATCATTATT
10885 ATTAAATCATTATT
1 ATTAAATCATTATT
*
10899 ATTAAATCATTAGT
1 ATTAAATCATTATT
**
10913 AGGAAATCATTA
1 ATTAAATCATTA
10925 AATCATTATT
Statistics
Matches: 184, Mismatches: 29, Indels: 65
0.66 0.10 0.23
Matches are distributed among these distances:
8 4 0.02
9 2 0.01
12 5 0.03
13 34 0.18
14 70 0.38
15 20 0.11
16 10 0.05
17 9 0.05
18 6 0.03
19 16 0.09
20 8 0.04
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.41
Consensus pattern (14 bp):
ATTAAATCATTATT
Found at i:10941 original size:22 final size:22
Alignment explanation
Indices: 10899--10944 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
10889 AATCATTATT
*
10899 ATTAAATCATTAGTAGGAAATC
1 ATTAAATCATTAGTAAGAAATC
* *
10921 ATTAAATCATTATTAATAAATC
1 ATTAAATCATTAGTAAGAAATC
10943 AT
1 AT
10945 ATCATTACAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.37
Consensus pattern (22 bp):
ATTAAATCATTAGTAAGAAATC
Found at i:20947 original size:12 final size:12
Alignment explanation
Indices: 20932--20958 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
20922 TTATATCTTC
20932 TTATATAAATTT
1 TTATATAAATTT
20944 TTATATAAATTT
1 TTATATAAATTT
20956 TTA
1 TTA
20959 AAGCAGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATATAAATTT
Found at i:22715 original size:31 final size:31
Alignment explanation
Indices: 22677--22741 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
22667 CTGTAAGATA
* * *
22677 TTATTTTATTGCGTCTATCGACTA-TACAAAG
1 TTATTTTATTGAGTCCATCAACTATTA-AAAG
22708 TTATTTTATTGAGTCCATCAACTATTAAAAG
1 TTATTTTATTGAGTCCATCAACTATTAAAAG
22739 TTA
1 TTA
22742 CAAAATGATC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (31 bp):
TTATTTTATTGAGTCCATCAACTATTAAAAG
Found at i:23393 original size:20 final size:21
Alignment explanation
Indices: 23368--23419 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
23358 TTTTCCCAAT
*
23368 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
23388 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
23409 TCGCAATGCGA
1 TCGCAATGCGA
23420 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:23433 original size:20 final size:20
Alignment explanation
Indices: 23408--23542 Score: 121
Period size: 20 Copynumber: 6.7 Consensus size: 20
23398 AATTGGGAAA
23408 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
23428 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
23448 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
23469 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
23489 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
23509 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
23529 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
23543 TTTCAAAGCG
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.04
20 66 0.69
21 24 0.25
22 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:23452 original size:61 final size:61
Alignment explanation
Indices: 23405--23536 Score: 183
Period size: 61 Copynumber: 2.2 Consensus size: 61
23395 GCGAATTGGG
* * * * *
23405 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
23466 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
*
23527 ATAATCGCAA
1 AAAATCGCAA
23537 TGCGATTTTC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:23736 original size:21 final size:21
Alignment explanation
Indices: 23710--23750 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
23700 CACTCTCTCA
23710 CCCATCTCCGACGAAATCCGC
1 CCCATCTCCGACGAAATCCGC
23731 CCCATCTCCGACGAAATCCG
1 CCCATCTCCGACGAAATCCG
23751 TCTATCTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.46, G:0.15, T:0.15
Consensus pattern (21 bp):
CCCATCTCCGACGAAATCCGC
Found at i:24069 original size:20 final size:20
Alignment explanation
Indices: 24015--24073 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
24005 GCGATTCTTT
**
24015 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
24035 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
24055 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
24074 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:24265 original size:25 final size:24
Alignment explanation
Indices: 24211--24265 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
24201 TGTTTATTAT
* *
24211 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
24235 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
24261 TGTTT
1 TGTTT
24266 ATTATTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:25410 original size:18 final size:18
Alignment explanation
Indices: 25389--25433 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
25379 TCCACTTCGG
***
25389 GAGCCATCACCTTGCCCA
1 GAGCCATCACCTCAACCA
*
25407 GAGCTATCACCTCAACCA
1 GAGCCATCACCTCAACCA
25425 GAGCCATCA
1 GAGCCATCA
25434 TCTGATCGAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.40, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCAACCA
Found at i:25940 original size:20 final size:20
Alignment explanation
Indices: 25915--25960 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
25905 TAGTTTACTT
25915 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
25935 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
25955 TCGCAA
1 TCGCAA
25961 TGCGAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:25989 original size:14 final size:14
Alignment explanation
Indices: 25970--26024 Score: 65
Period size: 14 Copynumber: 3.6 Consensus size: 14
25960 ATGCGAAATT
25970 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
25984 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
26000 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
26016 AAAATCGCA
1 AAAATCGCA
26025 GCGCGAAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 18 0.51
16 8 0.23
18 9 0.26
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:25996 original size:33 final size:33
Alignment explanation
Indices: 25954--26044 Score: 139
Period size: 32 Copynumber: 2.8 Consensus size: 33
25944 GGAAATGGCT
25954 ATCGCAATGCGAAATTAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATTAAAATCGCAACGACAAA
*
25987 ATCGCAATGCGAAA-TGAAATCGCAACGACAAA
1 ATCGCAATGCGAAATTAAAATCGCAACGACAAA
** *
26019 ATCGCAGCGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATTAAAATCGCAA
26045 TGCGATTTGT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
32 29 0.56
33 23 0.44
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATTAAAATCGCAACGACAAA
Found at i:26080 original size:14 final size:14
Alignment explanation
Indices: 26061--26118 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
26051 TTGTGTTTCG
26061 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
26075 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
26091 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
26107 CGTTGCGATTTT
1 CGTTGCGATTTT
26119 AATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:26099 original size:32 final size:33
Alignment explanation
Indices: 26056--26134 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
26046 GCGATTTGTG
* *
26056 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTAA
26088 TTTCGCATTGCGATTTTGTCGTTGCGATTTTAA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTAA
26121 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
26135 AGCCATTTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 26 0.59
33 18 0.41
ACGTcount: A:0.13, C:0.18, G:0.23, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTAA
Found at i:26142 original size:19 final size:20
Alignment explanation
Indices: 26120--26162 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
26110 TGCGATTTTA
26120 ATTTC-GCATTGCGATAGCC
1 ATTTCTGCATTGCGATAGCC
* *
26139 ATTTCTGCGTTGCGATAGTC
1 ATTTCTGCATTGCGATAGCC
26159 ATTT
1 ATTT
26163 TCGGGTTGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (20 bp):
ATTTCTGCATTGCGATAGCC
Found at i:26271 original size:27 final size:26
Alignment explanation
Indices: 26209--26273 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
26199 AATTCTTCTT
*
26209 CTTCTGGAATGTTTATATATGTTGTC
1 CTTCTGGAATGTTTATATATGTTGTA
**
26235 CTT-TTAAATGTTTATATAAGTGTT-TA
1 CTTCTGGAATGTTTATAT-A-TGTTGTA
26261 CTTCTGGAATGTT
1 CTTCTGGAATGTT
26274 ATCTGAGCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
25 12 0.39
26 8 0.26
27 11 0.35
ACGTcount: A:0.23, C:0.09, G:0.17, T:0.51
Consensus pattern (26 bp):
CTTCTGGAATGTTTATATATGTTGTA
Found at i:28067 original size:14 final size:14
Alignment explanation
Indices: 28048--28083 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
28038 ATTGTTTAAT
28048 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
28062 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
28076 TGATTTGT
1 TGATTTGT
28084 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:28191 original size:20 final size:20
Alignment explanation
Indices: 28166--28204 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
28156 ATGTTGAAGG
28166 CAAAACAGACTATCGCAACA
1 CAAAACAGACTATCGCAACA
*
28186 CAAAACTGACTATCGCAAC
1 CAAAACAGACTATCGCAAC
28205 GAGAGAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.31, G:0.10, T:0.13
Consensus pattern (20 bp):
CAAAACAGACTATCGCAACA
Found at i:28236 original size:19 final size:19
Alignment explanation
Indices: 28210--28274 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
28200 GCAACGAGAG
28210 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
28229 AGTCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
28248 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
28262 AATCGCAATGCGA
1 AATCGCAATGCGA
28275 TTTTCATTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 11 0.27
15 1 0.02
16 2 0.05
17 2 0.05
19 25 0.61
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:28342 original size:20 final size:20
Alignment explanation
Indices: 28300--28388 Score: 155
Period size: 20 Copynumber: 4.5 Consensus size: 20
28290 GCGCTTTTGT
28300 CGTTGCGATAGCCA-TTTCG
1 CGTTGCGATAGCCATTTTCG
*
28319 CGTTGCGATAGCCATTTTCT
1 CGTTGCGATAGCCATTTTCG
28339 CGTTGCGA-AGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
28358 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
28378 CGTTGCGATAG
1 CGTTGCGATAG
28389 TCAAATGAAT
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
19 32 0.48
20 34 0.52
ACGTcount: A:0.16, C:0.25, G:0.26, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCG
Found at i:28357 original size:39 final size:39
Alignment explanation
Indices: 28294--28388 Score: 156
Period size: 39 Copynumber: 2.4 Consensus size: 39
28284 CGCATTGCGC
*
28294 TTTTGTCGTTGCGATAGCCATTTCGCGTTGCGATAGCCA
1 TTTTCTCGTTGCGATAGCCATTTCGCGTTGCGATAGCCA
28333 TTTTCTCGTTGCGA-AGCCATTTTCGCGTTGCGATAGCCA
1 TTTTCTCGTTGCGATAGCCA-TTTCGCGTTGCGATAGCCA
*
28372 TTTTCGCGTTGCGATAG
1 TTTTCTCGTTGCGATAG
28389 TCAAATGAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
38 5 0.10
39 45 0.87
40 2 0.04
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.37
Consensus pattern (39 bp):
TTTTCTCGTTGCGATAGCCATTTCGCGTTGCGATAGCCA
Found at i:28626 original size:20 final size:20
Alignment explanation
Indices: 28601--28651 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
28591 AAATGATTGC
28601 CTTTCGCAACGCGATTCTGA
1 CTTTCGCAACGCGATTCTGA
28621 CTTTCGCAACGCGATTCTGA
1 CTTTCGCAACGCGATTCTGA
28641 CTTTCGCAACG
1 CTTTCGCAACG
28652 AGATAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.29
Consensus pattern (20 bp):
CTTTCGCAACGCGATTCTGA
Found at i:29405 original size:24 final size:24
Alignment explanation
Indices: 29378--29431 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
29368 GTATTCGAAA
*
29378 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
29402 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
29426 TTTGAT
1 TTTGAT
29432 GATGTTTCAG
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:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:31933 original size:19 final size:19
Alignment explanation
Indices: 31909--32039 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
31899 GGAAATTACT
31909 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
31928 ACCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
31942 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
31961 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
31975 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
31994 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
32008 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
32027 ATCGCAACGCGAA
1 ATCGCAATGCGAA
32040 TTTAATTTCG
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 27 0.32
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 39 0.46
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:31951 original size:33 final size:33
Alignment explanation
Indices: 31909--32035 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
31899 GGAAATTACT
*
31909 ATCGCAATGCGAAATGAAAACCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
31942 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
31974 TTTCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
32008 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
32036 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:32016 original size:66 final size:66
Alignment explanation
Indices: 31910--32042 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
31900 GAAATTACTA
*
31910 TCGCAATGCGAAATGAAAACCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAACCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
31975 T
66 T
*
31976 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAACCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
32041 T
66 T
32042 T
1 T
32043 AATTTCGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAACCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:32067 original size:14 final size:14
Alignment explanation
Indices: 32050--32106 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
32040 TTTAATTTCG
32050 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
32064 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
32083 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
32097 TGTTGCGATT
1 CGTTGCGATT
32107 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:32086 original size:33 final size:33
Alignment explanation
Indices: 32035--32124 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
32025 AAATCGCAAC
* *
32035 GCGAATTTAATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
32068 GCGATTTTCATTTCGCGTTGCGATTCTCTTGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
32101 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
32125 AGTACTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.44
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Found at i:32088 original size:19 final size:19
Alignment explanation
Indices: 32064--32124 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
32054 GCGATTCTCT
32064 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
32083 CGTTGCGATTCTC--TT--
1 CGTTGCGATTTTCATTTCG
32098 -GTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
32116 CATTGCGAT
1 CGTTGCGAT
32125 AGTACTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 11 0.32
16 2 0.06
17 2 0.06
19 19 0.56
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:32249 original size:14 final size:14
Alignment explanation
Indices: 32230--32266 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
32220 CATCAATTAA
32230 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
32244 ACAAATCACCTTTT
1 ACAAATCAACTTTT
32258 ACAAATCAA
1 ACAAATCAA
32267 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:33662 original size:21 final size:21
Alignment explanation
Indices: 33638--33753 Score: 56
Period size: 21 Copynumber: 5.5 Consensus size: 21
33628 GTGGGAGGGA
33638 CCTCTTCAACGATGACAGTGG
1 CCTCTTCAACGATGACAGTGG
* * ** *
33659 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTCAACGATGACAGTGG
* * * *
33680 ACTC-TCGAGGAATGATAG-GG
1 CCTCTTCAACG-ATGACAGTGG
* *
33700 TCCTCTTCAACGATAAGAGTGG
1 -CCTCTTCAACGATGACAGTGG
* * **
33722 ACTCTTGAGGGATGACAGTGG
1 CCTCTTCAACGATGACAGTGG
*
33743 CCTCTTGAACG
1 CCTCTTCAACG
33754 GTGGGAGGAG
Statistics
Matches: 65, Mismatches: 26, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
20 5 0.08
21 54 0.83
22 6 0.09
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (21 bp):
CCTCTTCAACGATGACAGTGG
Found at i:33677 original size:42 final size:41
Alignment explanation
Indices: 33618--33790 Score: 145
Period size: 42 Copynumber: 4.1 Consensus size: 41
33608 GTGAATCGGG
* *
33618 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGA-CTCTTCAAGGATGACAGTGGC
* *
33660 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAG-GGTC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGG-C
* * ** * *
33702 CTCTTCAACGATAAGAGTGGACTCTTGAGGGATGACAGTGGC
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAGTGGC
* * *
33744 CTCTTGAACGGTGGGAGGAGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGG-GACTCTTCAAGG-ATGACAGTGGC
33786 CTCTT
1 CTCTT
33791 CAACAATAGG
Statistics
Matches: 102, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
41 11 0.11
42 82 0.80
43 9 0.09
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGACTCTTCAAGGATGACAGTGGC
Found at i:33759 original size:84 final size:84
Alignment explanation
Indices: 33648--33820 Score: 310
Period size: 84 Copynumber: 2.1 Consensus size: 84
33638 CCTCTTCAAC
* * *
33648 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGTCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGAGACTCTCGAGGAATGATAGGGGCCTCTTCAACAA
33713 TAAGAGTGGACTCTTGAGG
66 TAAGAGTGGACTCTTGAGG
33732 GATGACAGTGGCCTCTTGAACGGTGGGAGGAGACTCTCGAGGAATGATAGGGGCCTCTTCAACAA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGAGACTCTCGAGGAATGATAGGGGCCTCTTCAACAA
*
33797 TAGGAGTGGACTCTTGAGG
66 TAAGAGTGGACTCTTGAGG
33816 GATGA
1 GATGA
33821 TAGGCGAGTC
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.25, C:0.17, G:0.36, T:0.22
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACGGTGGGAGGAGACTCTCGAGGAATGATAGGGGCCTCTTCAACAA
TAAGAGTGGACTCTTGAGG
Found at i:33809 original size:42 final size:42
Alignment explanation
Indices: 33657--33824 Score: 176
Period size: 42 Copynumber: 4.0 Consensus size: 42
33647 CGATGACAGT
* * * *
33657 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGTGGACTCTCGAGGAATGATAGG
* * * * * *
33699 GTCCTCTTCAACGATAAGAGTGGACTCTTGAGGGATGACAGT
1 GGCCTCTTCAACGATAGGAGTGGACTCTCGAGGAATGATAGG
* * *
33741 GGCCTCTTGAACGGTGGGAG-GAGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGTG-GACTCTCGAGGAATGATAGG
* * *
33783 GGCCTCTTCAACAATAGGAGTGGACTCTTGAGGGATGATAGG
1 GGCCTCTTCAACGATAGGAGTGGACTCTCGAGGAATGATAGG
33825 CGAGTCGGGC
Statistics
Matches: 99, Mismatches: 25, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
41 1 0.01
42 97 0.98
43 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.22
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGTGGACTCTCGAGGAATGATAGG
Found at i:34156 original size:13 final size:13
Alignment explanation
Indices: 34138--34164 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34128 AATTTACTTC
34138 AACCAAAAGACAA
1 AACCAAAAGACAA
34151 AACCAAAAGACAA
1 AACCAAAAGACAA
34164 A
1 A
34165 TACTAACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.22, G:0.07, T:0.00
Consensus pattern (13 bp):
AACCAAAAGACAA
Found at i:34220 original size:91 final size:92
Alignment explanation
Indices: 34042--34226 Score: 295
Period size: 91 Copynumber: 2.0 Consensus size: 92
34032 ATTTCAAACT
34042 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATATACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATATA-AGTTTAGC
*
34107 AGAATTGGCAGCAACCGAATAAATTTAC
65 AGAATTGGCAACAACCGAATAAATTTAC
*
34135 TTCAACCAAAAGACAAAACCAAAAGACAAATACTAACTTCACAGTGTT-AATAA-AT-AGTTTAG
1 TTCAACCAAAAGACAAAA-C-AAAGACAAATACTAACTTCACAGTGTTAAAGAATATAAGTTTAG
*
34197 CAGTATTGGCAACAACCGAATAAATTTAC
64 CAGAATTGGCAACAACCGAATAAATTTAC
34226 T
1 T
34227 AAGCAATATA
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
91 35 0.40
93 20 0.23
94 5 0.06
95 27 0.31
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (92 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATATAAGTTTAGCA
GAATTGGCAACAACCGAATAAATTTAC
Found at i:35989 original size:33 final size:33
Alignment explanation
Indices: 35932--36030 Score: 162
Period size: 33 Copynumber: 3.0 Consensus size: 33
35922 ACGAGATAAT
35932 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
35966 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
35999 GAGAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
36031 CGAAATGAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 47 0.77
34 14 0.23
ACGTcount: A:0.39, C:0.23, G:0.26, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:36024 original size:19 final size:19
Alignment explanation
Indices: 35907--36052 Score: 114
Period size: 19 Copynumber: 8.1 Consensus size: 19
35897 TCTTTTGGTT
*
35907 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
35926 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
35946 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
35964 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
35980 GAAATGACTATCGCGA--C
1 GAAATGAAAATCGCAACGC
*
35997 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
36013 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
36032 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
36051 GA
1 GA
36053 TTTTGGTTTC
Statistics
Matches: 101, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
14 17 0.17
15 2 0.02
16 4 0.04
17 3 0.03
18 3 0.03
19 43 0.43
20 27 0.27
21 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:36695 original size:20 final size:20
Alignment explanation
Indices: 36670--36723 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
36660 GATTTTGTAT
36670 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
36690 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
36710 TATCGCATTGCGAT
1 TATCGCATTGCGAT
36724 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:36742 original size:61 final size:61
Alignment explanation
Indices: 36630--36744 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 61
36620 CGCTATGTAA
* * * ** *
36630 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCGCATTGCGATAGTAAGT
* *
36691 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAATATCGCATTGCGAT
36745 TTACTTATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
61 43 0.96
62 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCGCATTGCGATAGTAAGT
Found at i:41691 original size:44 final size:40
Alignment explanation
Indices: 41611--41728 Score: 128
Period size: 40 Copynumber: 2.8 Consensus size: 40
41601 CGAGGGTTTA
* * *
41611 TAGTGGCCATTCGGGGACATATCCAATTGTCCTTCGGAACG
1 TAGTGGTCATTC-GGGACATATCCAGTGGTCCTTCGGAACG
* *
41652 TATCCAGTGGTCATTCGGGACGTATCCAGTGGTCTTTCGGAACG
1 --T--AGTGGTCATTCGGGACATATCCAGTGGTCCTTCGGAACG
* *
41696 TAGTGGTCCTTCGGGACATATGCAGTGGTCCTT
1 TAGTGGTCATTCGGGACATATCCAGTGGTCCTT
41729 AGGGATGTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
40 28 0.44
42 1 0.02
43 1 0.02
44 24 0.38
45 10 0.16
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.30
Consensus pattern (40 bp):
TAGTGGTCATTCGGGACATATCCAGTGGTCCTTCGGAACG
Found at i:41712 original size:40 final size:40
Alignment explanation
Indices: 41611--41753 Score: 117
Period size: 40 Copynumber: 3.5 Consensus size: 40
41601 CGAGGGTTTA
* * *
41611 TAGTGG-CCATTCGGGGACATATCCAATTGTCCTTCGGAACG
1 TAGTGGTCC-TTC-GGGACATATCCAGTGGTCCTTAGGAACG
* * * *
41652 TATCCAGTGGTCATTCGGGACGTATCCAGTGGTCTTTCGGAACG
1 --T--AGTGGTCCTTCGGGACATATCCAGTGGTCCTTAGGAACG
* * *
41696 TAGTGGTCCTTCGGGACATATGCAGTGGTCCTTAGGGATG
1 TAGTGGTCCTTCGGGACATATCCAGTGGTCCTTAGGAACG
* *
41736 TAATGGTCCTTCAGGACA
1 TAGTGGTCCTTCGGGACA
41754 AATATTCACT
Statistics
Matches: 83, Mismatches: 14, Indels: 9
0.78 0.13 0.08
Matches are distributed among these distances:
40 48 0.58
42 1 0.01
43 1 0.01
44 24 0.29
45 8 0.10
46 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (40 bp):
TAGTGGTCCTTCGGGACATATCCAGTGGTCCTTAGGAACG
Found at i:41725 original size:22 final size:22
Alignment explanation
Indices: 41624--41733 Score: 93
Period size: 22 Copynumber: 5.2 Consensus size: 22
41614 TGGCCATTCG
* *
41624 GGGACATATCCAATTGTCCTTC
1 GGGACATATCCAGTGGTCCTTC
* * *
41646 GGAACGTATCCAGTGGTCATTC
1 GGGACATATCCAGTGGTCCTTC
* *
41668 GGGACGTATCCAGTGGTCTTTC
1 GGGACATATCCAGTGGTCCTTC
**
41690 -GGA-ACGT--AGTGGTCCTTC
1 GGGACATATCCAGTGGTCCTTC
* *
41708 GGGACATATGCAGTGGTCCTTA
1 GGGACATATCCAGTGGTCCTTC
41730 GGGA
1 GGGA
41734 TGTAATGGTC
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
18 10 0.14
19 3 0.04
20 3 0.04
21 3 0.04
22 51 0.73
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (22 bp):
GGGACATATCCAGTGGTCCTTC
Found at i:42627 original size:18 final size:16
Alignment explanation
Indices: 42596--42650 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
42586 TAATTGGATG
42596 AAATAAAT--ATAAAA
1 AAATAAATGAATAAAA
42610 AAATGAAATTGAATAAAATA
1 AAAT-AAA-TGAAT-AAA-A
*
42630 AAATAAATGAAGAAAA
1 AAATAAATGAATAAAA
42646 AAATA
1 AAATA
42651 TATATACAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 4 0.12
15 3 0.09
16 7 0.21
17 3 0.09
18 6 0.18
19 6 0.18
20 5 0.15
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (16 bp):
AAATAAATGAATAAAA
Found at i:42763 original size:9 final size:9
Alignment explanation
Indices: 42736--42786 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 9
42726 AACATAATGA
42736 AAAT-AAAT
1 AAATAAAAT
**
42744 AAATAGTAT
1 AAATAAAAT
42753 AAATAAAAT
1 AAATAAAAT
42762 AAA-AAAAT
1 AAATAAAAT
*
42770 AAAAAAAAT
1 AAATAAAAT
*
42779 ATATAAAA
1 AAATAAAA
42787 ATATATGTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
8 12 0.34
9 23 0.66
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (9 bp):
AAATAAAAT
Found at i:43032 original size:10 final size:10
Alignment explanation
Indices: 43018--43057 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
43008 AAATGAAAAA
43018 AAAATTATAAT
1 AAAA-TATAAT
*
43029 AAATAAATAAT
1 AAA-ATATAAT
43040 AAAATATAAT
1 AAAATATAAT
43050 AAAATATA
1 AAAATATA
43058 TATATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 14 0.54
11 11 0.42
12 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAATATAAT
Found at i:44463 original size:106 final size:106
Alignment explanation
Indices: 44278--44908 Score: 887
Period size: 106 Copynumber: 6.0 Consensus size: 106
44268 GCATTGTTCA
* * * * * *
44278 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTATTTGTTGATAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
44343 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* **
44384 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCCAAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
44449 CCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* * *
44490 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
44555 CCAGCCGTCCCTTCGTTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCCGTCCCTTCG-TTGTGAAGTTGAACTTGTGTTGTCTC
* ** *
44597 GAGTCTAATATCCTTCACTGTGAAGTTGAAATTGACTCTG-AA-T--GAAA-T-TTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * * *
44656 TCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTT
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* * * * * * *
44697 GGGTCCAAGATCCTTCGCTGAGAAGTTTAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * ** *
44762 CCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTACTGTCTT
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
44803 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
44868 CCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
44909 AGGTGGCGCG
Statistics
Matches: 464, Mismatches: 54, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
100 56 0.12
101 26 0.06
102 2 0.00
103 3 0.01
104 3 0.01
105 2 0.00
106 311 0.67
107 61 0.13
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
Found at i:44978 original size:43 final size:43
Alignment explanation
Indices: 44917--45037 Score: 206
Period size: 43 Copynumber: 2.8 Consensus size: 43
44907 TCAGGTGGCG
* * *
44917 CGATATCCTCTTTTGTGGAGTTGAAATCGTGGATGTGTGGGAA
1 CGATATCCTCTGTCGTGGAGTTGAAATCGTGGATGTATGGGAA
44960 CGATATCCTCTGTCGTGGAGTTGAAATCGTGGATGTATGGGAA
1 CGATATCCTCTGTCGTGGAGTTGAAATCGTGGATGTATGGGAA
*
45003 CGATATCCTCTGTCGTGGAGTTGAAATTGTGGATG
1 CGATATCCTCTGTCGTGGAGTTGAAATCGTGGATG
45038 ACCCCTTTGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 74 1.00
ACGTcount: A:0.21, C:0.13, G:0.32, T:0.33
Consensus pattern (43 bp):
CGATATCCTCTGTCGTGGAGTTGAAATCGTGGATGTATGGGAA
Found at i:45795 original size:16 final size:16
Alignment explanation
Indices: 45770--45808 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
45760 AATGTTTATG
**
45770 TTTC-AAGAGAAACTT
1 TTTCAAAGAGAAACGA
45785 TTTCAAAGAGAAACGA
1 TTTCAAAGAGAAACGA
45801 TTTCAAAG
1 TTTCAAAG
45809 GTTTTTTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (16 bp):
TTTCAAAGAGAAACGA
Found at i:46567 original size:24 final size:24
Alignment explanation
Indices: 46539--46599 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
46529 AATATCAAAA
46539 AAGAGTTTTGAAAGATGTTTAATC
1 AAGAGTTTTGAAAGATGTTTAATC
* *
46563 AAGAGTTTAGAAAGATGTTTAATT
1 AAGAGTTTTGAAAGATGTTTAATC
*
46587 AAAAGTTTTGAAA
1 AAGAGTTTTGAAA
46600 ATATTATCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.36
Consensus pattern (24 bp):
AAGAGTTTTGAAAGATGTTTAATC
Found at i:47457 original size:10 final size:10
Alignment explanation
Indices: 47438--47497 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
47428 TTCCTTTTGA
*
47438 TTTTTGCTTT
1 TTTTTTCTTT
47448 TTTTTTCTTT
1 TTTTTTCTTT
* *
47458 TTTGTTCTTG
1 TTTTTTCTTT
47468 TTTTTTCTTT
1 TTTTTTCTTT
47478 TGTTCTTT-TTT
1 T-TT-TTTCTTT
*
47489 TTTGTTCTT
1 TTTTTTCTT
47498 GATTGGATCT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
9 2 0.05
10 30 0.73
11 6 0.15
12 3 0.07
ACGTcount: A:0.00, C:0.10, G:0.08, T:0.82
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:47459 original size:18 final size:18
Alignment explanation
Indices: 47438--47491 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
47428 TTCCTTTTGA
47438 TTTTTGCTTTTTTTTTCT
1 TTTTTGCTTTTTTTTTCT
*
47456 TTTTTGTTCTTGTTTTTTCT
1 TTTTTG--CTTTTTTTTTCT
47476 TTTGTT-CTTTTTTTTT
1 TTT-TTGCTTTTTTTTT
47492 GTTCTTGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 15 0.48
20 14 0.45
21 2 0.06
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.83
Consensus pattern (18 bp):
TTTTTGCTTTTTTTTTCT
Found at i:47473 original size:31 final size:31
Alignment explanation
Indices: 47438--47498 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
47428 TTCCTTTTGA
*
47438 TTTTTGCTTTT-TT-TTTCTTTTTTGTTCTTG
1 TTTTTTCTTTTGTTCTTT-TTTTTTGTTCTTG
47468 TTTTTTCTTTTGTTCTTTTTTTTTGTTCTTG
1 TTTTTTCTTTTGTTCTTTTTTTTTGTTCTTG
47499 ATTGGATCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 10 0.36
31 15 0.54
32 3 0.11
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.80
Consensus pattern (31 bp):
TTTTTTCTTTTGTTCTTTTTTTTTGTTCTTG
Found at i:47495 original size:13 final size:13
Alignment explanation
Indices: 47444--47497 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
47434 TTGATTTTTG
*
47444 CTTTTTTTTTCTT
1 CTTTTTTTTTGTT
*
47457 -TTTTGTTCTTGTT
1 CTTTT-TTTTTGTT
*
47470 -TTTTCTTTTGTT
1 CTTTTTTTTTGTT
47482 CTTTTTTTTTGTT
1 CTTTTTTTTTGTT
47495 CTT
1 CTT
47498 GATTGGATCT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
12 10 0.29
13 24 0.71
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.81
Consensus pattern (13 bp):
CTTTTTTTTTGTT
Found at i:50914 original size:19 final size:19
Alignment explanation
Indices: 50881--50917 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
50871 TGCAGATGAT
50881 GGAAATAAAATAAAAGAGA
1 GGAAATAAAATAAAAGAGA
50900 GGAAA-AAAATGAAAAGAG
1 GGAAATAAAAT-AAAAGAG
50918 TTAGTAAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (19 bp):
GGAAATAAAATAAAAGAGA
Found at i:52123 original size:24 final size:26
Alignment explanation
Indices: 52043--52123 Score: 75
Period size: 24 Copynumber: 3.3 Consensus size: 26
52033 AATGAAACCA
*
52043 ATAATAATAAACATAAAATAATTG--G
1 ATAA-AATAAACATAAAATAAATGAAG
*
52068 ATAAAATAAATATAAAA-AAATGAA-
1 ATAAAATAAACATAAAATAAATGAAG
**
52092 ATTGAATAAA-ATAAAATAAATGAAG
1 ATAAAATAAACATAAAATAAATGAAG
52117 A-AAAATA
1 ATAAAATA
52124 TATATATACA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
23 10 0.22
24 31 0.67
25 5 0.11
ACGTcount: A:0.68, C:0.01, G:0.07, T:0.23
Consensus pattern (26 bp):
ATAAAATAAACATAAAATAAATGAAG
Found at i:52229 original size:13 final size:13
Alignment explanation
Indices: 52213--52268 Score: 62
Period size: 13 Copynumber: 4.4 Consensus size: 13
52203 CATAATGAAA
*
52213 ATAAATAAATAGT
1 ATAAATAAATAAT
52226 ATAAATAAAATAAT
1 ATAAAT-AAATAAT
*
52240 A-AAATAAAAAAT
1 ATAAATAAATAAT
*
52252 ATATATAAA-AAT
1 ATAAATAAATAAT
52264 ATAAA
1 ATAAA
52269 AATATAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 14 0.38
13 16 0.43
14 7 0.19
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (13 bp):
ATAAATAAATAAT
Found at i:52244 original size:26 final size:26
Alignment explanation
Indices: 52215--52282 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 26
52205 TAATGAAAAT
* *
52215 AAATAAATAGTATAAAT-AAAATAATA
1 AAATAAAAAATATAAATAAAAAT-ATA
*
52241 AAATAAAAAATATATATAAAAATATAA
1 AAATAAAAAATATAAATAAAAATAT-A
52268 AAATATAAAAATATA
1 AAATA-AAAAATATA
52283 TGTATAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 16 0.44
27 11 0.31
28 9 0.25
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.26
Consensus pattern (26 bp):
AAATAAAAAATATAAATAAAAATATA
Found at i:52283 original size:10 final size:9
Alignment explanation
Indices: 52225--52306 Score: 53
Period size: 9 Copynumber: 8.7 Consensus size: 9
52215 AAATAAATAG
52225 TATAAATAAA
1 TATAAA-AAA
52235 -ATAATAAAA
1 TATAA-AAAA
52244 TA-AAAAATA
1 TATAAAAA-A
52253 TATATAAAAA
1 TATA-AAAAA
52263 TAT-AAAAA
1 TATAAAAAA
52271 TATAAAAATA
1 TATAAAAA-A
** *
52281 TATGTATAA
1 TATAAAAAA
52290 TATAATAAAA
1 TATAA-AAAA
52300 TACTAAA
1 TA-TAAA
52307 TAGTAACAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
8 11 0.19
9 20 0.35
10 19 0.33
11 7 0.12
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (9 bp):
TATAAAAAA
Found at i:52283 original size:26 final size:27
Alignment explanation
Indices: 52199--52301 Score: 100
Period size: 28 Copynumber: 3.6 Consensus size: 27
52189 AAAGAAACTA
*
52199 AAAACATAATGAAAATAAATAAATAGTATAA
1 AAAA-ATAAT-AAAATAAA-AAATA-TATAT
52230 ATAAAATAATAAAATAAAAAATATATAT
1 A-AAAATAATAAAATAAAAAATATATAT
*
52258 AAAAAT-ATAAAAATATAAAAATATATGT
1 AAAAATAAT-AAAATA-AAAAATATATAT
*
52286 ATAATATAATAAAATA
1 A-AAAATAATAAAATA
52302 CTAAATAGTA
Statistics
Matches: 64, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
26 2 0.03
27 11 0.17
28 17 0.27
29 15 0.23
30 10 0.16
31 6 0.09
32 3 0.05
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (27 bp):
AAAAATAATAAAATAAAAAATATATAT
Found at i:52515 original size:22 final size:22
Alignment explanation
Indices: 52472--52519 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
52462 TAGATAAAAA
* *
52472 AATAATAATATATAATATATAT
1 AATAATAATAGAAAATATATAT
52494 AATAATAATAGGAAAATA-ATAT
1 AATAATAATA-GAAAATATATAT
52516 AATA
1 AATA
52520 TAACGTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
AATAATAATAGAAAATATATAT
Found at i:52566 original size:23 final size:23
Alignment explanation
Indices: 52532--52578 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
52522 ACGTAAAGAA
52532 AAATGAAAAAAATTATAA-TAAAT
1 AAATGAAAAAAA-TATAATTAAAT
52555 AAAT-AAATAAAATATAATTAAAT
1 AAATGAAA-AAAATATAATTAAAT
52578 A
1 A
52579 TAAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (23 bp):
AAATGAAAAAAATATAATTAAAT
Found at i:52589 original size:10 final size:10
Alignment explanation
Indices: 52549--52607 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
52539 AAAAATTATA
52549 ATAAAT-AA-
1 ATAAATAAAT
52557 ATAAATAAAAT
1 ATAAAT-AAAT
*
52568 ATAATTAAAT
1 ATAAATAAAT
*
52578 ATAAATATAT
1 ATAAATAAAT
*
52588 ATACATATACAT
1 ATA-A-ATAAAT
52600 ATAAATAA
1 ATAAATAA
52608 TAAGGGTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
8 6 0.15
10 20 0.49
11 7 0.17
12 8 0.20
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (10 bp):
ATAAATAAAT
Found at i:53036 original size:37 final size:37
Alignment explanation
Indices: 52995--53087 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
52985 ATGCTTGTGG
* ***
52995 ATCCTATCTTTAGGAGTTTAAATAATAGTTGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATAATAGCAAAACTCT
* ** *
53032 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATAATAGCAAAACTCT
53069 ATCCTATTTTTAGGAGTTT
1 ATCCTATTTTTAGGAGTTT
53088 GAATCCTAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATAATAGCAAAACTCT
Found at i:60228 original size:70 final size:69
Alignment explanation
Indices: 60095--60234 Score: 226
Period size: 70 Copynumber: 2.0 Consensus size: 69
60085 TCAATTATTG
*
60095 TGCCTAATAACCGAATATTACCTCGTTTTTTAGAAAATCATGATGTGATATTTGAAAAGGATGTT
1 TGCCTAATAACCGAATATTACCTCGTTTTTTAGAAAATCATGATATGATATTTGAAAAGGATGTT
60160 GACC
66 GACC
** * *
60164 TGCCTAATAACCGAATATTGTCTCGTTTTTTTAGAAAATCATGATATGATCTTTGAAAATGATGT
1 TGCCTAATAACCGAATATTACCTCG-TTTTTTAGAAAATCATGATATGATATTTGAAAAGGATGT
60229 TGACC
65 TGACC
60234 T
1 T
60235 ATTTCAGGAA
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
69 23 0.35
70 42 0.65
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.37
Consensus pattern (69 bp):
TGCCTAATAACCGAATATTACCTCGTTTTTTAGAAAATCATGATATGATATTTGAAAAGGATGTT
GACC
Found at i:60874 original size:27 final size:25
Alignment explanation
Indices: 60842--60916 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
60832 TTAAAAAATT
* *
60842 AACAAACATAATTAAAATAATAAAAA
1 AACAAA-ATAAATAAAACAATAAAAA
*
60868 CAACAAAA-AAATAAAACAGTAAAAA
1 -AACAAAATAAATAAAACAATAAAAA
60893 AACAAAATAAA-ATAAA-AATAAAAA
1 AACAAAATAAATA-AAACAATAAAAA
60917 TAAAATATGA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
24 15 0.36
25 20 0.48
26 1 0.02
27 6 0.14
ACGTcount: A:0.77, C:0.08, G:0.01, T:0.13
Consensus pattern (25 bp):
AACAAAATAAATAAAACAATAAAAA
Found at i:60885 original size:16 final size:15
Alignment explanation
Indices: 60864--60915 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
60854 TAAAATAATA
60864 AAAACAACAAAAAAAT
1 AAAACAA-AAAAAAAT
* *
60880 AAAACAGTAAAAAAAC
1 AAAACA-AAAAAAAAT
*
60896 AAAATAAAATAAAAAT
1 AAAACAAAA-AAAAAT
60912 AAAA
1 AAAA
60916 ATAAAATATG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 2 0.07
16 27 0.93
ACGTcount: A:0.81, C:0.08, G:0.02, T:0.10
Consensus pattern (15 bp):
AAAACAAAAAAAAAT
Found at i:65056 original size:21 final size:20
Alignment explanation
Indices: 65016--65058 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
65006 AATTTAATAT
*
65016 TATTTCAATATATTTTTAAA
1 TATTTCAATATATTTATAAA
65036 TATTTCAA-ATATTCATATAAA
1 TATTTCAATATATT--TATAAA
65057 TA
1 TA
65059 AATCATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 8 0.40
21 7 0.35
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTTCAATATATTTATAAA
Found at i:65933 original size:22 final size:22
Alignment explanation
Indices: 65907--65958 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
65897 TGTGTTAGGT
65907 CAACAATCCATTAAAGGTCTAA
1 CAACAATCCATTAAAGGTCTAA
65929 CAACAATCCATTAAAGGTCTAA
1 CAACAATCCATTAAAGGTCTAA
*
65951 CGACAATC
1 CAACAATC
65959 AACCCTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.44, C:0.25, G:0.10, T:0.21
Consensus pattern (22 bp):
CAACAATCCATTAAAGGTCTAA
Found at i:66064 original size:29 final size:28
Alignment explanation
Indices: 66015--66070 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
66005 AATATTATGT
*
66015 TTTATAAAATTACTAAAAAACACCAAAAA
1 TTTATAAAATTACCAAAAAAC-CCAAAAA
*
66044 TTTATAAAATTACCAACAAACCCAAAA
1 TTTATAAAATTACCAAAAAACCCAAAA
66071 TCCCTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.59, C:0.18, G:0.00, T:0.23
Consensus pattern (28 bp):
TTTATAAAATTACCAAAAAACCCAAAAA
Found at i:66442 original size:16 final size:16
Alignment explanation
Indices: 66421--66451 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
66411 TTATAATTTC
66421 AAAAAATAATTTTTTA
1 AAAAAATAATTTTTTA
66437 AAAAAATAATTTTTT
1 AAAAAATAATTTTTT
66452 TTTAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAAAATAATTTTTTA
Found at i:66953 original size:5 final size:5
Alignment explanation
Indices: 66943--66968 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
66933 TATTATTATT
66943 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
66969 TTCTAAGTCA
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:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:67046 original size:36 final size:31
Alignment explanation
Indices: 66988--67070 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 31
66978 ATATATTCGG
66988 GTCGGGTCGGGT-CGGGTGAAACCTTAAT-TTC
1 GTCGGGTCGGGTCCGGGTGAAACCTT--TCTTC
67019 GTCGGGTCGGGTCACGGGTGAAAAAACCTTTCTTC
1 GTCGGGTCGGGTC-CGGGTG---AAACCTTTCTTC
67054 -TCGGGTCGGGT-CGGGTG
1 GTCGGGTCGGGTCCGGGTG
67071 GCCCAAAAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
31 12 0.26
32 6 0.13
33 6 0.13
34 12 0.26
35 3 0.07
36 7 0.15
ACGTcount: A:0.14, C:0.20, G:0.39, T:0.27
Consensus pattern (31 bp):
GTCGGGTCGGGTCCGGGTGAAACCTTTCTTC
Found at i:68068 original size:54 final size:55
Alignment explanation
Indices: 67977--68168 Score: 194
Period size: 54 Copynumber: 3.5 Consensus size: 55
67967 TATCTGCAGA
* ** * * * *
67977 CCTTGGAAGTGAATTGTTCGCAATTTCT-CCAGGTGATGGAATATCTACACCTTC
1 CCTTGGAAGTGGATCATTTGCAACTTCTCCCAGATGATGGAATATCTGCACCTTC
* ** * * *
68031 CCTTGGAAGTGGATCGTTTGCTGCTTC-CCCAGATGATGGAATATTTGCATCTTA
1 CCTTGGAAGTGGATCATTTGCAACTTCTCCCAGATGATGGAATATCTGCACCTTC
*
68085 CCTTGGAAGTGGATCATTTGCAACTTCTCCC-GATGATGGAATATCTGCACATTC
1 CCTTGGAAGTGGATCATTTGCAACTTCTCCCAGATGATGGAATATCTGCACCTTC
* * *
68139 CTTTGGAAGTGAAT-ACTTTGCAGCTTCTCC
1 CCTTGGAAGTGGATCA-TTTGCAACTTCTCC
68169 AAAAGATGGG
Statistics
Matches: 114, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 110 0.96
55 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.34
Consensus pattern (55 bp):
CCTTGGAAGTGGATCATTTGCAACTTCTCCCAGATGATGGAATATCTGCACCTTC
Found at i:68177 original size:108 final size:108
Alignment explanation
Indices: 67976--68177 Score: 253
Period size: 108 Copynumber: 1.9 Consensus size: 108
67966 ATATCTGCAG
** * * *
67976 ACCTTGGAAGTGAATTGTTCGCAATTTCTCCAGGTGATGGAATATCTACACCTTCCCTTGGAAGT
1 ACCTTGGAAGTGAATCATTCGCAACTTCTCCAGATGATGGAATATCTACACATTCCCTTGGAAGT
* * * *
68041 GGATCGTTTGCTGCTTCCCCAGATGATGGAATATTTGCATCTT
66 GAATCGTTTGCAGCTTCCCCAAAAGATGGAATATTTGCATCTT
* * * * *
68084 ACCTTGGAAGTGGATCATTTGCAACTTCTCCCGATGATGGAATATCTGCACATTCCTTTGGAAGT
1 ACCTTGGAAGTGAATCATTCGCAACTTCTCCAGATGATGGAATATCTACACATTCCCTTGGAAGT
*
68149 GAATAC-TTTGCAGCTTCTCCAAAAGATGG
66 GAAT-CGTTTGCAGCTTCCCCAAAAGATGG
68178 GCCCAATTTC
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
108 77 0.99
109 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (108 bp):
ACCTTGGAAGTGAATCATTCGCAACTTCTCCAGATGATGGAATATCTACACATTCCCTTGGAAGT
GAATCGTTTGCAGCTTCCCCAAAAGATGGAATATTTGCATCTT
Found at i:70772 original size:54 final size:54
Alignment explanation
Indices: 70703--70928 Score: 308
Period size: 54 Copynumber: 4.2 Consensus size: 54
70693 GGATCAATAC
* *
70703 CTTCTCCAGATAATGAAATATCTGCATCTTCCCATGGAAGTGGATCGTTTGCCG
1 CTTCTTCAGATAATGAAATATCTGCATCTTCCCATGGAAGTGGATCGTTTGCAG
70757 CTTCTTCAGATAATGAAATATCTGCATCTTCCCATGGAAGTGGATCGTTTGCAG
1 CTTCTTCAGATAATGAAATATCTGCATCTTCCCATGGAAGTGGATCGTTTGCAG
* * * * *
70811 CTTCTTCCGGTAATGGAATATTTGCATCTTCCCTTGGAAGTGGATCGTTTGCAG
1 CTTCTTCAGATAATGAAATATCTGCATCTTCCCATGGAAGTGGATCGTTTGCAG
* * * * * * * *
70865 ATTCTTCAGATGATGGAATATTTGCATGTGCCCTTGGAAGTGGATAGTTTGCAG
1 CTTCTTCAGATAATGAAATATCTGCATCTTCCCATGGAAGTGGATCGTTTGCAG
*
70919 CTTCTCCAGA
1 CTTCTTCAGA
70929 AGATGGGCGC
Statistics
Matches: 156, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 156 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (54 bp):
CTTCTTCAGATAATGAAATATCTGCATCTTCCCATGGAAGTGGATCGTTTGCAG
Found at i:70809 original size:27 final size:26
Alignment explanation
Indices: 70779--70863 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 26
70769 ATGAAATATC
70779 TGCATCTTCCCATGGAAGTGGATCGTT
1 TGCATCTTCCC-TGGAAGTGGATCGTT
* *
70806 TGCAGCTTCTTCC-GGTAA-TGGAAT-ATT
1 TGCATCTTC--CCTGG-AAGTGG-ATCGTT
70833 TGCATCTTCCCTTGGAAGTGGATCGTT
1 TGCATCTTCCC-TGGAAGTGGATCGTT
70860 TGCA
1 TGCA
70864 GATTCTTCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
25 2 0.04
26 4 0.09
27 34 0.74
28 4 0.09
29 2 0.04
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (26 bp):
TGCATCTTCCCTGGAAGTGGATCGTT
Found at i:72915 original size:30 final size:32
Alignment explanation
Indices: 72880--72947 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 32
72870 ATAGTTATTA
*
72880 TATTTTATATT-AAT-ATATTTATGTAAATAT
1 TATTTTATATTAAATAATATTTATATAAATAT
* *
72910 TATTTTTTATTAAAATAATATTTATATAATTAT
1 TATTTTATATT-AAATAATATTTATATAAATAT
72943 TATTT
1 TATTT
72948 ATTTAGAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 10 0.31
32 3 0.09
33 19 0.59
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (32 bp):
TATTTTATATTAAATAATATTTATATAAATAT
Found at i:73113 original size:17 final size:17
Alignment explanation
Indices: 73091--73141 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
73081 AAATGTTAAT
73091 ATTTAAATTTATTTTTA
1 ATTTAAATTTATTTTTA
* * *
73108 ATTTAAAGTTATTATGA
1 ATTTAAATTTATTTTTA
* *
73125 ATTTATATTAATTTTTA
1 ATTTAAATTTATTTTTA
73142 TTTTTTATAA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (17 bp):
ATTTAAATTTATTTTTA
Found at i:74744 original size:21 final size:21
Alignment explanation
Indices: 74718--74790 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
74708 TATGCCATCT
*
74718 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
74739 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
74760 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
74781 CCGCAGGGTT
1 CCGCAGGGTT
74791 TTATACCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:75341 original size:34 final size:34
Alignment explanation
Indices: 75301--75407 Score: 133
Period size: 40 Copynumber: 3.0 Consensus size: 34
75291 GATAAATGTT
*
75301 TTTAAAATACAAATTATATTATTCGAAATTTAAA
1 TTTAAAATAAAAATTATATTATTCGAAATTTAAA
75335 TTTAAAATAAAAATAAAAATAATATTATTCGAAATTTAAA
1 TTTAAAATAAAAAT-----T-ATATTATTCGAAATTTAAA
* *
75375 TTTAAAATATAAATTATAGTATTCGAAATTTAA
1 TTTAAAATAAAAATTATATTATTCGAAATTTAA
75408 CATTAAATTT
Statistics
Matches: 64, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
34 30 0.47
35 1 0.02
39 1 0.02
40 32 0.50
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (34 bp):
TTTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:75348 original size:40 final size:40
Alignment explanation
Indices: 75304--75388 Score: 143
Period size: 40 Copynumber: 2.1 Consensus size: 40
75294 AAATGTTTTT
* *
75304 AAAATACAAATTATATTATTCGAAATTTAAATTTAAAATA
1 AAAATAAAAATAATATTATTCGAAATTTAAATTTAAAATA
75344 AAAATAAAAATAATATTATTCGAAATTTAAATTTAAAATA
1 AAAATAAAAATAATATTATTCGAAATTTAAATTTAAAATA
*
75384 TAAAT
1 AAAAT
75389 TATAGTATTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (40 bp):
AAAATAAAAATAATATTATTCGAAATTTAAATTTAAAATA
Found at i:75414 original size:34 final size:33
Alignment explanation
Indices: 75332--75414 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 33
75322 TTCGAAATTT
* *
75332 AAATTTAAAATAAAAATAAAAATAATATTATTCG
1 AAATTT-AAATTAAAATAAAAATAATAGTATTCG
* *
75366 AAATTTAAATTTAAAATATAAATTATAGTATTCG
1 AAATTTAAA-TTAAAATAAAAATAATAGTATTCG
75400 AAATTTAACATTAAA
1 AAATTTAA-ATTAAA
75415 TTTCAACTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 3 0.07
34 39 0.91
35 1 0.02
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (33 bp):
AAATTTAAATTAAAATAAAAATAATAGTATTCG
Found at i:76043 original size:128 final size:128
Alignment explanation
Indices: 75810--76416 Score: 1054
Period size: 128 Copynumber: 4.7 Consensus size: 128
75800 ACAATCCATC
* * *
75810 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGACAATGATAACATATTTTTTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
75875 GGAAGGCGCGCCCCCGGGAACTCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACACGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
*
75938 TAGTATCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
76003 GGAAGGCGC-CCCCTCGGGAAAACGCCTTCAAGTCCCCTGAGAAATGATAGGTACTGATATGAA
66 GGAAGGCGCGCCCC-CGGGAACACGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
*
76066 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
76131 GGAAGGCGCGCCCCCGGGAACACGCCTTCAAGTCCCCTGAGAAATAATAGGTAGTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACACGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
* ** *
76194 TAGTATCATCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
76259 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACACGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
76322 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
76387 GGAAGGCGTGCCCCCGGGAACGCGCCTTCA
66 GGAAGGCGCGCCCCCGGGAACACGCCTTCA
76417 TGTGAATAGT
Statistics
Matches: 453, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
127 4 0.01
128 445 0.98
129 4 0.01
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (128 bp):
TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
GGAAGGCGCGCCCCCGGGAACACGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
Found at i:76510 original size:8 final size:8
Alignment explanation
Indices: 76497--76537 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
76487 TCACAAGCTT
76497 TCAAATTC
1 TCAAATTC
76505 TCAAATTC
1 TCAAATTC
* *
76513 CCAAACTC
1 TCAAATTC
76521 T-AAATTC
1 TCAAATTC
76528 TCAAATTC
1 TCAAATTC
76536 TC
1 TC
76538 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:82482 original size:17 final size:17
Alignment explanation
Indices: 82460--82493 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
82450 TATAGTTGGG
82460 GACCACTTTTTTTCTAT
1 GACCACTTTTTTTCTAT
82477 GACCACTTTTTTTCTAT
1 GACCACTTTTTTTCTAT
82494 CATATCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.06, T:0.53
Consensus pattern (17 bp):
GACCACTTTTTTTCTAT
Found at i:85526 original size:23 final size:26
Alignment explanation
Indices: 85468--85535 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 26
85458 CTCGACCCGA
* *
85468 AATAATATAAAATTATTAATTTTATG
1 AATAATATAAAAATATTAATTTAATG
* *
85494 TATAAAATAAAAAT-TTAA-TTAAT-
1 AATAATATAAAAATATTAATTTAATG
85517 AATAATATAAAAAGTATTA
1 AATAATATAAAAA-TATTA
85536 TTGCAATCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
23 11 0.32
24 5 0.15
25 7 0.21
26 11 0.32
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (26 bp):
AATAATATAAAAATATTAATTTAATG
Done.