Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 5 of 147
Found at i:857096 original size:32 final size:33
Alignment explanation
Indices: 857036--857101 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
857026 GAAGAAACGA
857036 AATCTGTTTTAAGACAGATAAATAGATTATCTT
1 AATCTGTTTTAAGACAGATAAATAGATTATCTT
857069 AATCTGTTTTAAGACAGA-AAATAGATTATCTT
1 AATCTGTTTTAAGACAGATAAATAGATTATCTT
857101 A
1 A
857102 CCTGTGCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 15 0.45
33 18 0.55
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (33 bp):
AATCTGTTTTAAGACAGATAAATAGATTATCTT
Found at i:860737 original size:7 final size:6
Alignment explanation
Indices: 860720--860749 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
860710 TATCTTTATC
860720 ATTTTT ATTTTT ATTTTT ATTTTTT ATTTT
1 ATTTTT ATTTTT ATTTTT A-TTTTT ATTTT
860750 ATGTATATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:860751 original size:12 final size:13
Alignment explanation
Indices: 860720--860749 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
860710 TATCTTTATC
860720 ATTTTTA-TTTTT
1 ATTTTTATTTTTT
860732 ATTTTTATTTTTT
1 ATTTTTATTTTTT
860745 ATTTT
1 ATTTT
860750 ATGTATATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:860806 original size:7 final size:7
Alignment explanation
Indices: 860789--860836 Score: 53
Period size: 7 Copynumber: 6.4 Consensus size: 7
860779 ATATATATAT
860789 TTTTATTA
1 TTTT-TTA
860797 TTTTTTA
1 TTTTTTA
860804 TTTTTTA
1 TTTTTTA
860811 TTTTATTTA
1 -TTT-TTTA
860820 TTTTTGTA
1 TTTTT-TA
860828 -TTTTTA
1 TTTTTTA
860834 TTT
1 TTT
860837 ATCTAATTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
6 2 0.06
7 18 0.50
8 12 0.33
9 4 0.11
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (7 bp):
TTTTTTA
Found at i:860810 original size:17 final size:16
Alignment explanation
Indices: 860788--860838 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 16
860778 AATATATATA
860788 TTTTTATTATTTTTTAT
1 TTTTTATT-TTTTTTAT
*
860805 TTTTTATTTTATTTAT
1 TTTTTATTTTTTTTAT
860821 TTTTGTATTTTTATTTAT
1 TTTT-TATTTTT-TTTAT
860839 CTAATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 11 0.37
17 14 0.47
18 5 0.17
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTTATTTTTTTTAT
Found at i:860830 original size:31 final size:31
Alignment explanation
Indices: 860733--860836 Score: 77
Period size: 32 Copynumber: 3.3 Consensus size: 31
860723 TTTATTTTTA
* *
860733 TTTTTATTTTTTATTTTATGTATATCCTATGTAT
1 TTTTTATTTTTTATTTTAT-T-TAT-TTTTGTAT
* ** * * * *
860767 TTATTA-TTACTAATATATATATTTTTATTAT
1 TTTTTATTTTTTATTTTATTTATTTTT-GTAT
860798 TTTTTATTTTTTATTTTATTTATTTTTGTA-
1 TTTTTATTTTTTATTTTATTTATTTTTGTAT
860828 TTTTTATTT
1 TTTTTATTT
860837 ATCTAATTAT
Statistics
Matches: 52, Mismatches: 16, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
30 11 0.21
31 13 0.25
32 15 0.29
33 8 0.15
34 5 0.10
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (31 bp):
TTTTTATTTTTTATTTTATTTATTTTTGTAT
Found at i:860837 original size:22 final size:23
Alignment explanation
Indices: 860789--860836 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
860779 ATATATATAT
860789 TTTTA-TTATTTTTTATTTTTTA
1 TTTTATTTATTTTTTATTTTTTA
860811 TTTTATTTATTTTTGTA-TTTTTA
1 TTTTATTTATTTTT-TATTTTTTA
860834 TTT
1 TTT
860837 ATCTAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 5 0.21
23 17 0.71
24 2 0.08
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (23 bp):
TTTTATTTATTTTTTATTTTTTA
Found at i:860886 original size:29 final size:26
Alignment explanation
Indices: 860854--860930 Score: 64
Period size: 29 Copynumber: 2.8 Consensus size: 26
860844 TATATATCTG
860854 ATATTATTATTATTTTTATTTATCCTATA
1 ATATTATTATTATTTTTATTT-T-CTA-A
* * * *
860883 ATATTTTTTTTATTTATCTTTTCTAA
1 ATATTATTATTATTTTTATTTTCTAA
* *
860909 TTATCTATTATTTTTTTTATTT
1 ATAT-TATTATTATTTTTATTT
860931 GATTTTTATT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
26 4 0.11
27 15 0.41
28 1 0.03
29 17 0.46
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (26 bp):
ATATTATTATTATTTTTATTTTCTAA
Found at i:862253 original size:60 final size:59
Alignment explanation
Indices: 861884--862280 Score: 446
Period size: 59 Copynumber: 6.7 Consensus size: 59
861874 TAAAAAAATC
* *
861884 AAAAAATATTTTTTG-GAAAAAGTTGAAAGTATCAATTTTTCCTTAAAAAT-AAATTTTCA
1 AAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCCTTAAAAATCAAAATTTCA
* * * ** * *
861943 AAAAAAGATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCTTTGGAAATCAAAGTTCCAAA
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC--A
* * * *
862004 AAAAAATAGTCTTGAGAAAAAGTTGAAA-TGATCAATTTTCCTTAAAAAAAAT-AAAATTCCA
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGT-ATCAATTTTCCTT---AAAAATCAAAATTTCA
* **
862065 AAAAAATATTTTTG-GAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTTT
1 AAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCA
* * * *
862124 GAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTTCA
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCA
* * *
862182 AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCAA
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC-A
*
862242 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
862281 TTCTATACAA
Statistics
Matches: 287, Mismatches: 37, Indels: 27
0.82 0.11 0.08
Matches are distributed among these distances:
58 73 0.25
59 87 0.30
60 41 0.14
61 74 0.26
62 1 0.00
63 7 0.02
64 4 0.01
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.34
Consensus pattern (59 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCA
Found at i:862326 original size:6 final size:6
Alignment explanation
Indices: 862312--862345 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
862302 CTTTCCTTCC
* *
862312 TTTTTA TTTTGA TTTTGA TTTTGA TTTTAA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
862346 TCTTTAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (6 bp):
TTTTGA
Found at i:863189 original size:34 final size:34
Alignment explanation
Indices: 863083--863181 Score: 119
Period size: 33 Copynumber: 2.9 Consensus size: 34
863073 AGATTTTTTT
* * * *
863083 AAAAATTATATGATTTTTTAAAAATAAAATTTCA
1 AAAAATCATATAATTTTTTAAAAATATATTTTCA
* *
863117 AAAAATCATATAA-CTTTTGAAAATATATTTTCA
1 AAAAATCATATAATTTTTTAAAAATATATTTTCA
* *
863150 AAAAATCATTTAATTTTTTAAAAATTTATTTT
1 AAAAATCATATAATTTTTTAAAAATATATTTT
863182 TAGAAAATGA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 28 0.52
34 26 0.48
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (34 bp):
AAAAATCATATAATTTTTTAAAAATATATTTTCA
Found at i:863560 original size:11 final size:11
Alignment explanation
Indices: 863546--863575 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
863536 TCTTAAAAGC
863546 AATTTAATAAA
1 AATTTAATAAA
863557 AATTTTAATAAA
1 AA-TTTAATAAA
863569 AATTTAA
1 AATTTAA
863576 ATTGATAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATTTAATAAA
Found at i:863565 original size:12 final size:12
Alignment explanation
Indices: 863548--863573 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
863538 TTAAAAGCAA
863548 TTTAATAAAAAT
1 TTTAATAAAAAT
863560 TTTAATAAAAAT
1 TTTAATAAAAAT
863572 TT
1 TT
863574 AAATTGATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTAATAAAAAT
Found at i:869743 original size:2 final size:2
Alignment explanation
Indices: 869730--869768 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
869720 ATAGGAAGAA
* * *
869730 GT GT GA GT GT GT GT GT GT GT GC GT GT GC GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
869769 GTCTGTATGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.05, G:0.51, T:0.41
Consensus pattern (2 bp):
GT
Found at i:870052 original size:2 final size:2
Alignment explanation
Indices: 870045--870071 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
870035 GTTCAATAAA
870045 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
870072 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:870076 original size:2 final size:2
Alignment explanation
Indices: 870071--870115 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
870061 TCTCTCTCTC
* *
870071 TA TA TA TA TA TA TA TA TA TA TA TA T- TT TA TT TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
870111 TA TA T
1 TA TA T
870116 TAATAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (2 bp):
TA
Found at i:870179 original size:28 final size:27
Alignment explanation
Indices: 870151--870236 Score: 78
Period size: 28 Copynumber: 3.3 Consensus size: 27
870141 AATTCAAAAT
870151 ATTAATTTAATAAAAATATTATATTAA
1 ATTAATTTAATAAAAATATTATATTAA
*
870178 TATATAA-TTAAAAAATAAT-TTATATTAA
1 -AT-TAATTTAATAAA-AATATTATATTAA
870206 A--AATATTAAT--AAATATTA-ATTAA
1 ATTAAT-TTAATAAAAATATTATATTAA
870229 ATTAATTT
1 ATTAATTT
870237 TGAATATGAT
Statistics
Matches: 49, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
23 9 0.18
24 8 0.16
25 3 0.06
26 4 0.08
27 1 0.02
28 18 0.37
29 6 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
ATTAATTTAATAAAAATATTATATTAA
Found at i:870187 original size:11 final size:10
Alignment explanation
Indices: 870165--870235 Score: 56
Period size: 10 Copynumber: 7.0 Consensus size: 10
870155 ATTTAATAAA
870165 AATATTATATT
1 AATATTA-ATT
870176 AATATATAATT
1 AATAT-TAATT
* *
870187 AAAAAATAATT
1 -AATATTAATT
* *
870198 TATATTAA-A
1 AATATTAATT
*
870207 AATATTAATA
1 AATATTAATT
870217 AATATTAATT
1 AATATTAATT
870227 AA-ATTAATT
1 AATATTAATT
870236 TTGAATATGA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
9 14 0.29
10 17 0.35
11 13 0.27
12 5 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AATATTAATT
Found at i:870201 original size:18 final size:17
Alignment explanation
Indices: 870175--870224 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
870165 AATATTATAT
870175 TAATATATAATTAAAAAA
1 TAATATAT-ATTAAAAAA
*
870193 TAATTTATATTAAAAATA
1 TAATATATATTAAAAA-A
*
870211 TTAATAAATATTAA
1 -TAATATATATTAA
870225 TTAAATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 8 0.30
18 8 0.30
19 11 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAATATATATTAAAAAA
Found at i:870213 original size:26 final size:27
Alignment explanation
Indices: 870162--870228 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 27
870152 TTAATTTAAT
*
870162 AAAAAT-ATTATATTAATATATAATTA
1 AAAAATAATTATATTAATAAATAATTA
870188 AAAAATAATTTATATTAA-AAAT-ATTA
1 AAAAATAA-TTATATTAATAAATAATTA
*
870214 ATAAAT-ATTA-ATTAA
1 AAAAATAATTATATTAA
870229 ATTAATTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
23 5 0.14
24 3 0.08
25 1 0.03
26 15 0.41
27 4 0.11
28 9 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (27 bp):
AAAAATAATTATATTAATAAATAATTA
Found at i:870226 original size:40 final size:40
Alignment explanation
Indices: 870115--870234 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 40
870105 ATATATTATA
* * * *
870115 TTAATAAAATTATTATTTAATATTTTAATTCAAAATATTAAT
1 TTAATAAAAATATTATATAA-ATATTAATT-AAAATAATAAT
*
870157 TTAATAAAAATATTATATTAATATATAATTAAAA-AATAAT
1 TTAATAAAAATATTATATAAATAT-TAATTAAAATAATAAT
*
870197 TTATATTAAAAATATTA-ATAAATATTAATTAAATTAAT
1 TTA-A-TAAAAATATTATATAAATATTAATTAAAATAAT
870235 TTTGAATATG
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
40 16 0.24
41 18 0.27
42 33 0.49
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (40 bp):
TTAATAAAAATATTATATAAATATTAATTAAAATAATAAT
Found at i:872576 original size:15 final size:17
Alignment explanation
Indices: 872544--872580 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 17
872534 AATGATAATT
872544 TTTTTTTCTTTCAGTTTC
1 TTTTTTTCTTTCA-TTTC
872562 TTTTTTT-TTTC-TTTC
1 TTTTTTTCTTTCATTTC
872577 TTTT
1 TTTT
872581 CTCTTACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.42
17 4 0.21
18 7 0.37
ACGTcount: A:0.03, C:0.14, G:0.03, T:0.81
Consensus pattern (17 bp):
TTTTTTTCTTTCATTTC
Found at i:875583 original size:22 final size:22
Alignment explanation
Indices: 875553--875595 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
875543 TCATATTTTG
* *
875553 GTATTGACATGAATTATGACAC
1 GTATCGACACGAATTATGACAC
875575 GTATCGACACGAATTATGACA
1 GTATCGACACGAATTATGACA
875596 TGCTATTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (22 bp):
GTATCGACACGAATTATGACAC
Found at i:879436 original size:22 final size:22
Alignment explanation
Indices: 879406--879449 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
879396 TGTATATTTA
* *
879406 TATTTGTATCTCTAGAATTAAG
1 TATTGGTATCCCTAGAATTAAG
879428 TATTGGTATCCCTAGAATTAAG
1 TATTGGTATCCCTAGAATTAAG
879450 GACAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (22 bp):
TATTGGTATCCCTAGAATTAAG
Found at i:883481 original size:22 final size:22
Alignment explanation
Indices: 883455--883498 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
883445 TGTATATTTA
*
883455 TATTTGTATCTCTAAAATTAAG
1 TATTTGTATCCCTAAAATTAAG
*
883477 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
883499 GATAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:887277 original size:18 final size:18
Alignment explanation
Indices: 887254--887289 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
887244 TGTTATCATA
887254 TTATATAAAATTTTATAT
1 TTATATAAAATTTTATAT
* *
887272 TTATATTATATTTTATAT
1 TTATATAAAATTTTATAT
887290 AAAAATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATATAAAATTTTATAT
Found at i:887467 original size:20 final size:21
Alignment explanation
Indices: 887432--887471 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
887422 ATATTGTATC
*
887432 ATTACATCATATTTTTAAATT
1 ATTAAATCATATTTTTAAATT
887453 ATTAAATCA-ATTTTTAAAT
1 ATTAAATCATATTTTTAAAT
887472 CTGTTGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTAAATCATATTTTTAAATT
Found at i:891148 original size:40 final size:40
Alignment explanation
Indices: 891024--891149 Score: 98
Period size: 40 Copynumber: 3.1 Consensus size: 40
891014 TTTGTTAAAC
* * *
891024 TCATATATAGTTATTGTTACAATTTTAAGCCATATCACTT
1 TCATATATAATTATTGTTACAATTTTAAGTCATGTCACTT
* * ** * * *
891064 TTATAT-TCTATT-TTCG-TATTATATTTATGTCGTGTCA-TCA
1 TCATATAT-AATTATT-GTTACAAT-TTTAAGTCATGTCACT-T
891104 TCATATATAATTATTGTTACAATTTTAAGTCATGTCACTT
1 TCATATATAATTATTGTTACAATTTTAAGTCATGTCACTT
891144 TCATAT
1 TCATAT
891150 TCTATTTTCG
Statistics
Matches: 61, Mismatches: 17, Indels: 16
0.65 0.18 0.17
Matches are distributed among these distances:
39 8 0.13
40 45 0.74
41 8 0.13
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.49
Consensus pattern (40 bp):
TCATATATAATTATTGTTACAATTTTAAGTCATGTCACTT
Found at i:891191 original size:80 final size:80
Alignment explanation
Indices: 891024--891184 Score: 268
Period size: 80 Copynumber: 2.0 Consensus size: 80
891014 TTTGTTAAAC
* *
891024 TCATATATAGTTATTGTTACAATTTTAAGCCATATCACTTTTATATTCTATTTTCGTATTATATT
1 TCATATATAATTATTGTTACAATTTTAAGCCATATCACTTTCATATTCTATTTTCGTATTATATT
*
891089 TATGTCGTGTCATCA
66 TATGTAGTGTCATCA
* *
891104 TCATATATAATTATTGTTACAATTTTAAGTCATGTCACTTTCATATTCTATTTTCGTATTATATT
1 TCATATATAATTATTGTTACAATTTTAAGCCATATCACTTTCATATTCTATTTTCGTATTATATT
*
891169 TATGTAGTGTTATCA
66 TATGTAGTGTCATCA
891184 T
1 T
891185 GTTATATTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 75 1.00
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (80 bp):
TCATATATAATTATTGTTACAATTTTAAGCCATATCACTTTCATATTCTATTTTCGTATTATATT
TATGTAGTGTCATCA
Found at i:891591 original size:19 final size:20
Alignment explanation
Indices: 891554--891594 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
891544 AATTTTATGC
*
891554 AAAAATATGAAAATTTTAAA
1 AAAAATATGAAAATATTAAA
*
891574 AAAAATTTGAAAA-ATTAAA
1 AAAAATATGAAAATATTAAA
891593 AA
1 AA
891595 GTGTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAATATGAAAATATTAAA
Found at i:891630 original size:10 final size:10
Alignment explanation
Indices: 891617--891662 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
891607 TAAAGCTTTT
*
891617 TAAAAATTTA
1 TAAAAAATTA
*
891627 TAAAAAAATA
1 TAAAAAATTA
891637 -AAAAAATTA
1 TAAAAAATTA
*
891646 TGAAAAATTA
1 TAAAAAATTA
891656 -AAAAAAT
1 TAAAAAAT
891663 GAAAATTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
9 14 0.47
10 16 0.53
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:891640 original size:19 final size:19
Alignment explanation
Indices: 891618--891662 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
891608 AAAGCTTTTT
*
891618 AAAAATTTATAAAAAAATA
1 AAAAAATTATAAAAAAATA
* *
891637 AAAAAATTATGAAAAATTA
1 AAAAAATTATAAAAAAATA
891656 AAAAAAT
1 AAAAAAT
891663 GAAAATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAAAATTATAAAAAAATA
Found at i:891715 original size:18 final size:17
Alignment explanation
Indices: 891653--891714 Score: 70
Period size: 18 Copynumber: 3.5 Consensus size: 17
891643 TTATGAAAAA
891653 TTAAAAAAATGAAAATT
1 TTAAAAAAATGAAAATT
* *
891670 TTAATAAAAATAAAAAAT
1 TTAA-AAAAATGAAAATT
*
891688 TTAAATAAATCTGAAAATT
1 TTAAA-AAA-ATGAAAATT
891707 TTAAAAAA
1 TTAAAAAA
891715 TTAAATATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
17 5 0.14
18 21 0.57
19 11 0.30
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (17 bp):
TTAAAAAAATGAAAATT
Found at i:891735 original size:37 final size:37
Alignment explanation
Indices: 891661--891753 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 37
891651 AATTAAAAAA
*
891661 ATGAAAATTTTAATAAAAATAAAAAATTTAAATAAAT-C
1 ATGAAAATTTT-A-AAAAATAAAAAATTTAAAAAAATCC
* *
891699 -TGAAAATTTTAAAAAATTAAATATTTAATACAAAATCC
1 ATGAAAATTTTAAAAAATAAAAAATTTAA-A-AAAATCC
*
891737 AAGAAAATTTTAAAAAA
1 ATGAAAATTTTAAAAAA
891754 GTTTCAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
35 15 0.32
36 2 0.04
37 14 0.30
38 1 0.02
39 15 0.32
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.31
Consensus pattern (37 bp):
ATGAAAATTTTAAAAAATAAAAAATTTAAAAAAATCC
Found at i:891871 original size:19 final size:19
Alignment explanation
Indices: 891849--892008 Score: 67
Period size: 19 Copynumber: 8.4 Consensus size: 19
891839 TTAAAATTTT
*
891849 ATTTTTTATATTTTTTTAA
1 ATTTTTTAGATTTTTTTAA
** * * *
891868 ATTTTCAAAATGTTTTTGA
1 ATTTTTTAGATTTTTTTAA
* * *
891887 GTTTCTTAGATTTCTATTAA
1 ATTTTTTAGATTT-TTTTAA
* * *
891907 AATTTTAAGATTTTTTT-T
1 ATTTTTTAGATTTTTTTAA
** *
891925 ATTTTTTAGAAATGTTTATA
1 ATTTTTTAGATTTTTTTA-A
*
891945 ATTTTTATATATATATTTTTAA
1 ATTTTT-TAGAT-T-TTTTTAA
* *
891967 ATGTTTAAGATTTTTTTAA
1 ATTTTTTAGATTTTTTTAA
* *
891986 A-ATTTTA-A-TTTTTTAG
1 ATTTTTTAGATTTTTTTAA
892002 ATTTTTT
1 ATTTTTT
892009 TTAATTTTCA
Statistics
Matches: 98, Mismatches: 36, Indels: 16
0.65 0.24 0.11
Matches are distributed among these distances:
16 8 0.08
17 5 0.05
18 16 0.16
19 32 0.33
20 20 0.20
21 6 0.06
22 6 0.06
23 5 0.05
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (19 bp):
ATTTTTTAGATTTTTTTAA
Found at i:892024 original size:19 final size:19
Alignment explanation
Indices: 891988--892027 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
891978 TTTTTTAAAA
** *
891988 TTTTAATTTTTTAGATTTT
1 TTTTAATTTTCAAAATTTT
892007 TTTTAATTTTCAAAATTTT
1 TTTTAATTTTCAAAATTTT
892026 TT
1 TT
892028 AAAAAAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (19 bp):
TTTTAATTTTCAAAATTTT
Found at i:892153 original size:20 final size:19
Alignment explanation
Indices: 892113--892172 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
892103 TTTATTTTGA
* *
892113 TTTTGAATTTTA-TAAATT
1 TTTTGAGTTTTATTAAAAT
892131 TTTTGTAGTTTTATTAAAA-
1 TTTTG-AGTTTTATTAAAAT
*
892150 TTTTGAGTTTTTTTGAAAAT
1 TTTTGAGTTTTATT-AAAAT
892170 TTT
1 TTT
892173 AAAATATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 13 0.37
19 15 0.43
20 7 0.20
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (19 bp):
TTTTGAGTTTTATTAAAAT
Found at i:892439 original size:22 final size:21
Alignment explanation
Indices: 892380--892442 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
892370 TTTCTTTGTC
* *
892380 ATTTAGTATTAAACTATCAATA
1 ATTTA-TATTAAATTATTAATA
892402 ATTTATATCTAAATTATTAATA
1 ATTTATAT-TAAATTATTAATA
*
892424 ATTTACTATTATATTATTA
1 ATTTA-TATTAAATTATTA
892443 TGCATTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 3 0.08
22 30 0.83
23 3 0.08
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTTATATTAAATTATTAATA
Found at i:892525 original size:22 final size:22
Alignment explanation
Indices: 892506--892592 Score: 79
Period size: 22 Copynumber: 4.0 Consensus size: 22
892496 TACAAAATTG
892506 TCATAGATTTAATATTAAATTAA
1 TCATA-ATTTAATATTAAATTAA
* * * *
892529 CCATAATTCAATATCAAGTT-A
1 TCATAATTTAATATTAAATTAA
**
892550 TCACTAATTT-ATATTAAATTCT
1 TCA-TAATTTAATATTAAATTAA
*
892572 TCATAATTTACTATTAAATTA
1 TCATAATTTAATATTAAATTA
892593 TTTAACTATT
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
21 17 0.34
22 29 0.58
23 4 0.08
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (22 bp):
TCATAATTTAATATTAAATTAA
Found at i:892772 original size:11 final size:11
Alignment explanation
Indices: 892756--892796 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
892746 TACTTTTAAG
892756 TTATTATTTAT
1 TTATTATTTAT
* *
892767 TTATTATTAAG
1 TTATTATTTAT
*
892778 TTATCATTTAT
1 TTATTATTTAT
892789 TTATTATT
1 TTATTATT
892797 AAATTATCAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (11 bp):
TTATTATTTAT
Found at i:892779 original size:22 final size:22
Alignment explanation
Indices: 892751--892830 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
892741 TAATATACTT
*
892751 TTAAGTTATTATTTATTTATTA
1 TTAAGTTATCATTTATTTATTA
892773 TTAAGTTATCATTTATTTATTA
1 TTAAGTTATCATTTATTTATTA
* * * *
892795 TTAAATTATCAATGATTAATTA
1 TTAAGTTATCATTTATTTATTA
* *
892817 CTAAGTAATCATTT
1 TTAAGTTATCATTT
892831 GCTTTTTATT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (22 bp):
TTAAGTTATCATTTATTTATTA
Found at i:892803 original size:11 final size:11
Alignment explanation
Indices: 892751--892803 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
892741 TAATATACTT
892751 TTAAGTTATTA
1 TTAAGTTATTA
* *
892762 TTTATTTATTA
1 TTAAGTTATTA
*
892773 TTAAGTTATCA
1 TTAAGTTATTA
* *
892784 TTTATTTATTA
1 TTAAGTTATTA
*
892795 TTAAATTAT
1 TTAAGTTAT
892804 CAATGATTAA
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (11 bp):
TTAAGTTATTA
Found at i:893281 original size:24 final size:24
Alignment explanation
Indices: 893246--893309 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 24
893236 ATAGAAGTAA
893246 TTAAAACAAATTTACTAAAT-AAATT
1 TTAAAA-AAATTTAC-AAATAAAATT
* *
893271 TTATAAAAATTAAACAAATAAAAATT
1 TTAAAAAAATT-TACAAAT-AAAATT
893297 TTAAAAAAATTTA
1 TTAAAAAAATTTA
893310 AATTCACAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
24 9 0.28
25 8 0.25
26 15 0.47
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (24 bp):
TTAAAAAAATTTACAAATAAAATT
Found at i:893409 original size:46 final size:47
Alignment explanation
Indices: 893341--893439 Score: 123
Period size: 46 Copynumber: 2.1 Consensus size: 47
893331 ATGAATAATG
*
893341 TAGTAATAAATTATTGAAAACTTAA-AAGTAAATTAAT-ATAACTTAA
1 TAGTAATAAATCATTGAAAACTTAATAA-TAAATTAATGATAACTTAA
* * *
893387 TAGTAGTAAATCATT-AATAACTTAATAATTAATTAATGATAATTTAA
1 TAGTAATAAATCATTGAA-AACTTAATAATAAATTAATGATAACTTAA
893434 TAGTAA
1 TAGTAA
893440 ATAACGAGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
45 2 0.04
46 28 0.62
47 15 0.33
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (47 bp):
TAGTAATAAATCATTGAAAACTTAATAATAAATTAATGATAACTTAA
Found at i:893433 original size:22 final size:22
Alignment explanation
Indices: 893335--893572 Score: 110
Period size: 22 Copynumber: 10.8 Consensus size: 22
893325 TATTTCATGA
* * *
893335 ATAATGTAGTAATAAATTATTG
1 ATAATTTAATAATAAATTAATG
* *
893357 AAAACTTAA-AAGTAAATTAAT-
1 ATAATTTAATAA-TAAATTAATG
* * * *
893378 ATAACTTAATAGTAGTAAATCATTA
1 ATAATTTAATA--A-TAAATTAATG
* *
893403 ATAACTTAATAATTAATTAATG
1 ATAATTTAATAATAAATTAATG
* *
893425 ATAATTTAATAGTAAA-TAACG
1 ATAATTTAATAATAAATTAATG
* *
893446 AGTAATTTAAT-ATAAATTAGTA
1 A-TAATTTAATAATAAATTAATG
**
893468 ATAATTTGGTAATAAATT-ATGG
1 ATAATTTAATAATAAATTAAT-G
* *
893490 TTAATTTAATAATAAATT-ATT
1 ATAATTTAATAATAAATTAATG
* *** *
893511 ATGATTTTGCAATAAATTATTG
1 ATAATTTAATAATAAATTAATG
* * * *
893533 AAAATTAAATAGTAAATCAATG
1 ATAATTTAATAATAAATTAATG
* *
893555 ATAATATATTAATAAATT
1 ATAATTTAATAATAAATT
893573 GTTAAATATA
Statistics
Matches: 156, Mismatches: 50, Indels: 20
0.69 0.22 0.09
Matches are distributed among these distances:
21 40 0.26
22 95 0.61
23 1 0.01
24 9 0.06
25 11 0.07
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (22 bp):
ATAATTTAATAATAAATTAATG
Found at i:893525 original size:43 final size:43
Alignment explanation
Indices: 893448--893530 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
893438 AAATAACGAG
*
893448 TAATTTAATATAAATTAGTAATAATTTGGTAATAAATTATGGT
1 TAATTTAATATAAATTAGTAATAATTTGGCAATAAATTATGGT
* * *
893491 TAATTTAATAATAAATTA-TTATGATTTTGCAATAAATTAT
1 TAATTTAAT-ATAAATTAGTAATAATTTGGCAATAAATTAT
893531 TGAAAATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 27 0.77
44 8 0.23
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.46
Consensus pattern (43 bp):
TAATTTAATATAAATTAGTAATAATTTGGCAATAAATTATGGT
Found at i:893690 original size:21 final size:20
Alignment explanation
Indices: 893661--893763 Score: 107
Period size: 20 Copynumber: 5.0 Consensus size: 20
893651 ACATTAAGAG
*
893661 ATTATTAAAATTTTATAAAAA
1 ATTACTAAAATTTTAT-AAAA
* *
893682 ATTACTAAAATTGTATGAAA
1 ATTACTAAAATTTTATAAAA
* *
893702 GTTACTAAAATTTTATCAAA
1 ATTACTAAAATTTTATAAAA
* * *
893722 ATTACCAAAATTATATTGAAA
1 ATTACTAAAATTTTA-TAAAA
*
893743 GTTACTAAAATTTTATAAAA
1 ATTACTAAAATTTTATAAAA
893763 A
1 A
893764 ATTTTTGAAA
Statistics
Matches: 66, Mismatches: 15, Indels: 3
0.79 0.18 0.04
Matches are distributed among these distances:
20 36 0.55
21 30 0.45
ACGTcount: A:0.51, C:0.06, G:0.05, T:0.38
Consensus pattern (20 bp):
ATTACTAAAATTTTATAAAA
Found at i:893714 original size:41 final size:42
Alignment explanation
Indices: 893666--893766 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 42
893656 AAGAGATTAT
* *
893666 TAAAATTTTATAAAAAATTACTAAAATTGTA-TGAAAGTTAC
1 TAAAATTTTATAAAAAATTACCAAAATTATATTGAAAGTTAC
*
893707 TAAAATTTTAT-CAAAATTACCAAAATTATATTGAAAGTTAC
1 TAAAATTTTATAAAAAATTACCAAAATTATATTGAAAGTTAC
893748 TAAAATTTTATAAAAAATT
1 TAAAATTTTATAAAAAATT
893767 TTTGAAATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
40 16 0.30
41 32 0.59
42 6 0.11
ACGTcount: A:0.51, C:0.06, G:0.05, T:0.38
Consensus pattern (42 bp):
TAAAATTTTATAAAAAATTACCAAAATTATATTGAAAGTTAC
Found at i:901598 original size:14 final size:13
Alignment explanation
Indices: 901575--901605 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
901565 GCATTTTTAA
901575 ATGATAAATTGAT
1 ATGATAAATTGAT
901588 ATGATTAAATTGAT
1 ATGA-TAAATTGAT
901602 ATGA
1 ATGA
901606 ATATCGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (13 bp):
ATGATAAATTGAT
Found at i:902165 original size:28 final size:27
Alignment explanation
Indices: 902117--902170 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
902107 TTAAATTTAT
*
902117 ATATGATTTTTATCAAAATTTTAAATG
1 ATATGATTTTTATCAAAATTTAAAATG
*
902144 ATATCGATTTTATATC-ACATTTAAAAT
1 ATAT-GATTTT-TATCAAAATTTAAAAT
902171 AAGACTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
28 15 0.65
29 4 0.17
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (27 bp):
ATATGATTTTTATCAAAATTTAAAATG
Found at i:902206 original size:21 final size:22
Alignment explanation
Indices: 902182--902223 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
902172 AGACTTCTAA
902182 ATACACC-ACAAAATTTTCTTT
1 ATACACCTACAAAATTTTCTTT
**
902203 ATACACCTTTAAAATTTTCTT
1 ATACACCTACAAAATTTTCTT
902224 CCAAAAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (22 bp):
ATACACCTACAAAATTTTCTTT
Found at i:905844 original size:93 final size:93
Alignment explanation
Indices: 905724--906095 Score: 525
Period size: 93 Copynumber: 4.0 Consensus size: 93
905714 CAATTTGGTG
905724 CTAACAATTCCTAAGCATGAATTAAGCAGAACCCACATACCAAAACGAATCAAATGGCCCAAAGA
1 CTAACAA-TCCTAAGCATGAATTAAGCAGAACCCACATACCAAAACGAATCAAATGGCCCAAAGA
*
905789 AATCATATTTTTATGGAAAACGTGAAGGA
65 AATCATATTTTTATGGAAAACATGAAGGA
* * * *
905818 CTAACAATCCTAAGCATGAATCAAGCAGAACCCATACACCAAAACGAATCAAATGACCCAAAGAA
1 CTAACAATCCTAAGCATGAATTAAGCAGAACCCACATACCAAAACGAATCAAATGGCCCAAAGAA
905883 ATCATATTTTTATGGAAAACATGAAGGA
66 ATCATATTTTTATGGAAAACATGAAGGA
* * * *
905911 CTAACAATCCTAAACATGAATAAAGCAGAA--CACATTCAACAAAATGAATCAAATGGCCCAAAG
1 CTAACAATCCTAAGCATGAATTAAGCAGAACCCACA-T-ACCAAAACGAATCAAATGGCCCAAAG
*
905974 AAATCACATTTTTATGGAAAACATGAAGGA
64 AAATCATATTTTTATGGAAAACATGAAGGA
* * ** * * *
906004 CTAACAATCCTAAGCACGCATTAATAAGAACCCATAAACCAAAACGAATCAAATGGCACAAAGAA
1 CTAACAATCCTAAGCATGAATTAAGCAGAACCCACATACCAAAACGAATCAAATGGCCCAAAGAA
*
906069 ATCAT-TTCTTTATGGAAAATATGAAGG
66 ATCATATT-TTTATGGAAAACATGAAGG
906096 TAAAGGGGCT
Statistics
Matches: 247, Mismatches: 26, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
91 3 0.01
92 2 0.01
93 232 0.94
94 7 0.03
95 3 0.01
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (93 bp):
CTAACAATCCTAAGCATGAATTAAGCAGAACCCACATACCAAAACGAATCAAATGGCCCAAAGAA
ATCATATTTTTATGGAAAACATGAAGGA
Found at i:906675 original size:28 final size:28
Alignment explanation
Indices: 906571--906677 Score: 81
Period size: 28 Copynumber: 3.6 Consensus size: 28
906561 TTTAAGTTTA
*
906571 TATTTGATTGTAAAAAATATTTTTAATTTATT
1 TATTT-ATTGTAATAAA-ATTTTT-ATTT-TT
* *
906603 AATTTATTTGTTAATGAAAATTTTATATTATT
1 TATTTA-TTG-TAAT-AAAATTTT-TATTTTT
* *
906635 T-TTAATTGAAATAAAATTTTTATTTTT
1 TATTTATTGTAATAAAATTTTTATTTTT
*
906662 TATTTATTTTAATAAA
1 TATTTATTGTAATAAA
906678 TTAATTTTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
27 7 0.12
28 19 0.32
29 3 0.05
30 3 0.05
31 4 0.07
32 9 0.15
33 11 0.18
34 4 0.07
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (28 bp):
TATTTATTGTAATAAAATTTTTATTTTT
Found at i:906701 original size:3 final size:3
Alignment explanation
Indices: 906695--906719 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
906685 TTTTAATATG
906695 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
906720 TATCATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:909030 original size:11 final size:11
Alignment explanation
Indices: 909002--909058 Score: 69
Period size: 12 Copynumber: 4.8 Consensus size: 11
908992 TTTTGTGTTA
909002 ATATAAATTAT
1 ATATAAATTAT
909013 AATATATAATTTAT
1 -ATATA-AA-TTAT
*
909027 ATATAAAATAT
1 ATATAAATTAT
909038 GATATAAATTAT
1 -ATATAAATTAT
909050 ATATAAATT
1 ATATAAATT
909059 TAACAAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
11 12 0.30
12 17 0.43
13 7 0.17
14 4 0.10
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (11 bp):
ATATAAATTAT
Found at i:909031 original size:25 final size:23
Alignment explanation
Indices: 909002--909058 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 23
908992 TTTTGTGTTA
909002 ATATAAATTATAATATATAATTTAT
1 ATATAAATTATAATATA-AA-TTAT
* *
909027 ATATAAAATATGATATAAATTAT
1 ATATAAATTATAATATAAATTAT
909050 ATATAAATT
1 ATATAAATT
909059 TAACAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 12 0.41
24 2 0.07
25 15 0.52
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
ATATAAATTATAATATAAATTAT
Found at i:909897 original size:33 final size:33
Alignment explanation
Indices: 909860--909992 Score: 119
Period size: 34 Copynumber: 3.9 Consensus size: 33
909850 CTTTTCTCAC
* ** *
909860 AATTTTTAAAAATTTTATAATTATTTGAAAATA
1 AATTTTGAAAAATCATATAATTATTTAAAAATA
*
909893 AATTTTGGAAAAATCATATAATTTTTTAAAAATA
1 AATTTT-GAAAAATCATATAATTATTTAAAAATA
*
909927 AATTTATGAAAAATCATA-AATTTTTGTAAAAATA
1 AATTT-TGAAAAATCATATAATTATT-TAAAAATA
* *
909961 GATTTT-AAGAGAATCATA-AATTTTTTCAAAAA
1 AATTTTGAA-A-AATCATATAATTATTT-AAAAA
909993 AGTTTATAAT
Statistics
Matches: 88, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
32 2 0.02
33 16 0.18
34 69 0.78
35 1 0.01
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (33 bp):
AATTTTGAAAAATCATATAATTATTTAAAAATA
Found at i:909947 original size:18 final size:17
Alignment explanation
Indices: 909890--909984 Score: 65
Period size: 18 Copynumber: 5.5 Consensus size: 17
909880 TTATTTGAAA
909890 ATAAATTTTGGAAAAATC
1 ATAAATTTT-GAAAAATC
**
909908 ATATAATTTTTTAAAA--
1 ATA-AATTTTGAAAAATC
909924 ATAAATTTATGAAAAATC
1 ATAAATTT-TGAAAAATC
*
909942 ATAAATTTTTGTAAAA--
1 ATAAA-TTTTGAAAAATC
*
909958 ATAGATTTT-AAGAGAATC
1 ATAAATTTTGAA-A-AATC
909976 ATAAATTTT
1 ATAAATTTT
909985 TTCAAAAAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
14 1 0.02
15 10 0.17
16 14 0.23
18 26 0.43
19 9 0.15
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.40
Consensus pattern (17 bp):
ATAAATTTTGAAAAATC
Found at i:909992 original size:34 final size:33
Alignment explanation
Indices: 909878--909992 Score: 128
Period size: 34 Copynumber: 3.4 Consensus size: 33
909868 AAAATTTTAT
* *
909878 AATTATTTGAAAATAAATTT-TGGAAAAATCATA
1 AATTTTTTAAAAATAAATTTAT-GAAAAATCATA
909911 TAATTTTTTAAAAATAAATTTATGAAAAATCATA
1 -AATTTTTTAAAAATAAATTTATGAAAAATCATA
*
909945 AATTTTTGTAAAAATAGATTT-T-AAGAGAATCATA
1 AATTTTT-TAAAAATAAATTTATGAA-A-AATCATA
909979 AATTTTTTCAAAAA
1 AATTTTTT-AAAAA
909993 AGTTTATAAT
Statistics
Matches: 73, Mismatches: 3, Indels: 10
0.85 0.03 0.12
Matches are distributed among these distances:
32 2 0.03
33 10 0.14
34 60 0.82
35 1 0.01
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.39
Consensus pattern (33 bp):
AATTTTTTAAAAATAAATTTATGAAAAATCATA
Found at i:910016 original size:18 final size:17
Alignment explanation
Indices: 909983--910039 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
909973 ATCATAAATT
909983 TTTTCAAAAAAGTTTATAA
1 TTTT-AAAAAA-TTTATAA
910002 TTTTATAAAAATTTAT--
1 TTTTA-AAAAATTTATAA
*
910018 TTTCAAAAAATTATATAA
1 TTTTAAAAAATT-TATAA
910036 TTTT
1 TTTT
910040 CCATAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 7 0.22
16 7 0.22
18 9 0.28
19 9 0.28
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (17 bp):
TTTTAAAAAATTTATAA
Found at i:910053 original size:34 final size:33
Alignment explanation
Indices: 909975--910053 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 33
909965 TTAAGAGAAT
909975 CATAAATT-TTTTCAAAAAAGTTTATAATTTTA
1 CATAAATTATTTTCAAAAAAGTTTATAATTTTA
* * *
910007 TAAAAATTTATTTTCAAAAAA-TTATATAATTTTC
1 CATAAA-TTATTTTCAAAAAAGTT-TATAATTTTA
910041 CATAAATATATTT
1 CATAAAT-TATTT
910054 CTGAAAAGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
32 4 0.11
33 5 0.13
34 29 0.76
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.47
Consensus pattern (33 bp):
CATAAATTATTTTCAAAAAAGTTTATAATTTTA
Found at i:910073 original size:34 final size:32
Alignment explanation
Indices: 910009--910099 Score: 85
Period size: 34 Copynumber: 2.7 Consensus size: 32
909999 TAATTTTATA
* * *
910009 AAAATTTATTTTCAAAAAATTATAT-AATTTTCC
1 AAAATATA-TTTCTAAAAATT-TATCATTTTTCC
*
910042 ATAAATATATTTCTGAAAAGATTTATCATTTTTCG
1 A-AAATATATTTCT-AAAA-ATTTATCATTTTTCC
*
910077 AAAATTTATTTCTAAAAATTTAT
1 AAAATATATTTCTAAAAATTTAT
910100 ATGAAAGAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
32 6 0.12
33 9 0.18
34 24 0.49
35 10 0.20
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (32 bp):
AAAATATATTTCTAAAAATTTATCATTTTTCC
Found at i:910319 original size:2 final size:2
Alignment explanation
Indices: 910312--910345 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
910302 TCTGTTTTCA
910312 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
910346 TTTTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:915864 original size:16 final size:18
Alignment explanation
Indices: 915843--915882 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
915833 TAAATTTCAT
915843 TTATTTA-TT-TTGTTTA
1 TTATTTATTTGTTGTTTA
915859 TTATTTATTTGTTGTTTA
1 TTATTTATTTGTTGTTTA
915877 TT-TTTA
1 TTATTTA
915883 ATAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 6 0.27
18 9 0.41
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.75
Consensus pattern (18 bp):
TTATTTATTTGTTGTTTA
Found at i:915877 original size:15 final size:15
Alignment explanation
Indices: 915842--915879 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
915832 TTAAATTTCA
915842 TTTATTTATTTTGTT
1 TTTATTTATTTTGTT
915857 TATTATTTA-TTTGTT
1 T-TTATTTATTTTGTT
915872 GTTTATTT
1 -TTTATTT
915880 TTAATAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (15 bp):
TTTATTTATTTTGTT
Found at i:915930 original size:10 final size:9
Alignment explanation
Indices: 915912--915987 Score: 50
Period size: 10 Copynumber: 8.1 Consensus size: 9
915902 ATTTTTATCT
915912 TTTATTTTAA
1 TTTA-TTTAA
915922 TTTAATTTAA
1 TTT-ATTTAA
915932 TTTATTTAAA
1 TTTATTT-AA
915942 TTTATTTATTA
1 TTTATTTA--A
915953 TTTA-TTAA
1 TTTATTTAA
** *
915961 CATGTTT-A
1 TTTATTTAA
915969 TTTATATT-A
1 TTTAT-TTAA
915978 TTTATTTAA
1 TTTATTTAA
915987 T
1 T
915988 AATCATGAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
8 7 0.13
9 17 0.32
10 23 0.43
11 6 0.11
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTATTTAA
Found at i:915937 original size:20 final size:19
Alignment explanation
Indices: 915912--915949 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
915902 ATTTTTATCT
*
915912 TTTATTTTAATTTAATTTAA
1 TTTATTTAAATTT-ATTTAA
915932 TTTATTTAAATTTATTTA
1 TTTATTTAAATTTATTTA
915950 TTATTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTATTTAAATTTATTTAA
Found at i:916710 original size:14 final size:15
Alignment explanation
Indices: 916691--916719 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
916681 AATTTTTACA
916691 ATAA-TTTTAATTTT
1 ATAATTTTTAATTTT
916705 ATAATTTTTAATTTT
1 ATAATTTTTAATTTT
916720 TTAAAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATAATTTTTAATTTT
Found at i:917199 original size:24 final size:25
Alignment explanation
Indices: 917149--917198 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
917139 TGTTCTTGTT
*
917149 ATATAATTTTTATATTATTTTTAAA
1 ATATAATTATTATATTATTTTTAAA
*
917174 ATAT-ATTATTATATTTTATTTTAAA
1 ATATAATTATTATATTAT-TTTTAAA
917199 TTATCAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
ATATAATTATTATATTATTTTTAAA
Found at i:917633 original size:42 final size:43
Alignment explanation
Indices: 917550--917652 Score: 104
Period size: 42 Copynumber: 2.4 Consensus size: 43
917540 TTTAACTTTT
* * *
917550 TATAATAAATTTATAACATTGTATATTTGTGTTATATAAAA-TA
1 TATAATAAATTTAT-ATATTGTATATTTATGTTAAATAAAATTA
*
917593 T-TAATAAATTTATATATT-TATATTATATTTTAAATAAAAATTA
1 TATAATAAATTTATATATTGTATATT-TATGTTAAAT-AAAATTA
*
917636 TATATTACAATTTATAT
1 TATAATA-AATTTATAT
917653 TTACATGAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
40 6 0.12
41 11 0.22
42 16 0.32
43 4 0.08
44 4 0.08
45 9 0.18
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.50
Consensus pattern (43 bp):
TATAATAAATTTATATATTGTATATTTATGTTAAATAAAATTA
Found at i:918517 original size:17 final size:16
Alignment explanation
Indices: 918495--918537 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
918485 AATAAATTTT
918495 TTATCTAAATTTATTAA
1 TTATCTAAATTTA-TAA
918512 TTATCT--ATTTATAA
1 TTATCTAAATTTATAA
*
918526 TTATTTAAATTT
1 TTATCTAAATTT
918538 GATATAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 8 0.35
15 5 0.22
16 4 0.17
17 6 0.26
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATCTAAATTTATAA
Found at i:918993 original size:15 final size:15
Alignment explanation
Indices: 918975--919025 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
918965 TTTTAAAATC
918975 ATAAAAATTAAAAAA
1 ATAAAAATTAAAAAA
*** *
918990 ATAACGGTTAAAAAG
1 ATAAAAATTAAAAAA
919005 ATAAAAATTAAAAAA
1 ATAAAAATTAAAAAA
*
919020 TTAAAA
1 ATAAAA
919026 TTTTTTTTAA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.22
Consensus pattern (15 bp):
ATAAAAATTAAAAAA
Found at i:919668 original size:18 final size:20
Alignment explanation
Indices: 919637--919673 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
919627 GTTGATTTGA
919637 TTTAAAATTAATAAAATATT
1 TTTAAAATTAATAAAATATT
919657 TTTAAAA-T-ATAAAATAT
1 TTTAAAATTAATAAAATAT
919674 AAATAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TTTAAAATTAATAAAATATT
Found at i:919692 original size:16 final size:17
Alignment explanation
Indices: 919661--919706 Score: 76
Period size: 16 Copynumber: 2.8 Consensus size: 17
919651 AATATTTTTA
*
919661 AAATATAAAATATAAAT
1 AAATAAAAAATATAAAT
919678 AAATAAAAAAT-TAAAT
1 AAATAAAAAATATAAAT
919694 AAATAAAAAATAT
1 AAATAAAAAATAT
919707 TTTATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 16 0.59
17 11 0.41
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATAAAAAATATAAAT
Found at i:919902 original size:15 final size:16
Alignment explanation
Indices: 919882--919912 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
919872 TAATAATCAC
919882 CCTAT-AAAAAAGAAA
1 CCTATAAAAAAAGAAA
919897 CCTATAAAAAAAGAAA
1 CCTATAAAAAAAGAAA
919913 GGATTTGAGA
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:0.68, C:0.13, G:0.06, T:0.13
Consensus pattern (16 bp):
CCTATAAAAAAAGAAA
Found at i:925150 original size:15 final size:15
Alignment explanation
Indices: 925113--925150 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
925103 AGATAAAATG
925113 ATAATA-TAAATTAA
1 ATAATATTAAATTAA
925127 ACTAA-ATTAAATTAA
1 A-TAATATTAAATTAA
925142 ATAATATTA
1 ATAATATTA
925151 TTTTATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAATATTAAATTAA
Found at i:925490 original size:10 final size:11
Alignment explanation
Indices: 925465--925495 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
925455 TGTTTGATAC
925465 ATAAAATAATG
1 ATAAAATAATG
925476 ATAAAATAA-G
1 ATAAAATAATG
925486 ATAAAATAAT
1 ATAAAATAAT
925496 ATTATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (11 bp):
ATAAAATAATG
Found at i:929274 original size:4 final size:4
Alignment explanation
Indices: 929267--929309 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
929257 TATATATATA
929267 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
929310 ATAAACTTAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:932366 original size:2 final size:2
Alignment explanation
Indices: 932359--932385 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
932349 CTCTCAATCC
932359 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
932386 AACGAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:935945 original size:20 final size:22
Alignment explanation
Indices: 935920--935960 Score: 59
Period size: 20 Copynumber: 1.9 Consensus size: 22
935910 CTAAAACACG
935920 ATAAAA-ATATGA-TTAAAAAA
1 ATAAAAGATATGATTTAAAAAA
935940 ATAAAATGATATGATTTAAAA
1 ATAAAA-GATATGATTTAAAA
935961 TTTTAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
22 6 0.33
23 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (22 bp):
ATAAAAGATATGATTTAAAAAA
Found at i:936002 original size:17 final size:19
Alignment explanation
Indices: 935957--936002 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
935947 GATATGATTT
935957 AAAATTTTAATAATAATTA
1 AAAATTTTAATAATAATTA
*
935976 AATATGTTTAATAA-AA-TA
1 AAAAT-TTTAATAATAATTA
935994 AAAATTTTA
1 AAAATTTTA
936003 TATTTTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.17
18 6 0.25
19 6 0.25
20 8 0.33
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
AAAATTTTAATAATAATTA
Found at i:936070 original size:32 final size:33
Alignment explanation
Indices: 936028--936101 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 33
936018 ATAAATTATG
936028 ATATAT-AATTTTTA-TATAAAATATAATATAA
1 ATATATAAATTTTTAGTATAAAATATAATATAA
***
936059 ATATATAAA-TTTTAGTATTTTATATAATATAA
1 ATATATAAATTTTTAGTATAAAATATAATATAA
*
936091 ATACATAAATT
1 ATATATAAATT
936102 ATAACTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 11 0.31
32 24 0.67
33 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (33 bp):
ATATATAAATTTTTAGTATAAAATATAATATAA
Found at i:936080 original size:39 final size:38
Alignment explanation
Indices: 936037--936111 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 38
936027 GATATATAAT
936037 TTTTATATAAAATATAAT-ATAAATATATAAATTTTAGTA
1 TTTTATATAAAATA-AATAATAAAT-TATAAATTTTAGTA
* *
936076 TTTTATATAATATAAATACATAAATTATAACTTTTA
1 TTTTATATAAAATAAATA-ATAAATTATAAATTTTA
936112 TTATATATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 3 0.09
39 23 0.72
40 6 0.19
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (38 bp):
TTTTATATAAAATAAATAATAAATTATAAATTTTAGTA
Found at i:936088 original size:37 final size:36
Alignment explanation
Indices: 935986--936112 Score: 97
Period size: 37 Copynumber: 3.5 Consensus size: 36
935976 AATATGTTTA
*
935986 ATAAA-ATAAAAATTTTATATTTT-TAT-AT-TAAT
1 ATAAATATATAAATTTTATATTTTATATAATATAAT
* * *
936018 ATAAAT-TATGATATATAAT-TTTTATATAAAATATAAT
1 ATAAATATAT-AAATTTTATATTTTATAT--AATATAAT
936055 ATAAATATATAAATTTTAGTATTTTATATAATATAAAT
1 ATAAATATATAAATTTTA-TATTTTATATAATAT-AAT
*
936093 ACATAAAT-TATAACTTTTAT
1 --ATAAATATATAAATTTTAT
936113 TATATATCAT
Statistics
Matches: 74, Mismatches: 8, Indels: 20
0.73 0.08 0.20
Matches are distributed among these distances:
32 11 0.15
33 9 0.12
36 2 0.03
37 20 0.27
38 8 0.11
39 18 0.24
40 6 0.08
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (36 bp):
ATAAATATATAAATTTTATATTTTATATAATATAAT
Found at i:936536 original size:16 final size:16
Alignment explanation
Indices: 936515--936545 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
936505 TATTTTAAAA
*
936515 AAATTTAATATTTAAT
1 AAATTTAAAATTTAAT
936531 AAATTTAAAATTTAA
1 AAATTTAAAATTTAA
936546 AATTTTATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTTAAAATTTAAT
Found at i:942744 original size:143 final size:143
Alignment explanation
Indices: 942529--942802 Score: 451
Period size: 143 Copynumber: 1.9 Consensus size: 143
942519 TTAATTAATT
942529 TTAAATTGGATACTTAACATGATATCAAAATTAAAATCTCTTTCTATTATCCTTTTCAAATCTAT
1 TTAAATTGGATACTTAACATGATATCAAAATTAAAATCTCTTTCTATTATCCTTTTCAAATCTAT
* *
942594 CACTTGATATTCAGATTG-GATCATTTCATTTATTGTCAATTGATTTTAAGTTGAATACTTAATA
66 CACTTGATATTCAGATTGAG-TCATTTCACTTATTGTCAATTGATTTTAAATTGAATACTTAATA
942658 TATTACTTGATATA
130 TATTACTTGATATA
* * *
942672 TTAAATTGGATACTTAACATGGTATCAAAATTAAGATTTCTTTCTATTATCCTTTTCAAATCTAT
1 TTAAATTGGATACTTAACATGATATCAAAATTAAAATCTCTTTCTATTATCCTTTTCAAATCTAT
* * * *
942737 TATTTGATATTCAGATTGAGTGATTTCACTTATTGTCAATTGATTTTAAATTGAATATTTAATAT
66 CACTTGATATTCAGATTGAGTCATTTCACTTATTGTCAATTGATTTTAAATTGAATACTTAATAT
942802 A
131 A
942803 GTATCAGAAT
Statistics
Matches: 121, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
143 120 0.99
144 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (143 bp):
TTAAATTGGATACTTAACATGATATCAAAATTAAAATCTCTTTCTATTATCCTTTTCAAATCTAT
CACTTGATATTCAGATTGAGTCATTTCACTTATTGTCAATTGATTTTAAATTGAATACTTAATAT
ATTACTTGATATA
Found at i:942877 original size:14 final size:14
Alignment explanation
Indices: 942860--942890 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
942850 GATATCAAAA
942860 TTATGATTTTTTTC
1 TTATGATTTTTTTC
*
942874 TTATTATTTTTTTC
1 TTATGATTTTTTTC
942888 TTA
1 TTA
942891 ATTTATCACG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.74
Consensus pattern (14 bp):
TTATGATTTTTTTC
Found at i:955438 original size:61 final size:61
Alignment explanation
Indices: 955363--955485 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
955353 GTTACTCGCT
*
955363 TTAAACATCTCCAAAATTTTGGATGTTATGAACTTGACCTCTTTTCACTCATAGAAATTAG
1 TTAAACATCTCCAAAATTTTGGATGGTATGAACTTGACCTCTTTTCACTCATAGAAATTAG
955424 TTAAACATCTCCAAAATTTTGGATGGTATGAACTTGACCTCTTTTCACTCATAGAAATTAG
1 TTAAACATCTCCAAAATTTTGGATGGTATGAACTTGACCTCTTTTCACTCATAGAAATTAG
955485 T
1 T
955486 GTTAATCTTC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (61 bp):
TTAAACATCTCCAAAATTTTGGATGGTATGAACTTGACCTCTTTTCACTCATAGAAATTAG
Found at i:956960 original size:2 final size:2
Alignment explanation
Indices: 956955--956989 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
956945 ATTATATATA
*
956955 TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
956990 TGAGGATGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:959111 original size:19 final size:19
Alignment explanation
Indices: 959087--959126 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
959077 ATTTAAATAT
*
959087 TTATTTAAGTTT-AATATCA
1 TTATTTAAATTTGAAT-TCA
959106 TTATTTAAATTTGAATTCA
1 TTATTTAAATTTGAATTCA
959125 TT
1 TT
959127 TAAATAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (19 bp):
TTATTTAAATTTGAATTCA
Found at i:959169 original size:37 final size:32
Alignment explanation
Indices: 959107--959186 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 32
959097 TTAATATCAT
*
959107 TATTTAAATTTGAATTCATTTAAATAAGTATTATC
1 TATTTAAATTTGAATTCATTAAAAT-A-T-TTATC
*
959142 TATTTAAATATTCGAATTCATTAAAATATTTATT
1 TATTTAAAT-TT-GAATTCATTAAAATATTTATC
959176 TATTTAAATTT
1 TATTTAAATTT
959187 TTTATCAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 2 0.05
34 13 0.32
35 10 0.24
36 3 0.07
37 13 0.32
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (32 bp):
TATTTAAATTTGAATTCATTAAAATATTTATC
Found at i:981597 original size:89 final size:89
Alignment explanation
Indices: 981454--981634 Score: 335
Period size: 89 Copynumber: 2.0 Consensus size: 89
981444 AGATTATCAA
*
981454 ACTAAAAATAAAATACTTTATTTATAAAGGTGAAAACTCTTATACTTTTACTAAACTCTCGATGT
1 ACTAAAAATAAAATACTTTATTTATAAAGGTGAAAACCCTTATACTTTTACTAAACTCTCGATGT
981519 GAGATACTAGACAAATTCAAACTC
66 GAGATACTAGACAAATTCAAACTC
* *
981543 ACTAAAAATAAAATACTTTATTTATAAGGGTGAAAACCCTTATACTTTTACTAAACTCTCGATTT
1 ACTAAAAATAAAATACTTTATTTATAAAGGTGAAAACCCTTATACTTTTACTAAACTCTCGATGT
981608 GAGATACTAGACAAATTCAAACTC
66 GAGATACTAGACAAATTCAAACTC
981632 ACT
1 ACT
981635 TAACTTTCGA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.33
Consensus pattern (89 bp):
ACTAAAAATAAAATACTTTATTTATAAAGGTGAAAACCCTTATACTTTTACTAAACTCTCGATGT
GAGATACTAGACAAATTCAAACTC
Found at i:982877 original size:79 final size:79
Alignment explanation
Indices: 982746--982903 Score: 280
Period size: 79 Copynumber: 2.0 Consensus size: 79
982736 GACTTCGAAG
* *
982746 CATAAATACCTTCAAGCTTATCCCATAAACTTTTCGGAGTACTCTCAGTCAACATACTGTACTTT
1 CATAAATACCTTCAAGCTTATCCCATAAACTTTTCAGAGTACTCTCAGTCAACACACTGTACTTT
*
982811 ATTTCTGGAGCTAA
66 ACTTCTGGAGCTAA
*
982825 CATAAATACCTTCAAGCTTATCCCATAAACTTTTCAGAGTACTCTCAGTCAACACATTGTACTTT
1 CATAAATACCTTCAAGCTTATCCCATAAACTTTTCAGAGTACTCTCAGTCAACACACTGTACTTT
982890 ACTTCTGGAGCTAA
66 ACTTCTGGAGCTAA
982904 TGCCAATCTA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.34
Consensus pattern (79 bp):
CATAAATACCTTCAAGCTTATCCCATAAACTTTTCAGAGTACTCTCAGTCAACACACTGTACTTT
ACTTCTGGAGCTAA
Found at i:991455 original size:19 final size:21
Alignment explanation
Indices: 991412--991455 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
991402 ATAGTCACCG
* *
991412 AATTATTAAAATTTTTAATTT
1 AATTACTAAAATTTTGAATTT
991433 AATTACTAAAA-TTTGAA-TT
1 AATTACTAAAATTTTGAATTT
991452 AATT
1 AATT
991456 TTTTTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 5 0.24
21 10 0.48
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
AATTACTAAAATTTTGAATTT
Found at i:992939 original size:16 final size:17
Alignment explanation
Indices: 992906--992939 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
992896 TTTATATATA
992906 ATTAAAATATAATTTAT
1 ATTAAAATATAATTTAT
*
992923 ATTAAAA-ATATTTTAT
1 ATTAAAATATAATTTAT
992939 A
1 A
992940 AATATTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAAAATATAATTTAT
Found at i:993538 original size:8 final size:8
Alignment explanation
Indices: 993525--993565 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
993515 TATATGTTTC
993525 AAAATTTT
1 AAAATTTT
993533 AAAATTTT
1 AAAATTTT
*
993541 AAAA-TTC
1 AAAATTTT
993548 AAAATTTAT
1 AAAATTT-T
993557 AAAATTTT
1 AAAATTTT
993565 A
1 A
993566 TTTTTAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 6 0.21
8 16 0.55
9 7 0.24
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (8 bp):
AAAATTTT
Found at i:993546 original size:16 final size:17
Alignment explanation
Indices: 993525--993565 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
993515 TATATGTTTC
993525 AAAATTTTAAAATTT-T
1 AAAATTTTAAAATTTAT
*
993541 AAAA-TTCAAAATTTAT
1 AAAATTTTAAAATTTAT
993557 AAAATTTTA
1 AAAATTTTA
993566 TTTTTAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 9 0.43
16 9 0.43
17 3 0.14
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATTTTAAAATTTAT
Found at i:993571 original size:16 final size:16
Alignment explanation
Indices: 993525--993587 Score: 51
Period size: 16 Copynumber: 4.0 Consensus size: 16
993515 TATATGTTTC
*
993525 AAAATTTTAAAATTT-T
1 AAAATTTT-AATTTTAT
** *
993541 AAAATTCAAAATTTAT
1 AAAATTTTAATTTTAT
993557 AAAATTTT-ATTTT-T
1 AAAATTTTAATTTTAT
993571 AAAAGTTTTAATTTTAT
1 AAAA-TTTTAATTTTAT
993588 TATTTTTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 5 0.13
15 14 0.37
16 18 0.47
17 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
AAAATTTTAATTTTAT
Found at i:993585 original size:15 final size:14
Alignment explanation
Indices: 993511--993586 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 14
993501 ATATATTTAT
993511 ATTTTATATGTTTCAAA
1 ATTTTA-AT-TTT-AAA
993528 ATTTTAAAATTTTAAA
1 ATTTT--AATTTTAAA
**
993544 ATTCAAAATTTATAAA
1 ATT-TTAATTT-TAAA
*
993560 ATTTTATTTTTAAA
1 ATTTTAATTTTAAA
993574 AGTTTTAATTTTA
1 A-TTTTAATTTTA
993587 TTATTTTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
14 5 0.10
15 19 0.40
16 13 0.27
17 8 0.17
18 2 0.04
19 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (14 bp):
ATTTTAATTTTAAA
Found at i:996793 original size:3 final size:3
Alignment explanation
Indices: 996785--996824 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
996775 GATTATGTTG
996785 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
996825 GATATTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1000955 original size:20 final size:21
Alignment explanation
Indices: 1000919--1000976 Score: 91
Period size: 20 Copynumber: 2.8 Consensus size: 21
1000909 TGTAGAGAGT
*
1000919 ATTTTATTTTACATTCTATTA
1 ATTTTATTATACATTCTATTA
1000940 ATTTTATTAT-CATTCTATTA
1 ATTTTATTATACATTCTATTA
*
1000960 ATTTTATTTTACATTCT
1 ATTTTATTATACATTCT
1000977 CATACTTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 19 0.56
21 15 0.44
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTATTATACATTCTATTA
Found at i:1006190 original size:3 final size:3
Alignment explanation
Indices: 1006184--1006235 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
1006174 GATGATGATG
1006184 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1006232 ATA A
1 ATA A
1006236 GATATTATTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1006773 original size:19 final size:21
Alignment explanation
Indices: 1006737--1006776 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
1006727 ATTATTAGTA
1006737 ATTATAAAAGTATAATAAAATT
1 ATTATAAAAG-ATAATAAAATT
1006759 ATTATAAAA-AT-ATAAAAT
1 ATTATAAAAGATAATAAAAT
1006777 CAATGATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
22 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
ATTATAAAAGATAATAAAATT
Found at i:1008827 original size:79 final size:79
Alignment explanation
Indices: 1008696--1008854 Score: 282
Period size: 79 Copynumber: 2.0 Consensus size: 79
1008686 GACTTCGAAG
* *
1008696 CATAAATACCTTCAAGCTTATCCCATAAACTTTTCGGAGTACTCTCAGTCAACATACTGTACTTT
1 CATAAATACCTTCAAGCTTATCCCATAAACTTTTCGAAGTACTCTCAGTCAACACACTGTACTTT
* *
1008761 ATTTTTGGAGCTAA
66 ACTTCTGGAGCTAA
1008775 CATAAATACCTTCAAGCTTATCCCATAAACTTTTCGAAGTACTCTCAGTCAACACACTGTACTTT
1 CATAAATACCTTCAAGCTTATCCCATAAACTTTTCGAAGTACTCTCAGTCAACACACTGTACTTT
1008840 ACTTCTGGAGCTAA
66 ACTTCTGGAGCTAA
1008854 C
1 C
1008855 GCCAATCTAA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (79 bp):
CATAAATACCTTCAAGCTTATCCCATAAACTTTTCGAAGTACTCTCAGTCAACACACTGTACTTT
ACTTCTGGAGCTAA
Found at i:1015623 original size:4 final size:4
Alignment explanation
Indices: 1015614--1015639 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1015604 TTTTCATTTA
1015614 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
1015640 GATAGAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:1018343 original size:17 final size:18
Alignment explanation
Indices: 1018303--1018343 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
1018293 TTGCCTTTTC
*
1018303 ATTTTTTTATTTAGTAAT
1 ATTTTTTTATATAGTAAT
1018321 -TCTTTTTTATATA-TAAT
1 AT-TTTTTTATATAGTAAT
1018338 ATTTTT
1 ATTTTT
1018344 ATAATTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (18 bp):
ATTTTTTTATATAGTAAT
Found at i:1018943 original size:16 final size:17
Alignment explanation
Indices: 1018910--1018943 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1018900 TTTATATATA
1018910 ATTAAAATATAATTTAT
1 ATTAAAATATAATTTAT
*
1018927 ATTAAAA-ATATTTTAT
1 ATTAAAATATAATTTAT
1018943 A
1 A
1018944 AATATTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAAAATATAATTTAT
Found at i:1019533 original size:15 final size:16
Alignment explanation
Indices: 1019513--1019545 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1019503 TTTTATATGT
1019513 TTCAAAATTT-TAAAA
1 TTCAAAATTTATAAAA
*
1019528 TTCAAAGTTTATAAAA
1 TTCAAAATTTATAAAA
1019544 TT
1 TT
1019546 TTATTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (16 bp):
TTCAAAATTTATAAAA
Found at i:1019554 original size:16 final size:17
Alignment explanation
Indices: 1019535--1019571 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1019525 AAATTCAAAG
*
1019535 TTTATAAAA-TTTTATT
1 TTTATAAAAGTTTTAAT
1019551 TTTA-AAAAGTTTTAAT
1 TTTATAAAAGTTTTAAT
1019567 TTTAT
1 TTTAT
1019572 TATTTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTATAAAAGTTTTAAT
Found at i:1021979 original size:22 final size:23
Alignment explanation
Indices: 1021937--1021989 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
1021927 AATTTATTTG
1021937 TTTTTATATATTATTCTAATATGA
1 TTTTTATATATTATTCTAATA-GA
1021961 TTTTTA-ATA-TATT-TAAATAGA
1 TTTTTATATATTATTCT-AATAGA
1021982 TTTATTAT
1 TTT-TTAT
1021990 TTTTATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
21 6 0.23
22 11 0.42
23 3 0.12
24 6 0.23
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTTTATATATTATTCTAATAGA
Found at i:1032031 original size:57 final size:57
Alignment explanation
Indices: 1031912--1032040 Score: 154
Period size: 57 Copynumber: 2.3 Consensus size: 57
1031902 TATAAGATTT
* * * * *
1031912 TTTTTTTGTTATTTAAGAATAAAAGACATTATAGTAATTTGACATTTATAAGAAAAG
1 TTTTTTTGTCATTTAAGAATAAAAGAAATTATAGTAATGTGACATTCAAAAGAAAAG
**
1031969 TTTTTTTGTCATTTAAGAAATAAAA-AAATTATAGTAATGT-ACATTCAAAAGAAGGG
1 TTTTTTTGTCATTTAAG-AATAAAAGAAATTATAGTAATGTGACATTCAAAAGAAAAG
* *
1032025 TGTTTTTGTCAATTAA
1 TTTTTTTGTCATTTAA
1032041 ATAGGAGGGC
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
56 26 0.42
57 29 0.47
58 7 0.11
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (57 bp):
TTTTTTTGTCATTTAAGAATAAAAGAAATTATAGTAATGTGACATTCAAAAGAAAAG
Found at i:1032193 original size:4 final size:4
Alignment explanation
Indices: 1032184--1032209 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1032174 TATTTTTTAC
1032184 ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT AT
1032210 AAAATGATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:1035505 original size:27 final size:28
Alignment explanation
Indices: 1035475--1035547 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 28
1035465 TTGGTTTTGG
*
1035475 GAAGAAAAGAAAAGAAAAG-GAGGAAAA
1 GAAGAAAAGAAAAGAAAAGAAAGGAAAA
* *
1035502 GAAGAAAAGTATAAGAAATGAAAGGAAAA
1 GAAGAAAAG-AAAAGAAAAGAAAGGAAAA
* *
1035531 -AAAAAAAGAGAAGAAAA
1 GAAGAAAAGAAAAGAAAA
1035548 AAGTGGGGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
27 16 0.42
28 15 0.39
29 7 0.18
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (28 bp):
GAAGAAAAGAAAAGAAAAGAAAGGAAAA
Found at i:1035746 original size:20 final size:20
Alignment explanation
Indices: 1035729--1035766 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1035719 ATAAAAAATT
*
1035729 TGCAAAGGTAAAAAAAAACC
1 TGCAAAAGTAAAAAAAAACC
*
1035749 TGGAAAAGTAAAAAAAAA
1 TGCAAAAGTAAAAAAAAA
1035767 AAAAATTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.08, G:0.16, T:0.11
Consensus pattern (20 bp):
TGCAAAAGTAAAAAAAAACC
Found at i:1044648 original size:11 final size:11
Alignment explanation
Indices: 1044634--1044658 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1044624 TATTTATAAA
1044634 ATTAAAAAATT
1 ATTAAAAAATT
1044645 ATTAAAAAATT
1 ATTAAAAAATT
1044656 ATT
1 ATT
1044659 TTTTATGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTAAAAAATT
Found at i:1045436 original size:2 final size:2
Alignment explanation
Indices: 1045431--1045458 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1045421 CACACACACA
1045431 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1045459 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1045463 original size:2 final size:2
Alignment explanation
Indices: 1045458--1045486 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1045448 TCTCTCTCTC
1045458 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1045487 GACGGTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1046852 original size:111 final size:111
Alignment explanation
Indices: 1046654--1046868 Score: 349
Period size: 111 Copynumber: 1.9 Consensus size: 111
1046644 ATATTCTAAA
* * *
1046654 ATTACAAACTTGCACAAATTTTAAGTTCAGTTTCTCTGATTTCCACGCCTTTGAGATCATACACT
1 ATTACAAACTCGCACAAAGTATAAGTTCAGTTTCTCTGATTTCCACGCCTTTGAGATCATACACT
** * *
1046719 AAAGTCTTCTTTTGTTAATTGCTCTAATTTTTGAATTACGTGGGTT
66 AAAGTCTTCTTGCGGTAATTGCTCTAACTTTTGAATTACGTGGGTT
1046765 ATTACAAACTCGCACAAAGTATAAGTTCAGTTTCTCTGATTTCCACGCCTTTGAGATCATACACT
1 ATTACAAACTCGCACAAAGTATAAGTTCAGTTTCTCTGATTTCCACGCCTTTGAGATCATACACT
* *
1046830 AAAGTTTTCTTGCGGTAGTTGCTCTAACTTTTGAATTAC
66 AAAGTCTTCTTGCGGTAATTGCTCTAACTTTTGAATTAC
1046869 ATCGGTTACT
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
111 95 1.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.40
Consensus pattern (111 bp):
ATTACAAACTCGCACAAAGTATAAGTTCAGTTTCTCTGATTTCCACGCCTTTGAGATCATACACT
AAAGTCTTCTTGCGGTAATTGCTCTAACTTTTGAATTACGTGGGTT
Found at i:1056891 original size:20 final size:20
Alignment explanation
Indices: 1056855--1056893 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1056845 GGTGATCATT
1056855 GTCAAAAACCTACTCTTGAGA
1 GTCAAAAACCTA-TCTTGAGA
1056876 GTCAAAAACGCT-TCTTGA
1 GTCAAAAAC-CTATCTTGA
1056894 AGGTGGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 9 0.53
22 2 0.12
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (20 bp):
GTCAAAAACCTATCTTGAGA
Found at i:1061507 original size:12 final size:12
Alignment explanation
Indices: 1061489--1061518 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1061479 TTTTAAAATG
1061489 ATTTAATAAAAA
1 ATTTAATAAAAA
*
1061501 TTTTAATAAAAA
1 ATTTAATAAAAA
1061513 ATTTAA
1 ATTTAA
1061519 ATCAATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTTAATAAAAA
Done.