Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002463.1 Hibiscus syriacus cultivar Beakdansim tig00005039_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: 171968
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Found at i:755 original size:21 final size:20
Alignment explanation
Indices: 730--778 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
720 TGTATGAACA
*
730 TATCGATAC-CTATGGAGGAGG
1 TATCGATACTATATGGA-G-GG
751 TATCG-TACTATATGGAGGG
1 TATCGATACTATATGGAGGG
770 TATCGATAC
1 TATCGATAC
779 AGGGTGAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 7 0.28
20 7 0.28
21 11 0.44
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (20 bp):
TATCGATACTATATGGAGGG
Found at i:848 original size:22 final size:21
Alignment explanation
Indices: 802--858 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 21
792 AAGCTAATAT
*
802 AGGTATCAATA-CCTAGATAG
1 AGGTATCAGTACCCTAGATAG
*
822 -GGTATCAGTACCCTAGTTTAG
1 AGGTATCAGTACCCTAG-ATAG
*
843 AGGTATCGGTACCCTA
1 AGGTATCAGTACCCTA
859 AGGGTTGTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 9 0.29
20 5 0.16
21 3 0.10
22 14 0.45
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (21 bp):
AGGTATCAGTACCCTAGATAG
Found at i:1452 original size:21 final size:21
Alignment explanation
Indices: 1415--1466 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
1405 GTTATAATTG
* *
1415 AATGA-ATTAATTGTATGAGA
1 AATGATATGAATTATATGAGA
1435 AATGATATGAATTATATGAGA
1 AATGATATGAATTATATGAGA
1456 ACATGTATATG
1 A-ATG-ATATG
1467 TGAATATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 5 0.19
21 14 0.52
22 3 0.11
23 5 0.19
ACGTcount: A:0.44, C:0.02, G:0.19, T:0.35
Consensus pattern (21 bp):
AATGATATGAATTATATGAGA
Found at i:5717 original size:21 final size:23
Alignment explanation
Indices: 5688--5731 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
5678 TGAATGAAGT
*
5688 AATTGTATGAGAA-ATG-ATATG
1 AATTATATGAGAACATGTATATG
5709 AATTATATGAGAACATGTATATG
1 AATTATATGAGAACATGTATATG
5732 TGAATATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
22 3 0.15
23 5 0.25
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.34
Consensus pattern (23 bp):
AATTATATGAGAACATGTATATG
Found at i:6009 original size:18 final size:18
Alignment explanation
Indices: 5986--6020 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5976 ATTTGTTCTA
* *
5986 AGTGGTCCTTTGGGACAT
1 AGTGGTCATTCGGGACAT
6004 AGTGGTCATTCGGGACA
1 AGTGGTCATTCGGGACA
6021 AATTCTACGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.29
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:10568 original size:25 final size:25
Alignment explanation
Indices: 10534--10585 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
10524 ATATCATAAC
*
10534 ATAATGTATGTAAAATAAATACATA
1 ATAATATATGTAAAATAAATACATA
*
10559 ATAATATATGTAAAATAAATACGTA
1 ATAATATATGTAAAATAAATACATA
10584 AT
1 AT
10586 GCATAAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.33
Consensus pattern (25 bp):
ATAATATATGTAAAATAAATACATA
Found at i:12450 original size:15 final size:17
Alignment explanation
Indices: 12419--12450 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
12409 ATGTATTTTT
12419 ATCTATCTTGCAATTTA
1 ATCTATCTTGCAATTTA
12436 ATCTA-CTTG-AATTTA
1 ATCTATCTTGCAATTTA
12451 TTATATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (17 bp):
ATCTATCTTGCAATTTA
Found at i:12697 original size:29 final size:29
Alignment explanation
Indices: 12655--12746 Score: 148
Period size: 29 Copynumber: 3.2 Consensus size: 29
12645 ATCTCCAAAG
* * *
12655 TGGAGATGAATGCCACTCCAGCGATGCGT
1 TGGAGGTGAATGCCACTCCAACGATGCGC
*
12684 TGGAGGTGAATGCCACTCCAACGATACGC
1 TGGAGGTGAATGCCACTCCAACGATGCGC
12713 TGGAGGTGAATGCCACTCCAACGATGCGC
1 TGGAGGTGAATGCCACTCCAACGATGCGC
12742 TGGAG
1 TGGAG
12747 ATGGACTAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.25, C:0.25, G:0.32, T:0.18
Consensus pattern (29 bp):
TGGAGGTGAATGCCACTCCAACGATGCGC
Found at i:20665 original size:3 final size:3
Alignment explanation
Indices: 20657--20763 Score: 164
Period size: 3 Copynumber: 35.7 Consensus size: 3
20647 TTTTTATCCA
*
20657 TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20704 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
*
20749 TAT TAC TAT ATAT TA
1 TAT TAT TAT -TAT TA
20764 AATATATTAC
Statistics
Matches: 96, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
2 4 0.04
3 86 0.90
4 6 0.06
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:22971 original size:19 final size:18
Alignment explanation
Indices: 22931--22973 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
22921 TCTTTTCAAA
22931 ATTTTTATATATACTTATT
1 ATTTTTATATATA-TTATT
22950 ATTTTTATAGTAT-TTATAT
1 ATTTTTATA-TATATTAT-T
22969 ATTTT
1 ATTTT
22974 CTTATTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.18
19 15 0.68
20 3 0.14
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
ATTTTTATATATATTATT
Found at i:24438 original size:15 final size:14
Alignment explanation
Indices: 24413--24454 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
24403 TTTTCATGCA
24413 TACAT-TTGCATTT
1 TACATCTTGCATTT
24426 TACATCCTTGCATTT
1 TACAT-CTTGCATTT
* *
24441 TTCATTTTGCATTT
1 TACATCTTGCATTT
24455 ATACTGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 5 0.20
14 8 0.32
15 12 0.48
ACGTcount: A:0.19, C:0.19, G:0.07, T:0.55
Consensus pattern (14 bp):
TACATCTTGCATTT
Found at i:30090 original size:83 final size:83
Alignment explanation
Indices: 29989--30253 Score: 451
Period size: 83 Copynumber: 3.2 Consensus size: 83
29979 AATGGAACAA
29989 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
30054 AATCATTGAATTTGGAAG
66 AATCATTGAATTTGGAAG
*
30072 ATGAATGTGCTCATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
*
30137 AATCATTGAATTTAGAAG
66 AATCATTGAATTTGGAAG
* * * *
30155 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGGACAGAAC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAAAAC
30219 CAATCATTGAATTTGGAAG
65 CAATCATTGAATTTGGAAG
*
30238 ATGAATTTGCTCATAG
1 ATGAATGTGCTCATAG
30254 TAGAAATAAG
Statistics
Matches: 172, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
82 4 0.02
83 168 0.98
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (83 bp):
ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
AATCATTGAATTTGGAAG
Found at i:32836 original size:22 final size:22
Alignment explanation
Indices: 32805--32859 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
32795 ATCTACACTC
**
32805 TTCAAAGATGGTAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
32827 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
32849 TTCAAAGATGA
1 TTCAAAGATGA
32860 AAGCTTTATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:33468 original size:113 final size:111
Alignment explanation
Indices: 33199--35409 Score: 3148
Period size: 113 Copynumber: 19.7 Consensus size: 111
33189 TTCCAGGTCG
* *
33199 AGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
** *
33264 AACCTTTTGCTCAAATCCATCATTCGATGGATTGA-CATTTCCATAGA
66 AACCTTTTGCTTGAATCCATCATT-GATGGATT-ATCATTTCCAGAGA
* * *
33311 AGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* *
33376 AACCTTTTGCTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAA
66 AACCTTTTGCTTGAATCCATCA-TTGATGGATTATCATTTCCAGAG-A
* *
33424 AGTTCACAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
** * *
33489 AACCTTTTGCTCAAATCCATCATTCGATGAATTGA-CATTTCCATAGA
66 AACCTTTTGCTTGAATCCATCATT-GATGGATT-ATCATTTCCAGAGA
* * *
33536 AGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* *
33601 AACCTTTTGCTTGAATTCATCACTTGATGGATTATCATTGCCAGAGA
66 AACCTTTTGCTTGAATCCATCA-TTGATGGATTATCATTTCCAGAGA
*
33648 AGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 A-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
** * *
33713 CAACCTTTTGCTCAAATCCATCATTCGATGAATTGA-CATTTCCATAGA
65 CAACCTTTTGCTTGAATCCATCATT-GATGGATT-ATCATTTCCAGAGA
* * *
33761 AGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* *
33826 AACCTTTTGCTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAA
66 AACCTTTTGCTTGAATCCATCA-TTGATGGATTATCATTTCCAGAG-A
33874 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
** *
33939 AACCTTTTGCTCAAATCCATCATTCGATGGATTGA-CATTTCCATAGA
66 AACCTTTTGCTTGAATCCATCATT-GATGGATT-ATCATTTCCAGAGA
*
33986 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
** *
34051 AACCTTTTGCTCAAATCCATCATTCGATGGATTGA-CATTTCCATAGA
66 AACCTTTTGCTTGAATCCATCATT-GATGGATT-ATCATTTCCAGAGA
* * *
34098 AGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* *
34163 AACCTTTTGCTTGAATTCATCACTTGATGGATTATCATTGCCAGAGA
66 AACCTTTTGCTTGAATCCATCA-TTGATGGATTATCATTTCCAGAGA
34210 AGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 A-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
** * *
34275 CAACCTTTTGCTCAAATCCATCATTCGATGAATTGA-CATTTCCATAGA
65 CAACCTTTTGCTTGAATCCATCATT-GATGGATT-ATCATTTCCAGAGA
* * *
34323 AGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* *
34388 AACCTTTTGCTTGAATTCATCACTTGATGGATTATCATTGCCAGAGA
66 AACCTTTTGCTTGAATCCATCA-TTGATGGATTATCATTTCCAGAGA
34435 AGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 A-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
** * *
34500 CAACCTTTTGCTCAAATCCATCATTCGATGAATTGA-CATTTCCATAGA
65 CAACCTTTTGCTTGAATCCATCATT-GATGGATT-ATCATTTCCAGAGA
* * *
34548 AGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* *
34613 AACCTTTTGCTTGAATTCATCACTTGATGGATTATCATTGCCAGAGA
66 AACCTTTTGCTTGAATCCATCA-TTGATGGATTATCATTTCCAGAGA
*
34660 AGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 A-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
** * *
34725 CAACCTTTTGCTCAAATCCATCATTCGATGAATTGA-CATTTCCATAGA
65 CAACCTTTTGCTTGAATCCATCATT-GATGGATT-ATCATTTCCAGAGA
* * *
34773 AGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* *
34838 AACCTTTTGCTTGAATTCATCACTTGATGGATTATCATTGCCAGAGA
66 AACCTTTTGCTTGAATCCATCA-TTGATGGATTATCATTTCCAGAGA
*
34885 AGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 A-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
** * *
34950 CAACCTTTTGCTCAAATACATCATTCGATGGATTGA-CATTTCCAGTTCG-
65 CAACCTTTTGCTTGAATCCATCATT-GATGGATT-ATCATTTCCAG--AGA
34999 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * *
35064 AACCTTTTACCTGAATTCATCACTTGATGGATTATCTTTTCCAGAGAA
66 AACCTTTTGCTTGAATCCATCA-TTGATGGATTATCATTTCCAGAG-A
35112 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * * *
35177 AACCTTTTACCTGAATTCATCACTTGATGGATCATCTTTTCCAGAAAA
66 AACCTTTTGCTTGAATCCATCA-TTGATGGATTATCATTTCCAG-AGA
35225 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * *
35290 AACCTTTTACCTGAATCCATCAATTGATGGATTATCTTTTCCGGAGA
66 AACCTTTTGCTTGAATCCATC-ATTGATGGATTATCATTTCCAGAGA
* * * *
35337 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAAAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
35402 AA-CTTTTG
66 AACCTTTTG
35410 GCATAATTCT
Statistics
Matches: 1908, Mismatches: 148, Indels: 87
0.89 0.07 0.04
Matches are distributed among these distances:
111 13 0.01
112 877 0.46
113 1005 0.53
114 12 0.01
115 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (111 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTGCTTGAATCCATCATTGATGGATTATCATTTCCAGAGA
Found at i:33597 original size:225 final size:224
Alignment explanation
Indices: 33162--35409 Score: 3228
Period size: 225 Copynumber: 10.0 Consensus size: 224
33152 TTAGCAAAGT
* ** *
33162 TCAAATCCATCATTCAATGGATCAACA-TTCCAG-GTCGAGTTCATAATGAGAAGAACTCATATG
1 TCAAATCCATCATTCGATGGATTGACATTTCCAGAG--AAGTTCATAATGAGAAGAACTCATATG
* *
33225 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCA-TTC
64 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCGAATCCATCACTT-
* *
33289 GATGGATTGA-CATTTCCATAGAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAG
128 GATGGATT-ATCATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* *
33353 TTCATAATGAGAAGAACTTGTTTAACCTTTTGC
192 TTCATAATGAGAAGAATTTGTTCAACCTTTTGC
** * * *
33386 TTGAATTCATCACTT-GATGGATT-ATCATTGCCAGAGAAAGTTCACAATGAGAAGAACTCATAT
1 TCAAATCCATCA-TTCGATGGATTGA-CATTTCCAGAG-AAGTTCATAATGAGAAGAACTCATAT
*
33449 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCA-TT
63 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCGAATCCATCACTT
* * *
33513 CGATGAATTGA-CATTTCCATAGAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAA
128 -GATGGATT-ATCATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* *
33577 GTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
191 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
** * * *
33611 TTGAATTCATCACTT-GATGGATT-ATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
1 TCAAATCCATCA-TTCGATGGATTGA-CATTTCCAGAGAA-GTTCATAATGAGAAGAACTCATAT
* *
33674 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCA-TT
63 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCGAATCCATCACTT
* * *
33738 CGATGAATTGA-CATTTCCATAGAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAA
128 -GATGGATT-ATCATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* *
33802 GTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
191 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
** * * *
33836 TTGAATTCATCACTT-GATGGATT-ATCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
1 TCAAATCCATCA-TTCGATGGATTGA-CATTTCCAGAG-AAGTTCATAATGAGAAGAACTCATAT
*
33899 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCA-TT
63 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCGAATCCATCACTT
*
33963 CGATGGATTGA-CATTTCCATAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
128 -GATGGATT-ATCATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
*
34027 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
191 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
34061 TCAAATCCATCATTCGATGGATTGACATTTCCATAGAAGTTCATAATGAGAAGAACTCATATGAA
1 TCAAATCCATCATTCGATGGATTGACATTTCCAGAGAAGTTCATAATGAGAAGAACTCATATGAA
* * * *
34126 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCACTTGAT
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCGAATCCATCACTTGAT
*
34191 GGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
131 GGATTATCATTTCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
34256 ATAATGAGAAGAATTTGTTCAACCTTTTGC
195 ATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
34286 TCAAATCCATCATTCGATGAATTGACATTTCCATAGAAGTTCATAATGAGAAGAACTCATATGAA
1 TCAAATCCATCATTCGATGGATTGACATTTCCAGAGAAGTTCATAATGAGAAGAACTCATATGAA
* * * *
34351 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCACTTGAT
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCGAATCCATCACTTGAT
*
34416 GGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
131 GGATTATCATTTCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
34481 ATAATGAGAAGAATTTGTTCAACCTTTTGC
195 ATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
34511 TCAAATCCATCATTCGATGAATTGACATTTCCATAGAAGTTCATAATGAGAAGAACTCATATGAA
1 TCAAATCCATCATTCGATGGATTGACATTTCCAGAGAAGTTCATAATGAGAAGAACTCATATGAA
* * * *
34576 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCACTTGAT
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCGAATCCATCACTTGAT
* *
34641 GGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTC
131 GGATTATCATTTCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
34706 ATAATGAGAAGAATTTGTTCAACCTTTTGC
195 ATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
34736 TCAAATCCATCATTCGATGAATTGACATTTCCATAGAAGTTCATAATGAGAAGAACTCATATGAA
1 TCAAATCCATCATTCGATGGATTGACATTTCCAGAGAAGTTCATAATGAGAAGAACTCATATGAA
* * * *
34801 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCACTTGAT
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCGAATCCATCACTTGAT
* *
34866 GGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTC
131 GGATTATCATTTCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
34931 ATAATGAGAAGAATTTGTTCAACCTTTTGC
195 ATAATGAGAAGAATTTGTTCAACCTTTTGC
* * *
34961 TCAAATACATCATTCGATGGATTGACATTTCCAGTTCG-AGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATTCGATGGATTGACATTTCCAG--AGAAGTTCATAATGAGAAGAACTCATATG
* *
35025 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC-CTGAATTCATCACTT
64 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC-GAATCCATCACTT
*
35089 GATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
128 GATGGATTATCATTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
*
35154 TTCATAATGAGAAGAATTTGTTCAACCTTTTAC
192 TTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * * * *
35187 -CTGAATTCATCACTT-GATGGA-TCATCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATC
1 TC-AAATCCATCA-TTCGATGGATTGA-CATTTCCAG-AGAAGTTCATAATGAGAAGAACTCATA
* *
35249 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC-CTGAATCCATCAA
62 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC-GAATCCATCAC
* * *
35313 TTGATGGATTATCTTTTCCGGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAA
126 TTGATGGATTATCATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* * *
35378 GTTCATAATAAAAAGAACTTGTTCAA-CTTTTG
191 GTTCATAATGAGAAGAATTTGTTCAACCTTTTG
35410 GCATAATTCT
Statistics
Matches: 1941, Mismatches: 64, Indels: 38
0.95 0.03 0.02
Matches are distributed among these distances:
223 2 0.00
224 127 0.07
225 1498 0.77
226 309 0.16
227 5 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (224 bp):
TCAAATCCATCATTCGATGGATTGACATTTCCAGAGAAGTTCATAATGAGAAGAACTCATATGAA
GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCGAATCCATCACTTGAT
GGATTATCATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
TAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:35732 original size:3 final size:3
Alignment explanation
Indices: 35724--35818 Score: 163
Period size: 3 Copynumber: 31.7 Consensus size: 3
35714 TTTTTATCCA
* *
35724 TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
35772 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
35819 AATATATTAA
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 86 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:35858 original size:20 final size:19
Alignment explanation
Indices: 35817--35861 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
35807 CTATTATTAT
* *
35817 TAAATATATTAAATACATA
1 TAAATATATTAAAAACAAA
*
35836 TAAATATTATTAAAAATAAA
1 TAAATA-TATTAAAAACAAA
35856 TAAATA
1 TAAATA
35862 ATAAAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAATATATTAAAAACAAA
Found at i:37968 original size:28 final size:28
Alignment explanation
Indices: 37928--37994 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
37918 AATATCACAG
*
37928 AGACAAGATTCAGAGTTGTCGGAGATAT
1 AGACGAGATTCAGAGTTGTCGGAGATAT
37956 AGACGAGATTCAGAGTTGTCGGAGATAT
1 AGACGAGATTCAGAGTTGTCGGAGATAT
*
37984 GGACGAGATTC
1 AGACGAGATTC
37995 GGTGCCAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.33, C:0.12, G:0.31, T:0.24
Consensus pattern (28 bp):
AGACGAGATTCAGAGTTGTCGGAGATAT
Found at i:42503 original size:20 final size:20
Alignment explanation
Indices: 42480--42546 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
42470 GTTGAGGCAG
42480 TTCGAATATAAATTAATTTA
1 TTCGAATATAAATTAATTTA
* * * ***
42500 TTCGAAT-CAAGTCAAGGCA
1 TTCGAATATAAATTAATTTA
42519 TGTCGAATATAAATTAATTTA
1 T-TCGAATATAAATTAATTTA
*
42540 TTTGAAT
1 TTCGAAT
42547 CAAGTCGAGG
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
19 7 0.22
20 18 0.56
21 7 0.22
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (20 bp):
TTCGAATATAAATTAATTTA
Found at i:42638 original size:40 final size:40
Alignment explanation
Indices: 42447--42649 Score: 266
Period size: 40 Copynumber: 5.1 Consensus size: 40
42437 CTTGATTCAA
* * * *
42447 ATAAATTAATTTATTAGAATCAAGTTGAGGCAGTTCGAAT
1 ATAAATTAATTTATTATAATCAAGTCGAGGCGGGTCGAAT
** * **
42487 ATAAATTAATTTATTCGAATCAAGTCAAGGCATGTCGAAT
1 ATAAATTAATTTATTATAATCAAGTCGAGGCGGGTCGAAT
42527 ATAAATTAATTTATT-TGAATCAAGTCGAGGCGGGTCGAAT
1 ATAAATTAATTTATTAT-AATCAAGTCGAGGCGGGTCGAAT
** *
42567 ATAAATTAATTTATCCTAATCAAGTCGAGGCGGGTTGAAT
1 ATAAATTAATTTATTATAATCAAGTCGAGGCGGGTCGAAT
42607 ATAAATTAATTTATTATAATCAAGTCGAGGCGAGG-CGAAT
1 ATAAATTAATTTATTATAATCAAGTCGAGGCG-GGTCGAAT
42647 ATA
1 ATA
42650 TTTAAAAAAA
Statistics
Matches: 146, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
40 143 0.98
41 3 0.02
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (40 bp):
ATAAATTAATTTATTATAATCAAGTCGAGGCGGGTCGAAT
Found at i:44349 original size:17 final size:17
Alignment explanation
Indices: 44316--44349 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44306 ATTTTTTTTC
**
44316 AAAAACATAATTTTAAT
1 AAAAACATAATAGTAAT
44333 AAAAACATAATAGTAAT
1 AAAAACATAATAGTAAT
44350 TTATAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (17 bp):
AAAAACATAATAGTAAT
Found at i:45140 original size:36 final size:33
Alignment explanation
Indices: 45063--45151 Score: 108
Period size: 36 Copynumber: 2.6 Consensus size: 33
45053 TTTAGTACAC
*
45063 TTTTTGTTTCATTTTAGTA-TCCATTATTTATT
1 TTTTTGTTTCATTTTAGTACCCCATTATTTATT
* * *
45095 TTTTCGTTTCATTTTAGTACCCCATTGTTAACTTTT
1 TTTTTGTTTCATTTTAGTACCCCATTATT---TATT
45131 TTTTTGTTTCATTTTAGTACC
1 TTTTTGTTTCATTTTAGTACC
45152 TAAAATTTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
32 18 0.38
33 7 0.15
36 23 0.48
ACGTcount: A:0.17, C:0.15, G:0.08, T:0.61
Consensus pattern (33 bp):
TTTTTGTTTCATTTTAGTACCCCATTATTTATT
Found at i:45459 original size:21 final size:23
Alignment explanation
Indices: 45416--45460 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
45406 ATATTGTATA
* *
45416 AAAATATTATTAAAATTTCAATT
1 AAAATATTATAAAAATATCAATT
45439 AAAATATT-TAAAAATAT-AATT
1 AAAATATTATAAAAATATCAATT
45460 A
1 A
45461 TTTTTGAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 7 0.35
23 8 0.40
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAATATTATAAAAATATCAATT
Found at i:45915 original size:31 final size:30
Alignment explanation
Indices: 45847--45915 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
45837 AACATAAATT
*
45847 TGGTCACTTTCGTTTCATTTTAATAAGATT
1 TGGTCACTTTCGTTTCATTTTAATAAGATG
** *
45877 TTATCACTTTCGTTTCGTTTTAATTAAGATG
1 TGGTCACTTTCGTTTCATTTTAA-TAAGATG
45908 TGGTCACT
1 TGGTCACT
45916 AAAGATTAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 20 0.62
31 12 0.38
ACGTcount: A:0.22, C:0.14, G:0.14, T:0.49
Consensus pattern (30 bp):
TGGTCACTTTCGTTTCATTTTAATAAGATG
Found at i:46446 original size:3 final size:3
Alignment explanation
Indices: 46438--46467 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
46428 AACAATACCC
46438 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
46468 TTGGATAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:47594 original size:20 final size:20
Alignment explanation
Indices: 47555--47595 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
47545 GTATCGTTTC
*
47555 TTTTTCCTATACTTACTCTT
1 TTTTTCCTATACTAACTCTT
* *
47575 TTTTTCCTGTACTAATTCTT
1 TTTTTCCTATACTAACTCTT
47595 T
1 T
47596 CATTGACTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.22, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTTTCCTATACTAACTCTT
Found at i:49897 original size:68 final size:68
Alignment explanation
Indices: 49785--50177 Score: 538
Period size: 68 Copynumber: 5.8 Consensus size: 68
49775 AAAAGATCAA
* *
49785 GAGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGTATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
49850 TTT
66 TTT
* * *
49853 GAAGCCTAATTGTATATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGTATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
49918 TTT
66 TTT
* * * * * * * *
49921 GAGGCCTAATTGTGCATATGAAAGAAAGGTGGCATTTGTTCCAGATAGATAAAAGACTAAGTGTC
1 GAGGCCTAACTGTGTATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
49986 TTT
66 TTT
*
49989 TAGGCCTAACTGTGTATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGTATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
50054 TTT
66 TTT
* * * * *
50057 GAGGCCTTACTAT-TCATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAGGA-TTAGTTG
1 GAGGCCTAACTGTGT-ATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAG-TG
50120 TCTTT
64 TCTTT
* ** * *
50125 GAGGCCTAACTGTGCATATGACAGAAATATGTCAATTATGCTAGTTAGATGAA
1 GAGGCCTAACTGTGTATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
50178 TGGTTGGTTA
Statistics
Matches: 287, Mismatches: 35, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
67 4 0.01
68 283 0.99
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (68 bp):
GAGGCCTAACTGTGTATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
TTT
Found at i:50310 original size:81 final size:81
Alignment explanation
Indices: 50183--50368 Score: 275
Period size: 81 Copynumber: 2.3 Consensus size: 81
50173 ATGAATGGTT
* * **
50183 GGTTAAGTACCTTTGAGTAAAAGAATAATAGCCTAACTGTGCAATTGGAAGAAAGGTGTCAATTA
1 GGTTAAGTACCATTGAGTAAAAGAATAATAGCCTAACTGTGAAATTGGAAGAAAGGTACCAATTA
*
50248 TGTCAGTTAGATGAAC
66 TGCCAGTTAGATGAAC
* * * *
50264 GGTTAAGTACCGTTGAGTAAAAGAATAATGGTCTAACTGTGAAATTGGCAGAAAGGTACCAATTA
1 GGTTAAGTACCATTGAGTAAAAGAATAATAGCCTAACTGTGAAATTGGAAGAAAGGTACCAATTA
50329 TGCCAGTTAGATGAAC
66 TGCCAGTTAGATGAAC
50345 GGTT-AGATACCATTGAGTAAAAGA
1 GGTTAAG-TACCATTGAGTAAAAGA
50369 CGAAAGGTTA
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 2 0.02
81 93 0.98
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (81 bp):
GGTTAAGTACCATTGAGTAAAAGAATAATAGCCTAACTGTGAAATTGGAAGAAAGGTACCAATTA
TGCCAGTTAGATGAAC
Found at i:54417 original size:21 final size:21
Alignment explanation
Indices: 54393--54433 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
54383 AGATGAGTAA
54393 TACCGGTACTGATTCAATCAG
1 TACCGGTACTGATTCAATCAG
54414 TACCGGTACTGATTCAATCA
1 TACCGGTACTGATTCAATCA
54434 ATATCGATAC
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:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (21 bp):
TACCGGTACTGATTCAATCAG
Found at i:54983 original size:59 final size:58
Alignment explanation
Indices: 54881--55047 Score: 226
Period size: 59 Copynumber: 2.9 Consensus size: 58
54871 ATTACCAAAT
* * * * *
54881 GGCACTTTGTGTGCAAAATGTTAAGAAATTCATAGTAGGTGTATGAATTTCCGTATAG
1 GGCACTTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAG
* * *
54939 GGCACTTTGTGTGCTAACATAATAAGAAATTCATACTAAGTGTATGAATTTCTATATTG
1 GGCACTTTGTGTGCTAA-ATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAG
* * *
54998 GGCACCTTGTGTGCTAAAGGATAAGAAATTTATACTAAGTGTATGAATTT
1 GGCACTTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTT
55048 TCTTATAGTA
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
58 46 0.48
59 50 0.52
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (58 bp):
GGCACTTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAG
Found at i:55050 original size:59 final size:57
Alignment explanation
Indices: 54881--55055 Score: 217
Period size: 58 Copynumber: 3.0 Consensus size: 57
54871 ATTACCAAAT
* * * * *
54881 GGCACTTTGTGTGCAAAATGTTAAGAAATTCATAGTAGGTGTATGAATTTCCGTATAG
1 GGCACTTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTTC-TATAG
*
54939 GGCACTTTGTGTGCTAACATAATAAGAAATTCATACTAAGTGTATGAA-TTTCTATATTG
1 GGCACTTTGTGTGCTAA-ATGATAAGAAATTCATACTAAGTGTATGAATTTTCTATA--G
* * *
54998 GGCACCTTGTGTGCTAAAGGATAAGAAATTTATACTAAGTGTATGAATTTTCTTATAG
1 GGCACTTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTTC-TATAG
55056 TAAATACAAC
Statistics
Matches: 102, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
57 4 0.04
58 47 0.46
59 47 0.46
60 4 0.04
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.36
Consensus pattern (57 bp):
GGCACTTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTTCTATAG
Found at i:60362 original size:68 final size:68
Alignment explanation
Indices: 60250--60575 Score: 526
Period size: 68 Copynumber: 4.8 Consensus size: 68
60240 AAAAGATCAA
60250 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
60315 TTT
66 TTT
* * * * *
60318 CAGGCCTAACCGTGCATATGACAGAAAGGTGTCATTTGTACCAGTTAGATGAAAAACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
60383 TTT
66 TTT
* * * *
60386 GAGGCCTAATTGTGCATATGACAGAAATGTGTCATTTGTACCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
60451 TTTT
66 -TTT
* *
60455 GGGGCCTAACTGTGCATATGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
60520 TTT
66 TTT
* *
60523 TAGGCCTAACTGTGCATATGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
60576 CAGTTAAGTA
Statistics
Matches: 237, Mismatches: 20, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
68 175 0.74
69 62 0.26
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (68 bp):
GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
TTT
Found at i:60450 original size:32 final size:32
Alignment explanation
Indices: 60346--60455 Score: 75
Period size: 32 Copynumber: 3.3 Consensus size: 32
60336 TGACAGAAAG
*
60346 GTGTCATTTGTACCAGTTAGATGAAAAACTAA
1 GTGTCATTTGTACCAGTTAGATGAAAGACTAA
* * *
60378 GTGTC-TTTG-AGGCCTAATT-G-TGCATATGACAGAAA
1 GTGTCATTTGTA--CC-AGTTAGATG-A-AAGAC--TAA
60413 TGTGTCATTTGTACCAGTTAGATGAAAGACTAA
1 -GTGTCATTTGTACCAGTTAGATGAAAGACTAA
*
60446 GTGTCTTTTG
1 GTGTCATTTG
60456 GGGCCTAACT
Statistics
Matches: 58, Mismatches: 8, Indels: 24
0.64 0.09 0.27
Matches are distributed among these distances:
30 1 0.02
31 6 0.10
32 18 0.31
33 8 0.14
35 9 0.16
36 9 0.16
37 6 0.10
38 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.35
Consensus pattern (32 bp):
GTGTCATTTGTACCAGTTAGATGAAAGACTAA
Found at i:60510 original size:31 final size:31
Alignment explanation
Indices: 60472--60575 Score: 84
Period size: 32 Copynumber: 3.2 Consensus size: 31
60462 AACTGTGCAT
60472 ATGAAAGAAAGGTGTCATTTATGCCAGTTAG
1 ATGAAAGAAAGGTGTCATTTATGCCAGTTAG
* * * *
60503 ATGAAAGACTAA-GTGTCTTTTAGGCCTAACTGTGCAT
1 ATGAAAGA--AAGGTGTCATTTATGCC--A--GT-TAG
* *
60540 ATGACAGAAAGGTGTCAATTATGCCAGTTAG
1 ATGAAAGAAAGGTGTCATTTATGCCAGTTAG
60571 ATGAA
1 ATGAA
60576 CAGTTAAGTA
Statistics
Matches: 54, Mismatches: 11, Indels: 16
0.67 0.14 0.20
Matches are distributed among these distances:
31 13 0.24
32 14 0.26
33 2 0.04
34 2 0.04
35 2 0.04
36 13 0.24
37 8 0.15
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (31 bp):
ATGAAAGAAAGGTGTCATTTATGCCAGTTAG
Found at i:60584 original size:137 final size:136
Alignment explanation
Indices: 60250--60575 Score: 526
Period size: 137 Copynumber: 2.4 Consensus size: 136
60240 AAAAGATCAA
60250 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
* *
60315 TTTCAGGCCTAACCGTGCATATGACAGAAAGGTGTCATTTGTACCAGTTAGATGAAAAACTAAGT
66 TTTCAGGCCTAACCGTGCATATGAAAGAAAGGTGTCATTTATACCAGTTAGATGAAAAACTAAGT
60380 GTCTTT
131 GTCTTT
* * * *
60386 GAGGCCTAATTGTGCATATGACAGAAATGTGTCATTTGTACCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
** * * *
60451 TTTTGGGGCCTAACTGTGCATATGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAG
66 -TTTCAGGCCTAACCGTGCATATGAAAGAAAGGTGTCATTTATACCAGTTAGATGAAAAACTAAG
60516 TGTCTTT
130 TGTCTTT
* *
60523 TAGGCCTAACTGTGCATATGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
60576 CAGTTAAGTA
Statistics
Matches: 172, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
136 61 0.35
137 111 0.65
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (136 bp):
GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
TTTCAGGCCTAACCGTGCATATGAAAGAAAGGTGTCATTTATACCAGTTAGATGAAAAACTAAGT
GTCTTT
Found at i:60663 original size:81 final size:81
Alignment explanation
Indices: 60527--60734 Score: 289
Period size: 81 Copynumber: 2.6 Consensus size: 81
60517 GTCTTTTAGG
* *
60527 CCTAACTGTGC-ATATGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAGTACCGTT
1 CCTAACTGTGCAAT-TGGCAGAAAGATGTCAATTATGCCAGTTAGATGAACAGTTAAGTACCGTT
60591 GAGTAAAAGAATAATAGA
65 GAGTAAAAGAATAAT-GA
* *
60609 -CTAACTGTGCAATTGGCAGAAAGATGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCGTTG
1 CCTAACTGTGCAATTGGCAGAAAGATGTCAATTATGCCAGTTAGATGAACAGTTAAGTACCGTTG
60673 AGTAAAAGAATAATGA
66 AGTAAAAGAATAATGA
* * *
60689 CCTAACTCTGAAATTGGTAG-AA-ATGTACCAATTATGCCAGTTAGAT
1 CCTAACTGTGCAATTGGCAGAAAGATGT--CAATTATGCCAGTTAGAT
60735 ACCATTAAGT
Statistics
Matches: 114, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
79 4 0.04
80 4 0.04
81 104 0.91
82 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (81 bp):
CCTAACTGTGCAATTGGCAGAAAGATGTCAATTATGCCAGTTAGATGAACAGTTAAGTACCGTTG
AGTAAAAGAATAATGA
Found at i:64389 original size:17 final size:17
Alignment explanation
Indices: 64367--64399 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
64357 ATTAGGGCAT
64367 CGATACCTAGTGGGTAC
1 CGATACCTAGTGGGTAC
64384 CGATACCTAGTGGGTA
1 CGATACCTAGTGGGTA
64400 TCAATACCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.24
Consensus pattern (17 bp):
CGATACCTAGTGGGTAC
Found at i:64406 original size:17 final size:17
Alignment explanation
Indices: 64369--64408 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
64359 TAGGGCATCG
*
64369 ATACCTAGTGGGTACCG
1 ATACCTAGTGGGTACCA
*
64386 ATACCTAGTGGGTATCA
1 ATACCTAGTGGGTACCA
64403 ATACCT
1 ATACCT
64409 CAGTTAAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.28
Consensus pattern (17 bp):
ATACCTAGTGGGTACCA
Found at i:64844 original size:55 final size:55
Alignment explanation
Indices: 64702--64846 Score: 191
Period size: 55 Copynumber: 2.6 Consensus size: 55
64692 TTTGTATGAG
* * *
64702 TGTGTATCGGTACACTGAGGAGTGTATCAATAACCTCAAAACATCAAATGCCATT
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACCCACAAAACATCAAATGCCATT
* * * * * * **
64757 TATGTATCGGTACACTGAGGAGTATATAGATACCCACAAAATATCGAGTGTTATT
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACCCACAAAACATCAAATGCCATT
64812 TGTGTATCGGTACACTGAGGAGTGTATCGATACCC
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACCC
64847 CCAAGTATGA
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 76 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (55 bp):
TGTGTATCGGTACACTGAGGAGTGTATCGATACCCACAAAACATCAAATGCCATT
Found at i:66853 original size:17 final size:17
Alignment explanation
Indices: 66831--66872 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
66821 ATTAGGGCAT
66831 CGATACCTAGTGGGTAC
1 CGATACCTAGTGGGTAC
*
66848 CGATACCTAGTGGGTAT
1 CGATACCTAGTGGGTAC
66865 CGATACCT
1 CGATACCT
66873 TAGTTAAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (17 bp):
CGATACCTAGTGGGTAC
Found at i:67303 original size:55 final size:55
Alignment explanation
Indices: 67165--67309 Score: 191
Period size: 55 Copynumber: 2.6 Consensus size: 55
67155 TTTGTATGAG
* * *
67165 TGTGTATCGGTACACTGAGGAGTGTATCAATAACCTCAAAACATCAAATGCCATT
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACCCACAAAACATCAAATGCCATT
* * * * * * **
67220 TATGTATCGGTATACTGAGGAGTATATCGATACCCACAAAATATCGAGTGTTATT
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACCCACAAAACATCAAATGCCATT
67275 TGTGTATCGGTACACTGAGGAGTGTATCGATACCC
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACCC
67310 CCAAGTATGA
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 76 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (55 bp):
TGTGTATCGGTACACTGAGGAGTGTATCGATACCCACAAAACATCAAATGCCATT
Found at i:67919 original size:22 final size:21
Alignment explanation
Indices: 67881--67945 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
67871 TTGATACAAC
*
67881 CCTATGTGGCACCTCGGTGCAA
1 CCTATGTGGCA-TTCGGTGCAA
67903 CCTATGTGGTCATTCGG-GACAA
1 CCTATGTGG-CATTCGGTG-CAA
*
67925 -TTATGTGGCAATTCGGTGCAA
1 CCTATGTGGC-ATTCGGTGCAA
67946 ATTACGAGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
20 1 0.03
21 17 0.46
22 17 0.46
23 2 0.05
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.28
Consensus pattern (21 bp):
CCTATGTGGCATTCGGTGCAA
Found at i:74095 original size:55 final size:55
Alignment explanation
Indices: 73981--74179 Score: 256
Period size: 55 Copynumber: 3.6 Consensus size: 55
73971 TTTGTATGAG
* * * * *
73981 TGTGTATCGGTACATTGAGGAGTGTATCGA-ACCCTCAAAACATTGAATGCCATA
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACCCTCAAAACATCGAGTGCTATT
* ** *
74035 TGTGTATCGGTACACTGAGGAGTATATTTATACCCTCAAAACATCGAGTGTTATT
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACCCTCAAAACATCGAGTGCTATT
* * *
74090 TGTGTATTGGTACACTGAGGAGTGTATCGATGCCCTCAAAACATCGAGTACTATT
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACCCTCAAAACATCGAGTGCTATT
* * *
74145 TATGTTTCGGTACATTGAGGAGTGTATCGATACCC
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACCC
74180 CCAAGTATGA
Statistics
Matches: 123, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
54 26 0.21
55 97 0.79
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (55 bp):
TGTGTATCGGTACACTGAGGAGTGTATCGATACCCTCAAAACATCGAGTGCTATT
Found at i:74715 original size:21 final size:21
Alignment explanation
Indices: 74689--74737 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
74679 GTCGATGGTC
* *
74689 TATGTGGTCC-CTCGGGAAAAT
1 TATGTGGTCCTC-CAGGAAAAA
74710 TATGTGGTCCTCCAGGAAAAA
1 TATGTGGTCCTCCAGGAAAAA
74731 TATGTGG
1 TATGTGG
74738 CACTTCGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (21 bp):
TATGTGGTCCTCCAGGAAAAA
Found at i:78234 original size:18 final size:18
Alignment explanation
Indices: 78211--78249 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
78201 GAACAACGCC
78211 CATTGCAATGGCACCATA
1 CATTGCAATGGCACCATA
*
78229 CATTGCAATGTCACCATA
1 CATTGCAATGGCACCATA
78247 CAT
1 CAT
78250 AATGGCTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (18 bp):
CATTGCAATGGCACCATA
Found at i:82853 original size:10 final size:10
Alignment explanation
Indices: 82826--82859 Score: 54
Period size: 9 Copynumber: 3.6 Consensus size: 10
82816 GTGTTTGTTA
82826 TGATTATATG
1 TGATTATATG
82836 TG-TTATATG
1 TGATTATATG
82845 TGATTATATG
1 TGATTATATG
82855 T-ATTA
1 TGATTA
82860 CATTAATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 13 0.57
10 10 0.43
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (10 bp):
TGATTATATG
Found at i:83037 original size:2 final size:2
Alignment explanation
Indices: 83030--83061 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
83020 TGAATCATTG
83030 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
83062 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83862 original size:24 final size:24
Alignment explanation
Indices: 83813--83865 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
83803 TAAATGAACC
*
83813 ATGTG-TTTATATGTACATGTGAT
1 ATGTGATTTATATGTACATGAGAT
*
83836 ATGTGATTTATATG-ACAATGAGCT
1 ATGTGATTTATATGTAC-ATGAGAT
83860 ATGTGA
1 ATGTGA
83866 AAGAACTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.42
Consensus pattern (24 bp):
ATGTGATTTATATGTACATGAGAT
Found at i:86594 original size:10 final size:10
Alignment explanation
Indices: 86567--86600 Score: 54
Period size: 9 Copynumber: 3.6 Consensus size: 10
86557 GTGTTTGTTA
86567 TGATTATATG
1 TGATTATATG
86577 TG-TTATATG
1 TGATTATATG
86586 TGATTATATG
1 TGATTATATG
86596 T-ATTA
1 TGATTA
86601 CATTAATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 13 0.57
10 10 0.43
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (10 bp):
TGATTATATG
Found at i:87576 original size:24 final size:24
Alignment explanation
Indices: 87527--87579 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
87517 TAAGTGAACC
*
87527 ATGTG-TTTATATGTACATGTGAT
1 ATGTGATTTATATGTACATGAGAT
*
87550 ATGTGATTTATATG-ACAATGAGCT
1 ATGTGATTTATATGTAC-ATGAGAT
87574 ATGTGA
1 ATGTGA
87580 AAGAACTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.42
Consensus pattern (24 bp):
ATGTGATTTATATGTACATGAGAT
Found at i:87860 original size:23 final size:23
Alignment explanation
Indices: 87830--87913 Score: 100
Period size: 23 Copynumber: 3.7 Consensus size: 23
87820 TATAGTACTT
87830 CGGTGCATTTCTACGCGGCACTA
1 CGGTGCATTTCTACGCGGCACTA
*
87853 CGGTGCATTTCTACGC-ACTACTA
1 CGGTGCATTTCTACGCGGC-ACTA
* *
87876 CGGTGCAATTT-TACGTGGCACTT
1 CGGTGC-ATTTCTACGCGGCACTA
*
87899 CGGTGCATTTATACG
1 CGGTGCATTTCTACG
87914 AGCTGTGGTG
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
22 5 0.09
23 43 0.81
24 5 0.09
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (23 bp):
CGGTGCATTTCTACGCGGCACTA
Found at i:87880 original size:46 final size:46
Alignment explanation
Indices: 87825--87913 Score: 126
Period size: 46 Copynumber: 1.9 Consensus size: 46
87815 CCTTATATAG
* *
87825 TACTTCGGTGC-ATTTCTACGCGGCACTACGGTGCATTTCTACGCAC
1 TACTACGGTGCAATTT-TACGCGGCACTACGGTGCATTTATACGCAC
* *
87871 TACTACGGTGCAATTTTACGTGGCACTTCGGTGCATTTATACG
1 TACTACGGTGCAATTTTACGCGGCACTACGGTGCATTTATACG
87914 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 34 0.89
47 4 0.11
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (46 bp):
TACTACGGTGCAATTTTACGCGGCACTACGGTGCATTTATACGCAC
Found at i:88414 original size:16 final size:16
Alignment explanation
Indices: 88393--88425 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
88383 TTTATGCCTC
88393 ACTAAGTCATCGACTT
1 ACTAAGTCATCGACTT
88409 ACTAAGTCATCGACTT
1 ACTAAGTCATCGACTT
88425 A
1 A
88426 ACGTGTGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.30
Consensus pattern (16 bp):
ACTAAGTCATCGACTT
Found at i:89995 original size:15 final size:15
Alignment explanation
Indices: 89965--89995 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
89955 TATATCATTG
89965 AAAATAATTTTAAAA
1 AAAATAATTTTAAAA
89980 AAAATCAATTTTAAAA
1 AAAAT-AATTTTAAAA
89996 TTTTATTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAATAATTTTAAAA
Found at i:93309 original size:17 final size:18
Alignment explanation
Indices: 93276--93309 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93266 CCGCTGCTAG
93276 TGAACCGGTCAGAACCGC
1 TGAACCGGTCAGAACCGC
*
93294 TGAACCGTTC-GAACCG
1 TGAACCGGTCAGAACCG
93310 GACCGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.32, G:0.26, T:0.15
Consensus pattern (18 bp):
TGAACCGGTCAGAACCGC
Found at i:98426 original size:21 final size:22
Alignment explanation
Indices: 98388--98430 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
98378 TATGAGAAAT
98388 TGTTTCTAAAATATAAAAATGA
1 TGTTTCTAAAATATAAAAATGA
98410 TGTTTC-AAAAT-TGAAAAATGA
1 TGTTTCTAAAATAT-AAAAATGA
98431 AAACAAACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 1 0.05
21 13 0.65
22 6 0.30
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (22 bp):
TGTTTCTAAAATATAAAAATGA
Found at i:102306 original size:21 final size:21
Alignment explanation
Indices: 102280--102319 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
102270 CCCCCTTTGA
*
102280 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
102301 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
102320 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:136999 original size:2 final size:2
Alignment explanation
Indices: 136992--137023 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
136982 AGTGATTTTG
136992 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
137024 TAAAAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:139103 original size:24 final size:24
Alignment explanation
Indices: 139073--139128 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
139063 TAGAAGTTCG
139073 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
139097 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
139121 ATTGAAGC
1 ATTGAAGC
139129 GAAAGAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (24 bp):
ATTGAAGCCTAAAATTTGAGCTCA
Found at i:140860 original size:20 final size:21
Alignment explanation
Indices: 140830--140868 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
140820 ATTACATGTA
140830 CAAATATGACAAAACCGGTCC
1 CAAATATGACAAAACCGGTCC
140851 CAAA-ATGACAAAACCGGT
1 CAAATATGACAAAACCGGT
140869 AAAACGCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.46, C:0.26, G:0.15, T:0.13
Consensus pattern (21 bp):
CAAATATGACAAAACCGGTCC
Found at i:141066 original size:181 final size:182
Alignment explanation
Indices: 140804--141663 Score: 1120
Period size: 181 Copynumber: 4.7 Consensus size: 182
140794 TGAAAAATAG
* * * * * * * *
140804 ATCGCTCCATAGCAATATTACATGTACAAATATGACAAAACCGGTC-CCAAAATGACAAAACCGG
1 ATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGG
* * * *
140868 TAAAACGCTACCGGATATG-TGTCAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAAT
66 -AAAAAGTTACCGGATATGTTG-AAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAAT
* ** * **
140932 TTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGGTACTTTA-AAAAAAAT
129 TTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGT
* * *
140985 ATCGATCCACAATAATATAACAGGTAAAAATATGATAAAACTGGTCTCAAAAATGACAAAACCGG
1 ATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGG
* *
141050 AAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATATTAGTATCGACACTTTCTGAATTT
66 AAAAAGTTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTT
141115 AAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGT
131 AAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGT
* * * *
141167 ATCGATCCTTACCAATATAATAGGTAAAAATATGATAAAACAGGTCT-AAAAATAACAAAACCGG
1 ATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGG
* * * *
141231 AAAAAGTTATCGGATATGTTAAAAGTGTCGATAATTTAATATAAGTATTGACAATTTCTGAATTT
66 AAAAAGTTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTT
* * *
141296 AAAAGAGAAAAAAG-TATTGCGCTTAAAAAGTGTCGACACTTTATGAAAATGT
131 AAAAGAG-AAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGT
* *
141348 ATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACTGGTCTCAAAATTGACAAAACCAG
1 ATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACC-G
* * * * *
141413 TAAAATGCTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATT
65 GAAAAAGTTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATT
* * * **
141478 TAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTA-AAAAAAAT
130 TAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGT
* * * * *
141530 ATCGATCCACAATAATATAACAGGTAAAAATATGATAAAACAAGTCCCAAAATTGACAAAACCAG
1 ATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACC-G
* * * * * *
141595 TAAAACGATACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTAAAAT
65 GAAAAAGTTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATT
141660 TAAA
130 TAAA
141664 CTAAAAAGTG
Statistics
Matches: 599, Mismatches: 73, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
181 294 0.49
182 215 0.36
183 90 0.15
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (182 bp):
ATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGG
AAAAAGTTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTT
AAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGT
Found at i:141811 original size:163 final size:168
Alignment explanation
Indices: 140960--142144 Score: 1013
Period size: 182 Copynumber: 6.7 Consensus size: 168
140950 TAGCGCCTAT
** * * * *
140960 AAAGTGTCGGTACTTTA-AAAAAAATATCGATCCACAATAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGACACTTTATGAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * * *
141024 ACTGGTCTCAAAAATGACAAAACCGGAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAA
66 ACAGGTCTCAAAAATGACAAAACTGGAAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAA
* * *
141089 TATTAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAA
131 TATAAGTATCGACACTTTC------T-----A-AAGAAGTTATA--ACTTAA
* * * *
141141 AAAGTGTCGACACTTTATGAAAATGTATCGATCCTTACCAATATAATAGGTAAAAATATGATAAA
1 AAAGTGTCGACACTTTATGAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * * * *
141206 ACAGGTCT-AAAAATAACAAAACCGGAAAAAGTTATCGGATATGTTAAAAGTGTCGATAATTTAA
66 ACAGGTCTCAAAAATGACAAAACTGGAAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAA
* * **
141270 TATAAGTATTGACAATTTCTGAATTTAAAAGAGAAAAAAG-TATTGCGCTTAA
131 TATAAGTATCGACACTTTC------T--AA-AG----AAGTTA-T-AACTTAA
*
141322 AAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGACACTTTATGAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * * * * * *
141387 ACTGGTCTCAAAATTGACAAAACCAGTAAAATGCTACCGGATATATTGAAAGTGTCGATAATTTA
66 ACAGGTCTCAAAAATGACAAAA-CTGGAAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTA
* * * *
141452 ATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAT
130 ATATAAGTATCGACACTTTC------T-----A-AAGAAGTTATA--ACTTAA
* * * * *
141505 AAAGTGTCGATACTTTA-AAAAAAATATCGATCCACAATAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGACACTTTATGAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * * * * * *
141569 ACAAGTCCCAAAATTGACAAAACCAGTAAAACGATACCGAATATGTTGAAAGTGTCGATAATTTA
66 ACAGGTCTCAAAAATGACAAAA-CTGGAAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTA
141634 ATATAAGTATCGACACTTTCT-AA-AA-TTA-AAC-TAA
130 ATATAAGTATCGACACTTTCTAAAGAAGTTATAACTTAA
*
141668 AAAGTGTCGACACTTTATGAAAATATATCGATCCATAACAATATAACAGGTAAAAATATTATAAA
1 AAAGTGTCGACACTTTATGAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * *
141733 ACTGGTCTCAAAAATGACAAAACTGGAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAA
66 ACAGGTCTCAAAAATGACAAAACTGGAAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAA
* *
141798 TATTAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCTTAA
131 TATAAGTATCGACACTTTC------T-----A-AAGAAGTTATA--ACTTAA
* * * * *
141850 AAAGTGTCGACACTTTATTAAAATGTATCGATCCTTACCAATATAACAGGTAAAAATATGATTAA
1 AAAGTGTCGACACTTTATGAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * *
141915 ACAGGTCTAAAAAATGACAAAACCGGAAAAAGTTACCGGATATGTTGAAAGTGTCGATAATTTAA
66 ACAGGTCTCAAAAATGACAAAACTGGAAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAA
*
141980 TATAAGTATCGACACTTTATGAATTTAAAAGAGAATAAGTTATAACGCTTAA
131 TATAAGTATCGACAC--T-T---TCT--AA-AG---AAGTTATAA--CTTAA
* *
142032 AAAGTGTCGACACTTTATGAAAATGTATCGATCCAGAACAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGACACTTTATGAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* *
142097 ACCGGTCTC-AAAATGACAAAACTGGTAAATAGATACCGGATATGTTGA
66 ACAGGTCTCAAAAATGACAAAACTGG-AAAAAGATACCGGATATGTTGA
142145 TCTAGAATTA
Statistics
Matches: 855, Mismatches: 99, Indels: 99
0.81 0.09 0.09
Matches are distributed among these distances:
163 73 0.09
164 61 0.07
166 1 0.00
167 3 0.00
168 2 0.00
169 3 0.00
176 3 0.00
177 3 0.00
178 8 0.01
179 5 0.01
181 182 0.21
182 422 0.49
183 81 0.09
184 1 0.00
185 1 0.00
186 4 0.00
187 1 0.00
188 1 0.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (168 bp):
AAAGTGTCGACACTTTATGAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
ACAGGTCTCAAAAATGACAAAACTGGAAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAA
TATAAGTATCGACACTTTCTAAAGAAGTTATAACTTAA
Found at i:145525 original size:199 final size:199
Alignment explanation
Indices: 145169--146026 Score: 1166
Period size: 199 Copynumber: 4.3 Consensus size: 199
145159 CAAATAAAAC
* * * *
145169 AAGTGTTGATACATTTAAAACAAGTGTCAATCCCGAAAACATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* *
145234 TAGGTAAATTATTCATGTAAAAGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
* * * *
145299 TATCGACACAAATCTAACAAATGTCGATACTTTTTCTCCATACTGTATTTCAAAACCAAGTGCAC
131 TATCGACACAAATATAACAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCAC
145364 TAAA
196 TAAA
* * *
145368 AAGTGTCGATACATATATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGAAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * * * *
145433 TAGGTAAATTA-GCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAACA
66 TAGGTAAATTATTC-ATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
* ** *
145497 GTATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCA
130 GTATCGACACAAATATAACAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCA
145562 C-ATAA
195 CTA-AA
* * * *
145567 AAGTGTCGATACATTTAAAACAAATGTCGATCCCGAAAATATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * *
145632 TAGGTAAATTATTCATGTAAACGGTCTAAATATATCGATTTTTGAGAAAAGAGGTGTACAAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
145697 TATCGACACAAATATAACAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCAC
131 TATCGACACAAATATAACAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCAC
145762 TAAA
196 TAAA
* * *
145766 AAGTGTTGATATATTTATAACAAGTTTCGATCCCAAAAACATCG-AAAACTATAATTATAATGTA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAAC-ATAATTATAATGTA
* * * * * * **
145830 ATAGGTAAATTA-ACAATGTAACCGGTCTAAATGTACCGGTTTATGAGAAAACATGTATACATGA
65 ATAGGTAAATTATTC-ATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAA
* * * * * * * *
145894 AGTATCGACACAAATACATCAAGTTTTGATACATTTTTGTCCAGACTATATTTTAAAAACCAAGT
129 AGTATCGACACAAATATAACAAGTGTCGATAC-TTTTTCTCCAGAATGTA-TTTCAAAACCAAGT
*
145959 GCACAAAA
192 GCACTAAA
* * *
145967 AATTTTCGATACATTTATAACAATTGTCGATCCCAAAAACATCGAAAAACATAATTATAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAA
146027 CCAAATGTCT
Statistics
Matches: 576, Mismatches: 74, Indels: 16
0.86 0.11 0.02
Matches are distributed among these distances:
198 8 0.01
199 479 0.83
200 16 0.03
201 68 0.12
202 5 0.01
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (199 bp):
AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
TATCGACACAAATATAACAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCAC
TAAA
Found at i:146673 original size:18 final size:18
Alignment explanation
Indices: 146650--146685 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
146640 AAATGTCCTA
146650 TTTCAATGTTGTTGCCTC
1 TTTCAATGTTGTTGCCTC
146668 TTTCAATGTTGTTGCCTC
1 TTTCAATGTTGTTGCCTC
146686 ACCGATATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.17, T:0.50
Consensus pattern (18 bp):
TTTCAATGTTGTTGCCTC
Found at i:147935 original size:198 final size:201
Alignment explanation
Indices: 147453--148132 Score: 681
Period size: 198 Copynumber: 3.4 Consensus size: 201
147443 TTTAAAAAAA
* * * * ** * **
147453 TATCGACCCCAAAAATATCGAAACAAATAATTATAATGTAATATTTAAATTAACAATGTAACTAG
1 TATCGATCCCAAAAACATCAAAACCAATAATTATAATGTAATAGGTAAATTTACAATGT-ACCGG
* * * *** * * *
147518 TATATATATACCG-GTTAATTTTAAAACATGTC-AACATAAAGTATCGACA-CTTTTTAAGTTTG
65 TATAAATATACCGATTTTATGAGAAAATAGGTCTAA-ATAAAGTATCGACACCTTTATAA-TTTG
* * * * * * * * * *
147580 TGTCGACACTTTTTTTC-A--AA--AGAAAGCACAAAC-AGGTTCACGCATAAAGAGTTGATACA
128 TGTCGATACTTTTGTCCAATGAATTAGAATGC-CCAACGAGGTGCAAGAATAAAGTGTCGATACA
147639 TTTAAAATTG
192 TTTAAAATTG
* * *
147649 TATCGATCACAAAAACATCAAAACCAATAATTATAATGTAATAGGTCAATTTACAATGTAACCGA
1 TATCGATCCCAAAAACATCAAAACCAATAATTATAATGTAATAGGTAAATTTACAATGT-ACCGG
* * *
147714 TTTAAATTTACCGATTTTATGAGAAAATAGGTC-AGAATAAAGTATCGACA-CTTGTGTAATTTG
65 TATAAATATACCGATTTTATGAGAAAATAGGTCTA-AATAAAGTATCGACACCTT-TATAATTTG
*
147777 TGTCGATACATTTTGTCC-AT-AA-T-GAATGCCCAACGAGGTGCAAGAATAACGTGTCGATACA
128 TGTCGATAC-TTTTGTCCAATGAATTAGAATGCCCAACGAGGTGCAAGAATAAAGTGTCGATACA
147838 TTTAAAATTG
192 TTTAAAATTG
* * * * *
147848 TATTGATCCCAAAAACATCGAAA-CAAAAATTACAATGTTATAGGTAAATTTACAATGTACCCGG
1 TATCGATCCCAAAAACATCAAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTA-CCGG
* *
147912 TATAAATATACCGATTTTATGAGAAAATAGGTCTAAATAATGTATCGACACCTTTATAGTTTGTG
65 TATAAATATACCGATTTTATGAGAAAATAGGTCTAAATAAAGTATCGACACCTTTATAATTTGTG
* * *
147977 TCGATTCTTTTTTCCAGAATGAATTAGGAATGCCCAACGAGGTGCAAGCATAAAGTGTCGATACA
130 TCGATACTTTTGTCC--AATGAATTA-GAATGCCCAACGAGGTGCAAGAATAAAGTGTCGATACA
*
148042 TTTAAAATTA
192 TTTAAAATTG
* * * *
148052 TATCGATCCAAAAAATAACAAAACCAATAATTATAATGTAATAGGTAAATTTGCAATGCTACCGG
1 TATCGATCCCAAAAACATCAAAACCAATAATTATAATGTAATAGGTAAATTTACAATG-TACCGG
148117 TATAAATATACCGATT
65 TATAAATATACCGATT
148133 AAATGCATAT
Statistics
Matches: 404, Mismatches: 61, Indels: 29
0.82 0.12 0.06
Matches are distributed among these distances:
196 63 0.16
197 50 0.12
198 110 0.27
199 61 0.15
200 2 0.00
201 2 0.00
202 1 0.00
204 63 0.16
205 50 0.12
206 2 0.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (201 bp):
TATCGATCCCAAAAACATCAAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTACCGGT
ATAAATATACCGATTTTATGAGAAAATAGGTCTAAATAAAGTATCGACACCTTTATAATTTGTGT
CGATACTTTTGTCCAATGAATTAGAATGCCCAACGAGGTGCAAGAATAAAGTGTCGATACATTTA
AAATTG
Found at i:155758 original size:12 final size:12
Alignment explanation
Indices: 155741--155765 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
155731 GTCAAATAAT
155741 TTAGGCACCAAA
1 TTAGGCACCAAA
155753 TTAGGCACCAAA
1 TTAGGCACCAAA
155765 T
1 T
155766 GGTGCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (12 bp):
TTAGGCACCAAA
Found at i:166735 original size:64 final size:65
Alignment explanation
Indices: 166665--166827 Score: 190
Period size: 64 Copynumber: 2.5 Consensus size: 65
166655 TTGGACCCTT
*
166665 AGTGCATCGGTGCA-C-TAAGAGTGCATCGATGCATCAAGTGCATTCAATG-TTTCA-AAATAGC
1 AGTGCATCGGTGCATCGT-AG-GTGCATCGATGCATCAAATGCATTCAATGTTTTCATAAA-AGC
*
166726 CAG
63 CAC
* * * * *
166729 AGTGCATCGATGCATCGTTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTC
1 AGTGCATCGGTGCATCGTAGGTGCATCGATGCATCAAATGCATTCAATGTTTTCATAAAAGCCAC
* *
166794 AGTGCATCGGTGCATGGTATGTGCATCGATGCAT
1 AGTGCATCGGTGCATCGTAGGTGCATCGATGCAT
166828 GTTCAATTTA
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
64 40 0.48
65 40 0.48
66 4 0.05
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (65 bp):
AGTGCATCGGTGCATCGTAGGTGCATCGATGCATCAAATGCATTCAATGTTTTCATAAAAGCCAC
Found at i:166818 original size:65 final size:64
Alignment explanation
Indices: 166685--166827 Score: 182
Period size: 65 Copynumber: 2.2 Consensus size: 64
166675 TGCACTAAGA
* *
166685 GTGCATCGATGCATCAAGTGCATTCAATGTTTCAAAATAGCCAGAGTGCATCGATGCATCGTTG
1 GTGCATCGATGCATCAAATGCATTCAATGTTTCAAAATAGCCACAGTGCATCGATGCATCGTTG
* * * * *
166749 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCAATG-TTTCA-AAATAGCCACAGTGCATCGATGCATCGT-
166813 T-
63 TG
166814 GTGCATCGATGCAT
1 GTGCATCGATGCAT
166828 GTTCAATTTA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
64 27 0.39
65 38 0.55
66 4 0.06
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCAATGTTTCAAAATAGCCACAGTGCATCGATGCATCGTTG
Done.