Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000964.1 Hibiscus syriacus cultivar Beakdansim tig00001926_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: 88883
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Found at i:954 original size:3 final size:3
Alignment explanation
Indices: 946--1033 Score: 76
Period size: 3 Copynumber: 30.0 Consensus size: 3
936 AAGTTTTATT
* * * *
946 TAA TAA TAA TAA TATA TAT TAA TAA TAC T-A TTA TAA TAA TAA TAT
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
991 TTA TAA TAA TAA T-A TAA TAA TAA -AA TAA TCAA -AA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
1034 AAAATGAGAT
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
2 7 0.10
3 56 0.82
4 5 0.07
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:996 original size:26 final size:26
Alignment explanation
Indices: 946--1013 Score: 91
Period size: 26 Copynumber: 2.5 Consensus size: 26
936 AAGTTTTATT
*
946 TAATAATAATAATATATATTAATAATAC
1 TAAT-ATAATAATA-ATATTAATAATAA
* *
974 TATTATAATAATAATATTTATAATAA
1 TAATATAATAATAATATTAATAATAA
1000 TAATATAATAATAA
1 TAATATAATAATAA
1014 AATAATCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 24 0.67
27 9 0.25
28 3 0.08
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (26 bp):
TAATATAATAATAATATTAATAATAA
Found at i:1013 original size:11 final size:11
Alignment explanation
Indices: 948--1019 Score: 60
Period size: 11 Copynumber: 6.5 Consensus size: 11
938 GTTTTATTTA
948 ATAATAATAAT
1 ATAATAATAAT
959 ATATATTAATAAT
1 ATA-A-TAATAAT
*
972 ACT-ATTAT-A-
1 A-TAATAATAAT
*
981 ATAATAATATTT
1 ATAATAATA-AT
993 ATAATAATAAT
1 ATAATAATAAT
*
1004 ATAATAATAAA
1 ATAATAATAAT
1015 ATAAT
1 ATAAT
1020 CAAAATAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
8 1 0.02
9 5 0.10
10 1 0.02
11 22 0.45
12 11 0.22
13 8 0.16
14 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:4434 original size:16 final size:17
Alignment explanation
Indices: 4413--4445 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4403 ATGATGGATT
*
4413 CTTCGATTTCT-TCATC
1 CTTCGATCTCTGTCATC
4429 CTTCGATCTCTGTCATC
1 CTTCGATCTCTGTCATC
4446 AACCGTCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.12, C:0.33, G:0.09, T:0.45
Consensus pattern (17 bp):
CTTCGATCTCTGTCATC
Found at i:5268 original size:44 final size:45
Alignment explanation
Indices: 5188--5310 Score: 133
Period size: 44 Copynumber: 2.7 Consensus size: 45
5178 GGTAATACGT
* * * *
5188 TACCTAAAACATTATTTGTTCTATCG-GAATAGTAATATTAGGCGC
1 TACCTAAAACATTATTT-TTTTACCGAAAATAGTAATATTAGACGC
* *
5233 TACCT-AAACATTATTTTTTTACCGAAAATATTAATATTATACGC
1 TACCTAAAACATTATTTTTTTACCGAAAATAGTAATATTAGACGC
* * *
5277 TATCTAAAATATTATTTTTTTACCAGAAATTAGT
1 TACCTAAAACATTATTTTTTTACC-GAAAATAGT
5311 TAAGAAAATT
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
43 6 0.09
44 30 0.46
45 22 0.34
46 7 0.11
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.41
Consensus pattern (45 bp):
TACCTAAAACATTATTTTTTTACCGAAAATAGTAATATTAGACGC
Found at i:5737 original size:26 final size:26
Alignment explanation
Indices: 5708--5758 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
5698 TTTTAAATTT
** *
5708 TTATATATTTTAAATATTTTTTTATG
1 TTATATATTAAAAATATATTTTTATG
*
5734 TTATTTATTAAAAATATATTTTTAT
1 TTATATATTAAAAATATATTTTTAT
5759 CCTCCTAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (26 bp):
TTATATATTAAAAATATATTTTTATG
Found at i:6304 original size:19 final size:19
Alignment explanation
Indices: 6277--6315 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
6267 GAAAATAGAA
*
6277 ATAATATATTATTTTAATT
1 ATAAAATATTATTTTAATT
6296 ATAAAATATTATTTTAATT
1 ATAAAATATTATTTTAATT
6315 A
1 A
6316 AATTTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATAAAATATTATTTTAATT
Found at i:8364 original size:20 final size:20
Alignment explanation
Indices: 8335--8380 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
8325 ATATGTTGGT
*
8335 TTCCCCATTATTTGGAGATC
1 TTCCCTATTATTTGGAGATC
8355 TTCCCTATTATTTGGAGATC
1 TTCCCTATTATTTGGAGATC
8375 TTCCCT
1 TTCCCT
8381 GTTAGGATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.17, C:0.26, G:0.13, T:0.43
Consensus pattern (20 bp):
TTCCCTATTATTTGGAGATC
Found at i:10500 original size:19 final size:19
Alignment explanation
Indices: 10472--10513 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
10462 TTTTTTTTTG
10472 GAAAAAGATAAATCTCAAT
1 GAAAAAGATAAATCTCAAT
*
10491 GAAAATGATAAATCTCAAT
1 GAAAAAGATAAATCTCAAT
10510 GAAA
1 GAAA
10514 TGAAGTAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.21
Consensus pattern (19 bp):
GAAAAAGATAAATCTCAAT
Found at i:11393 original size:11 final size:11
Alignment explanation
Indices: 11377--11439 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
11367 AAAATTACAT
11377 TATTAAAAATA
1 TATTAAAAATA
11388 TATTAAAAATA
1 TATTAAAAATA
* ***
11399 CATTATTGATA
1 TATTAAAAATA
11410 -ATTATAAAAT-
1 TATTA-AAAATA
11420 T-TTAAAAATA
1 TATTAAAAATA
11430 TATTAAAAAT
1 TATTAAAAAT
11440 TCTATAATAC
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
9 5 0.12
10 8 0.20
11 28 0.68
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:11587 original size:28 final size:28
Alignment explanation
Indices: 11551--11624 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
11541 TAATTAATCC
11551 TAAACCTTAAAACCTAAACCATAAACTA
1 TAAACCTTAAAACCTAAACCATAAACTA
* * * * *
11579 TAAATCTTAAACCCTAAATCTTAAACTT
1 TAAACCTTAAAACCTAAACCATAAACTA
* * *
11607 TAATCCCTAAACCCTAAA
1 TAAACCTTAAAACCTAAA
11625 TTCGATTATG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (28 bp):
TAAACCTTAAAACCTAAACCATAAACTA
Found at i:11603 original size:21 final size:19
Alignment explanation
Indices: 11549--11618 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 19
11539 TGTAATTAAT
*
11549 CCTAAACCTTAAAACCTAAAC
1 CCTAAA-CTT-AAACTTAAAC
*
11570 CATAAACTATAAATCTTAAAC
1 CCTAAACT-TAAA-CTTAAAC
*
11591 CCTAAATCTTAAACTTTAATC
1 CCTAAA-CTTAAAC-TTAAAC
11612 CCTAAAC
1 CCTAAAC
11619 CCTAAATTCG
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
20 7 0.17
21 32 0.78
22 2 0.05
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (19 bp):
CCTAAACTTAAACTTAAAC
Found at i:11604 original size:14 final size:14
Alignment explanation
Indices: 11549--11624 Score: 62
Period size: 14 Copynumber: 5.4 Consensus size: 14
11539 TGTAATTAAT
*
11549 CCTAAACCTTAAAA
1 CCTAAACCTTAAAC
*
11563 CCTAAACCATAAAC
1 CCTAAACCTTAAAC
** *
11577 TATAAATCTTAAAC
1 CCTAAACCTTAAAC
*
11591 CCTAAATCTTAAAC
1 CCTAAACCTTAAAC
** * *
11605 TTTAATCCCTAAAC
1 CCTAAACCTTAAAC
11619 CCTAAA
1 CCTAAA
11625 TTCGATTATG
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 46 1.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (14 bp):
CCTAAACCTTAAAC
Found at i:11624 original size:21 final size:21
Alignment explanation
Indices: 11585--11624 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11575 ACTATAAATC
* *
11585 TTAAACCCTAAATCTTAAACT
1 TTAAACCCTAAACCCTAAACT
*
11606 TTAATCCCTAAACCCTAAA
1 TTAAACCCTAAACCCTAAA
11625 TTCGATTATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (21 bp):
TTAAACCCTAAACCCTAAACT
Found at i:18442 original size:3 final size:3
Alignment explanation
Indices: 18436--18466 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
18426 ACATTATTAA
18436 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
18467 ACACAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:20227 original size:19 final size:19
Alignment explanation
Indices: 20190--20227 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
20180 CAAATATAAA
* *
20190 ATTAAAATATGATTCATTT
1 ATTAAAATATAATTAATTT
20209 ATTAAAATATAATTAATTT
1 ATTAAAATATAATTAATTT
20228 GCTTCGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (19 bp):
ATTAAAATATAATTAATTT
Found at i:20472 original size:2 final size:2
Alignment explanation
Indices: 20465--20490 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20455 TAATAAAATA
20465 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
20491 TAATGAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22931 original size:117 final size:110
Alignment explanation
Indices: 22717--23008 Score: 358
Period size: 117 Copynumber: 2.6 Consensus size: 110
22707 AAGCGTTGGA
* **
22717 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTCTTGTTGGATGAAATCTTCTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTC-C-T-TTAGATGAGTTCTTCTCATTATGAAC
* *
22782 TCTTCACTGAAAATGTTGATCCACCTCCTTCTGTGATGGAATCGAACCAAGG
63 TCTCCACTAAAAATGTTGATCCACCTCCTTCTGTGATGGAATCG-A--AA-G
22834 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATTAGATGAGTTCTTCTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCT--TTAGATGAGTTCTTCTCATTATGAAC
* * * *
22899 TCTCCACTAAAAATGTTGATCCATCTCTTTCTGTGATGGACTTGAAAG
63 TCTCCACTAAAAATGTTGATCCACCTCCTTCTGTGATGGAATCGAAAG
* *
22947 --GAACAAGTTCTTCTCATTATGAAC-T-TTCTCCTTTAGGACGAGTTATTCTCATTATGAACTC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTTA-GATGAGTTCTTCTCATTATGAACTC
23008 T
65 T
23009 TTTGAAAATG
Statistics
Matches: 160, Mismatches: 12, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
106 3 0.02
107 24 0.15
108 4 0.03
109 3 0.02
110 1 0.01
111 24 0.15
113 1 0.01
114 2 0.01
116 2 0.01
117 94 0.59
118 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.39
Consensus pattern (110 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTTAGATGAGTTCTTCTCATTATGAACTCT
CCACTAAAAATGTTGATCCACCTCCTTCTGTGATGGAATCGAAAG
Found at i:24030 original size:9 final size:9
Alignment explanation
Indices: 24018--24100 Score: 77
Period size: 9 Copynumber: 9.7 Consensus size: 9
24008 CATTTTTCTC
24018 TTTTTCATT
1 TTTTTCATT
*
24027 TTTTT-TTAT
1 TTTTTCAT-T
24036 TTTTTCATT
1 TTTTTCATT
*
24045 TTTTTCATC
1 TTTTTCATT
24054 TTTTT-A-T
1 TTTTTCATT
*
24061 TTGTTCATT
1 TTTTTCATT
*
24070 TTTTTCATC
1 TTTTTCATT
24079 TTTTT-A-T
1 TTTTTCATT
*
24086 TTGTTCATT
1 TTTTTCATT
24095 TTTTTC
1 TTTTTC
24101 TTTATGTATA
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
7 8 0.14
8 5 0.09
9 44 0.76
10 1 0.02
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.76
Consensus pattern (9 bp):
TTTTTCATT
Found at i:24099 original size:16 final size:16
Alignment explanation
Indices: 24027--24099 Score: 76
Period size: 16 Copynumber: 4.4 Consensus size: 16
24017 CTTTTTCATT
24027 TTTTTTTATTTTTTCA
1 TTTTTTTATTTTTTCA
24043 TTTTTTTCATCTTTTT-A
1 TTTTTTT-AT-TTTTTCA
* *
24060 TTTGTTCATTTTTTTCA
1 TTTTTTTA-TTTTTTCA
* *
24077 TCTTTTTATTTGTTCA
1 TTTTTTTATTTTTTCA
24093 TTTTTTT
1 TTTTTTT
24100 CTTTATGTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
16 26 0.57
17 15 0.33
18 5 0.11
ACGTcount: A:0.11, C:0.10, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTTTTATTTTTTCA
Found at i:24100 original size:25 final size:25
Alignment explanation
Indices: 24029--24100 Score: 135
Period size: 25 Copynumber: 2.9 Consensus size: 25
24019 TTTTCATTTT
*
24029 TTTTTATTTTTTCATTTTTTTCATC
1 TTTTTATTTGTTCATTTTTTTCATC
24054 TTTTTATTTGTTCATTTTTTTCATC
1 TTTTTATTTGTTCATTTTTTTCATC
24079 TTTTTATTTGTTCATTTTTTTC
1 TTTTTATTTGTTCATTTTTTTC
24101 TTTATGTATA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.75
Consensus pattern (25 bp):
TTTTTATTTGTTCATTTTTTTCATC
Found at i:35223 original size:19 final size:19
Alignment explanation
Indices: 35186--35223 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
35176 CAAATATAAA
* *
35186 ATTAAAATATGATTCATTT
1 ATTAAAATATAATTAATTT
35205 ATTAAAATATAATTAATTT
1 ATTAAAATATAATTAATTT
35224 TTTTCGTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (19 bp):
ATTAAAATATAATTAATTT
Found at i:37500 original size:3 final size:3
Alignment explanation
Indices: 37492--37525 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
37482 TAAACACACT
*
37492 TAA TAA TAA TAA TAA TAA TAA TAA T-T TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
37526 TTTTTTAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 1 0.04
3 27 0.96
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:40318 original size:63 final size:63
Alignment explanation
Indices: 40146--40318 Score: 213
Period size: 63 Copynumber: 2.7 Consensus size: 63
40136 CCATCGTTGC
* * * *
40146 GATCAACATTTTTGCAGT-TGCATTTGCATCTTCTCATTTTGCATGGTGCATTGCATTTCAAAG
1 GATCATCAATTTTGCA-TCTGCATTTGCATCTTCACATTTTGCATGATGCATTGCATTTCAAAG
* * * * *
40209 GATCATCAATTTTACATCTGCATTTGCATTTTCGCATTTTACATGATGTATTGCATTTCAAAG
1 GATCATCAATTTTGCATCTGCATTTGCATCTTCACATTTTGCATGATGCATTGCATTTCAAAG
** * *
40272 GATCATCCCTTTTGCATCTGCATTTGCATCTTCACATTATGTATGAT
1 GATCATCAATTTTGCATCTGCATTTGCATCTTCACATTTTGCATGAT
40319 CATCATGAAT
Statistics
Matches: 93, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
62 1 0.01
63 92 0.99
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (63 bp):
GATCATCAATTTTGCATCTGCATTTGCATCTTCACATTTTGCATGATGCATTGCATTTCAAAG
Found at i:42406 original size:40 final size:40
Alignment explanation
Indices: 42362--42439 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
42352 AGCTTCAAAC
42362 TATGAGATTGATCAAGCACAATTATTCCAGAATCACTTCA
1 TATGAGATTGATCAAGCACAATTATTCCAGAATCACTTCA
42402 TATGAGATTGATCAAGCACAATTATTCCAGAATCACTT
1 TATGAGATTGATCAAGCACAATTATTCCAGAATCACTT
42440 TACTCGAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (40 bp):
TATGAGATTGATCAAGCACAATTATTCCAGAATCACTTCA
Found at i:43840 original size:76 final size:76
Alignment explanation
Indices: 43728--43890 Score: 179
Period size: 76 Copynumber: 2.1 Consensus size: 76
43718 ATCTCAGTTG
* * * * *
43728 AGATTATTTTTCTTAAAATAGAATTTATCTCACTTGAGACAG-TTTTTACTCGAAACAAGAAGAT
1 AGATTGTTTTTCTTAAAACAGAATTTATCCCACTTGAGA-AGATTTTTACTCAAAACAAG-ACAT
43792 TT-ACTTCACTCA
64 TTCACTTCACTCA
* * * *
43804 AGATTGTTTTTCTTAAAACA-ATATTTGTCCCGCTTGAGATGATTTTTACTCAAAATAAGACATT
1 AGATTGTTTTTCTTAAAACAGA-ATTTATCCCACTTGAGAAGATTTTTACTCAAAACAAGACATT
* *
43868 TCATTTCACTTA
65 TCACTTCACTCA
43880 AGATTGTTTTT
1 AGATTGTTTTT
43891 AAATAAGATT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
75 7 0.10
76 66 0.90
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.42
Consensus pattern (76 bp):
AGATTGTTTTTCTTAAAACAGAATTTATCCCACTTGAGAAGATTTTTACTCAAAACAAGACATTT
CACTTCACTCA
Found at i:43940 original size:39 final size:39
Alignment explanation
Indices: 43895--44917 Score: 1685
Period size: 39 Copynumber: 26.3 Consensus size: 39
43885 GTTTTTAAAT
** *
43895 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTAAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
*
43934 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAA-AA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* *
43972 GAAGATTTTATCTTGCTTGAGATTGTTTCCCTCGAAACAA
1 -AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
44012 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
*
44051 AAGATTTTATCTCTCTTGAGATAG-TTCCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
44089 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
*
44128 AAGATTTTATCTCGCTTGAGACAGTTTCCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* *
44167 AAGATTTTATCTCGCTTGAGACAGTTTCCCTTGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* * *
44206 AAGATTTTATCTCGCTTGAGACATTTTTCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
*
44245 AAGATTTTATCTCGCTTGAGACAGTTTCCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
*
44284 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* *
44323 AAGATTTTGTCTCGCTTGAGATAGATTCCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
44362 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
44401 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
*
44440 AATATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
44479 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
*
44518 AAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
*
44557 AAGATTTTATCTCCCTTGAGATAGTTTCCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
*
44596 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
*
44635 AATATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* *
44674 AAGATTTTATCTCGCTTTAGATAGTTTGCCTC-AATACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAA-ACAA
*
44713 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
*
44752 AAGATTTTATCTCGCTTGAGTTAGTTTCCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* * *
44791 AAGATTTTGTCTCGCTTGAGATGGTTTCCCTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* * *
44830 AAGATTTTGTCTCGCTTGAGATGGTTTCCCTC-ATAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGA-AACAA
* *
44869 AAGATTTTATCTCGCTTGAGATAGTTTCTCTCAAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
44908 AAGATTTTAT
1 AAGATTTTAT
44918 AAGAAACTAA
Statistics
Matches: 927, Mismatches: 50, Indels: 14
0.94 0.05 0.01
Matches are distributed among these distances:
38 41 0.04
39 881 0.95
40 5 0.01
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (39 bp):
AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
Found at i:45107 original size:42 final size:41
Alignment explanation
Indices: 45042--45127 Score: 102
Period size: 42 Copynumber: 2.1 Consensus size: 41
45032 TCTTGATTTT
* * *
45042 TAAATCCTTTGGGTTATCAGTAAGTCTTTCGAGCATGATGCA
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCAAGATG-A
* *
45084 TAAATCCTTCGGGTCAT-ATGTAAGTGTTTCTAGCAAGATGA
1 TAAATCCTTCGGGTCATCA-GTAAGTCTTTCGAGCAAGATGA
45125 TAA
1 TAA
45128 GACCTCCGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 5 0.13
42 33 0.87
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (41 bp):
TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCAAGATGA
Found at i:45403 original size:136 final size:136
Alignment explanation
Indices: 45150--45457 Score: 481
Period size: 136 Copynumber: 2.3 Consensus size: 136
45140 GAATGTTTTC
45150 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAAAAGAGGAAGAAGAAGTTCATAA
1 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAAAAGAGGAAGAAGAAGTTCATAA
* * * *
45215 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATTATTGACGCCTCGCTTGA
66 TAAAAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCAAATCATTGACGCCTCGCTTGA
45280 GGGATT
131 GGGATT
* * * * *
45286 AATATTTCCAATTGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
1 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAAAAGAGGAAGAAGAAGTTCATAA
**
45351 TAAAAAGAGCTTGTTCGATGTATCACTCGATTCATGACATTTCAAATCATTGACGCCTCGCTTGA
66 TAAAAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCAAATCATTGACGCCTCGCTTGA
45416 GGGATT
131 GGGATT
* * * *
45422 GACATTTCTAATGGATAGTTCATAATGAGAAAAACT
1 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACT
45458 AGTCCTAAAG
Statistics
Matches: 155, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
136 155 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (136 bp):
AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAAAAGAGGAAGAAGAAGTTCATAA
TAAAAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCAAATCATTGACGCCTCGCTTGA
GGGATT
Found at i:45586 original size:70 final size:71
Alignment explanation
Indices: 45469--45631 Score: 224
Period size: 70 Copynumber: 2.3 Consensus size: 71
45459 GTCCTAAAGG
* *
45469 AGAA-AGTTCATAATGAGAAGAACTTGTTCCTTTCAAATTCACCACAGAAGGAGGTGAACCAATA
1 AGAAGAGTTCATAATGAGAAGAACTTGTTCCTTTCAAATCCACCACAGAAGGAGGTGAACCAACA
45533 -TTTCCA
66 CTTT-CA
* * * *
45539 A-AAGAGTTCATAATGAGAAGAACTTGTTCCTTTCAAGTCCATCACAGAAGGAGGTGGATCAACA
1 AGAAGAGTTCATAATGAGAAGAACTTGTTCCTTTCAAATCCACCACAGAAGGAGGTGAACCAACA
45603 CTTTCA
66 CTTTCA
*
45609 ATGGAGAGTTCATAATGAGAAGA
1 A-GAAGAGTTCATAATGAGAAGA
45632 CTCATCCAAC
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
69 2 0.02
70 58 0.71
71 3 0.04
72 19 0.23
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (71 bp):
AGAAGAGTTCATAATGAGAAGAACTTGTTCCTTTCAAATCCACCACAGAAGGAGGTGAACCAACA
CTTTCA
Found at i:45940 original size:3 final size:3
Alignment explanation
Indices: 45925--45973 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
45915 GGTCGAAAAA
*
45925 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
45972 TA
1 TA
45974 ATACAAATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 42 0.98
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:49731 original size:22 final size:22
Alignment explanation
Indices: 49705--49747 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
49695 TAATAAATTA
*
49705 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAACCCATAT
49727 TTTAAAATAAATCAACCCATA
1 TTTAAAATAAATCAACCCATA
49748 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAAAATAAATCAACCCATAT
Found at i:49756 original size:22 final size:22
Alignment explanation
Indices: 49707--49755 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
49697 ATAAATTATT
* **
49707 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAACCCATATAA
49729 TAAAATAAATCAACCCATACTAA
1 TAAAATAAATCAACCCATA-TAA
49752 TAAA
1 TAAA
49756 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAATAAATCAACCCATATAA
Found at i:49804 original size:80 final size:80
Alignment explanation
Indices: 49710--49859 Score: 282
Period size: 80 Copynumber: 1.9 Consensus size: 80
49700 AATTATTTAA
49710 AATAAATCAATCCATATTTTAAAATAAATCAACCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAACCCATACTAATAAATTATTTAAAATAAATCAAT
49775 CCATACAACTACAAT
66 CCATACAACTACAAT
* *
49790 AATAAATCAATCCATATTTTAAAATAAATTAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAACCCATACTAATAAATTATTTAAAATAAATCAAT
49855 CCATA
66 CCATA
49860 TTTTAAAATA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAACCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:49837 original size:134 final size:135
Alignment explanation
Indices: 49695--50307 Score: 753
Period size: 134 Copynumber: 4.6 Consensus size: 135
49685 ACAACTACAA
*
49695 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAACCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
49760 TTAAAATAAATCAATCCATAC-AACTACAATAATAAATCAATCCATATTTTAAAATAAATTAATC
66 TTAAAATAAATCAATCCATACTAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
49824 CATAC
131 CATAC
49829 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
49894 TTAAAATAAATCAATGCATAC-AACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
66 TTAAAATAAATCAATCCATACTAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
49958 CATAC
131 CATAC
*** * * * *
49963 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C-CAT--A-T-
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTA
* *
50021 TTTAAAATAAATAAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
65 TTTAAAATAAATCAATCCATACTAACTACA--A--T--AATAAATCAATCCATATTTTAAAATAA
50085 ATCAA-CTCATAC
124 ATCAATC-CATAC
* ** **
50097 TAATAAATTATTTAAAATAAATCAATCCATA----CAAATACAAT-AATAAAT-C-AATCCA-TA
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATA-AATCAATCCATACTAATAAATTA
* * *
50154 TTTTAAAATAAATCAATCCATACTTTATAATTTATTTAA-AATAAATTAATCCATATTTTAAAAT
65 -TTTAAAATAAATCAATCCATAC----TAA-CTA--CAATAATAAATCAATCCATATTTTAAAAT
50218 AAATCAATCCATAC
122 AAATCAATCCATAC
50232 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
50297 TTAAAATAAAT
66 TTAAAATAAAT
50308 TATTTTAAAA
Statistics
Matches: 422, Mismatches: 25, Indels: 57
0.84 0.05 0.11
Matches are distributed among these distances:
128 23 0.05
129 6 0.01
130 11 0.03
131 3 0.01
132 5 0.01
133 2 0.00
134 260 0.62
135 72 0.17
136 1 0.00
138 6 0.01
139 10 0.02
140 4 0.01
141 16 0.04
142 3 0.01
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (135 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACTAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
CATAC
Found at i:49857 original size:54 final size:54
Alignment explanation
Indices: 49790--50127 Score: 358
Period size: 54 Copynumber: 6.3 Consensus size: 54
49780 CAACTACAAT
*
49790 AATAAATCAATCCATATTTTAAAATAAATTAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAA
*
49844 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAA
* *** * * *
49898 AATAAATCAATGCATACAACTACAAT-AATAAATCAAT-C-CAT--A-T-TTTAA
1 AATAAATCAATCCATA-TTTTAAAATAAATAAATCCATACTAATAAATTATTTAA
** * * * *
49946 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C-CATACAACTA--CAA
1 AATAAATCAATCCATA-TTTTAAA--A--T-AAATAAATCCATACTAATA-AATTATTTAA
50003 TAATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAA
1 -AATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAA
*
50058 AATAAATCAATCCATATTTTAAAATAAATCAA-CTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATAAATC-CATACTAATAAATTATTTAA
50112 AATAAATCAATCCATA
1 AATAAATCAATCCATA
50128 CAAATACAAT
Statistics
Matches: 245, Mismatches: 21, Indels: 36
0.81 0.07 0.12
Matches are distributed among these distances:
48 25 0.10
49 1 0.00
50 2 0.01
52 14 0.06
53 8 0.03
54 162 0.66
55 8 0.03
57 8 0.03
58 17 0.07
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAA
Found at i:49864 original size:22 final size:22
Alignment explanation
Indices: 49839--49881 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
49829 TAATAAATTA
49839 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
49861 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
49882 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:49890 original size:22 final size:22
Alignment explanation
Indices: 49841--49889 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
49831 ATAAATTATT
**
49841 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
49863 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
49886 TAAA
1 TAAA
49890 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:49928 original size:80 final size:80
Alignment explanation
Indices: 49844--50307 Score: 443
Period size: 80 Copynumber: 5.8 Consensus size: 80
49834 AATTATTTAA
49844 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
49909 GCATACAACTACAAT
66 CCATACAACTACAAT
49924 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
49989 CCATACAACTACAAT
66 CCATACAACTACAAT
*
50004 AATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*** *
50069 CCATA-TTTTAAAAT
66 CCATACAACTACAAT
* * * *
50083 AAATCAACTC-ATACTAATAAATTATTTAAAATAAATCAATCCATACAAATACA--A--T--AAT
1 -AAT-AAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT
* **
50141 AAATCAATCCAT---ATTTTAA-
58 AAATCAATCCATACAACTACAAT
* * * * * *** * * **
50160 AATAAATCAATCCATACTTTATAATTTATTTAAAATAAATTAATCCA-TATTTTAAAATAAATCA
1 AATAAATCAATCCATATTTTA-AAATAAATCAATCCATACTAATAAATTA-TTTAAAATAAATCA
*
50224 ATCCATACTAA-TAAATTATTT
64 ATCCATAC-AACTACA--A--T
50245 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
50308 TATTTTAAAA
Statistics
Matches: 314, Mismatches: 42, Indels: 50
0.77 0.10 0.12
Matches are distributed among these distances:
70 4 0.01
71 14 0.04
72 2 0.01
74 2 0.01
75 6 0.02
76 5 0.02
77 15 0.05
78 4 0.01
79 5 0.02
80 170 0.54
81 6 0.02
82 4 0.01
84 2 0.01
85 1 0.00
86 52 0.17
87 22 0.07
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:49966 original size:214 final size:214
Alignment explanation
Indices: 49710--50208 Score: 910
Period size: 214 Copynumber: 2.3 Consensus size: 214
49700 AATTATTTAA
*
49710 AATAAATCAATCCATATTTTAAAATAAATCAACCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
49775 CCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATTAATCCATACTAATAAATTAT
66 CCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTAT
49840 TTAAAATAAATCAATCCATATTTTAAAATAAATCAA-TCCATACTAATAAATTATTTAAAATAAA
131 TTAAAATAAATCAATCCATATTTTAAAATAAATCAACT-CATACTAATAAATTATTTAAAATAAA
* *
49904 TCAATGCATACAACTACAAT
195 TCAATCCATACAAATACAAT
49924 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
49989 CCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTAT
66 CCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTAT
50054 TTAAAATAAATCAATCCATATTTTAAAATAAATCAACTCATACTAATAAATTATTTAAAATAAAT
131 TTAAAATAAATCAATCCATATTTTAAAATAAATCAACTCATACTAATAAATTATTTAAAATAAAT
50119 CAATCCATACAAATACAAT
196 CAATCCATACAAATACAAT
* * *
50138 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTTTATAATTTATTTAAAATAAATTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-TAATAAATTATTTAAAATAAATCAA
50203 TCCATA
65 TCCATA
50209 TTTTAAAATA
Statistics
Matches: 276, Mismatches: 7, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
214 247 0.89
215 29 0.11
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (214 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATATTTTAAAATAAATCAACTCATACTAATAAATTATTTAAAATAAAT
CAATCCATACAAATACAAT
Found at i:49970 original size:22 final size:22
Alignment explanation
Indices: 49895--49969 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
49885 ATAAATTATT
* *
49895 TAAAATAAATCAATGCATACAA
1 TAAAATAAATCAATCCATATAA
**
49917 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATATAA
49943 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
49966 TAAA
1 TAAA
49970 TTATTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 16 0.38
23 8 0.19
25 3 0.07
26 15 0.36
ACGTcount: A:0.55, C:0.16, G:0.01, T:0.28
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:50163 original size:22 final size:22
Alignment explanation
Indices: 50107--50180 Score: 85
Period size: 22 Copynumber: 3.2 Consensus size: 22
50097 TAATAAATTA
50107 TTTAAAATAAATCAATCCATAC
1 TTTAAAATAAATCAATCCATAC
** *
50129 AAATACAATAATAAATCAATCCATAT
1 ---TTTAA-AATAAATCAATCCATAC
50155 TTTAAAATAAATCAATCCATAC
1 TTTAAAATAAATCAATCCATAC
50177 TTTA
1 TTTA
50181 TAATTTATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
22 20 0.48
23 3 0.07
25 3 0.07
26 16 0.38
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.32
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAC
Found at i:50214 original size:22 final size:22
Alignment explanation
Indices: 50188--50230 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
50178 TTATAATTTA
*
50188 TTTAAAATAAATTAATCCATAT
1 TTTAAAATAAATCAATCCATAT
50210 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
50231 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:50239 original size:22 final size:22
Alignment explanation
Indices: 50190--50238 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
50180 ATAATTTATT
* **
50190 TAAAATAAATTAATCCATATTT
1 TAAAATAAATCAATCCATATAA
50212 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
50235 TAAA
1 TAAA
50239 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:50268 original size:22 final size:22
Alignment explanation
Indices: 50242--50284 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
50232 TAATAAATTA
50242 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
50264 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
50285 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:50293 original size:22 final size:22
Alignment explanation
Indices: 50244--50292 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
50234 ATAAATTATT
**
50244 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
50266 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
50289 TAAA
1 TAAA
50293 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:50306 original size:14 final size:15
Alignment explanation
Indices: 50287--50324 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
50277 AATCCATACT
50287 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
50301 AATAAATTATTTTAA
1 AATAAATTATTTTAA
50316 AATAAATTA
1 AATAAATTA
50325 ATCCATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:51210 original size:26 final size:24
Alignment explanation
Indices: 51164--51215 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
51154 CAATTAGGTC
*
51164 TTTATTTTATGTTTATTTTATTTT
1 TTTATTTTATGTTTATTTTATCTT
51188 TTTATTTTTAATGTTT-TTATTATCTT
1 TTTA-TTTT-ATGTTTATT-TTATCTT
51214 TT
1 TT
51216 GTTTTAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 4 0.17
25 6 0.25
26 14 0.58
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (24 bp):
TTTATTTTATGTTTATTTTATCTT
Found at i:55039 original size:13 final size:13
Alignment explanation
Indices: 55023--55079 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
55013 AAACACACAC
55023 AAAAAAATAAG-AG
1 AAAAAAA-AAGAAG
55036 AAAAAAAAAGAAG
1 AAAAAAAAAGAAG
55049 AAAAAGGAAAA-AAG
1 AAAAA--AAAAGAAG
* *
55063 AAGAAGAAAGAAG
1 AAAAAAAAAGAAG
55076 AAAA
1 AAAA
55080 TACACAGATC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
12 6 0.16
13 20 0.54
14 7 0.19
15 4 0.11
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAGAAG
Found at i:55059 original size:17 final size:18
Alignment explanation
Indices: 55039--55072 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
55029 ATAAGAGAAA
55039 AAAAAAGAAGAA-AAAGG
1 AAAAAAGAAGAAGAAAGG
55056 AAAAAAGAAGAAGAAAG
1 AAAAAAGAAGAAGAAAG
55073 AAGAAAATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAGAAGAAAGG
Found at i:55078 original size:20 final size:19
Alignment explanation
Indices: 55034--55079 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
55024 AAAAAATAAG
55034 AGAAAAAAAAAGAAGAAAA
1 AGAAAAAAAAAGAAGAAAA
*
55053 AGGAAAAAAGAAGAAGAAAGA
1 A-GAAAAAAAAAGAAGAAA-A
55074 AGAAAA
1 AGAAAA
55080 TACACAGATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.88
21 2 0.08
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
AGAAAAAAAAAGAAGAAAA
Found at i:57133 original size:90 final size:90
Alignment explanation
Indices: 56992--57186 Score: 336
Period size: 90 Copynumber: 2.2 Consensus size: 90
56982 TCAAAAGATT
* * *
56992 TTTTAGGATACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCT
1 TTTTA-GAAACTAAGCCTTCGGGGGTTTCTTGATTTATAAGTCCTCCGGGCCATCCATAAGACCT
57057 TCAGTGCAGGATGTTTTCAAATGAGA
65 TCAGTGCAGGATGTTTTCAAATGAGA
*
57083 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTATAATTCCTCCGGGCCATCCATAAGACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTATAAGTCCTCCGGGCCATCCATAAGACCTT
*
57148 CAGTGCAGGATGTTTTCAAATGAGT
66 CAGTGCAGGATGTTTTCAAATGAGA
57173 TTTTAGAAACTAAG
1 TTTTAGAAACTAAG
57187 TATGATTTTC
Statistics
Matches: 99, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
90 94 0.95
91 5 0.05
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.34
Consensus pattern (90 bp):
TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTATAAGTCCTCCGGGCCATCCATAAGACCTT
CAGTGCAGGATGTTTTCAAATGAGA
Found at i:57361 original size:20 final size:21
Alignment explanation
Indices: 57319--57362 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
57309 AAAGCCTGAG
*
57319 TTTGTTTCTCTTGAAACAAAGT
1 TTTGTCTCTCTTGAAAC-AAGT
*
57341 TTTGTCTCTCTTGATAC-AGT
1 TTTGTCTCTCTTGAAACAAGT
57361 TT
1 TT
57363 CCTTTGAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
22 15 0.75
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (21 bp):
TTTGTCTCTCTTGAAACAAGT
Found at i:57388 original size:34 final size:36
Alignment explanation
Indices: 57322--57407 Score: 115
Period size: 34 Copynumber: 2.4 Consensus size: 36
57312 GCCTGAGTTT
*
57322 GTTTCTCTTGAAACAAAGTTTTGTCTCTCTTGATACA
1 GTTTCTCTTGAAACAAAG-TTTGTCTCTCTTGAGACA
*
57359 GTTTC-CTTTGAAACAAA-TTT-TCTCTCTTGAGATA
1 GTTTCTC-TTGAAACAAAGTTTGTCTCTCTTGAGACA
57393 GTTTCTCTTGAAACA
1 GTTTCTCTTGAAACA
57408 CAAAATCTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
34 25 0.56
35 4 0.09
36 1 0.02
37 15 0.33
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.43
Consensus pattern (36 bp):
GTTTCTCTTGAAACAAAGTTTGTCTCTCTTGAGACA
Found at i:57514 original size:65 final size:66
Alignment explanation
Indices: 57359--57514 Score: 156
Period size: 65 Copynumber: 2.4 Consensus size: 66
57349 TCTTGATACA
* * * * * *
57359 GTTTCCTTTGAAACAAATTT-TCTCTCTTGAGATAGTTTCTCTTGAAACACAAAATCTTTGCGAT
1 GTTTCCCTTGAAACAAATTTGTCTCTCCTAAGACAGTTTCTCTTGAAACACAAAACCTTTGAGAT
57423 G
66 G
** * *
57424 GTTTCCCTTGAAACATTTTTTGTCTCTCCTAAGACAG-TTCTCTTGAAGCAC-CAACCTTTGAGA
1 GTTTCCCTTGAAACA-AATTTGTCTCTCCTAAGACAGTTTCTCTTGAAACACAAAACCTTTGAGA
*
57487 TT
65 TG
* *
57489 GTTTCTCTTGGAACAAATTTGGTCTC
1 GTTTCCCTTGAAACAAATTT-GTCTC
57515 GCTTGAGGCA
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
64 3 0.04
65 42 0.58
66 16 0.22
67 12 0.16
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (66 bp):
GTTTCCCTTGAAACAAATTTGTCTCTCCTAAGACAGTTTCTCTTGAAACACAAAACCTTTGAGAT
G
Found at i:57670 original size:66 final size:66
Alignment explanation
Indices: 57578--57737 Score: 166
Period size: 66 Copynumber: 2.4 Consensus size: 66
57568 TTGAAACAAA
** *
57578 AAAAATCTTTGA-ATATATTTCTCTTGAAACAAATTTTCTCT-TCCTTG-GACA-TTTTCTCTTG
1 AAAAATCTTTGAGAT-CGTTTCCCTTGAAACAAATTTTCTCTCT-CTTGAGACAGTTTTC-CTTG
57639 AAAC
63 AAAC
* * * *
57643 AGAAAATCTTTGAGGTCGTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGATAGTTTTCCTTGAA
1 A-AAAATCTTTGAGATCGTTTCCCTTGAAACAAATTTTCTCTCTCTTGAGACAGTTTTCCTTGAA
57708 AC
65 AC
***
57710 ATTGATCTTTGAGATCGTTTCCCTTGAA
1 AAAAATCTTTGAGATCGTTTCCCTTGAA
57738 CTGAATTTTT
Statistics
Matches: 79, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
65 1 0.01
66 59 0.75
67 14 0.18
68 5 0.06
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (66 bp):
AAAAATCTTTGAGATCGTTTCCCTTGAAACAAATTTTCTCTCTCTTGAGACAGTTTTCCTTGAAA
C
Found at i:58350 original size:91 final size:91
Alignment explanation
Indices: 58195--59262 Score: 1630
Period size: 91 Copynumber: 11.7 Consensus size: 91
58185 CATTGCTAGC
* * *
58195 GGAGAGTTCATAATGAGAAGAACTCGTCCAACGAGGGAGAACAAGTTCATAATGATAAGAACTTG
1 GGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
*
58260 TTCAACCTTGGTTCAAGATTTCCAGT
66 TTCAACCTTAGTTCAAGATTTCCAGT
*
58286 GGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGGGAAGAAGTTCATAATGAGAAGAACTTG
1 GGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
*
58351 TTCAACCTTAGCTC-AGCATTTCCAGT
66 TTCAACCTTAGTTCAAG-ATTTCCAGT
*
58377 GGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
1 GGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
* * **
58442 TTCAAACTTAGCTC-AGTATTTCCAAC
66 TTCAACCTTAGTTCAAG-ATTTCCAGT
58468 GGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
1 GGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
* *
58533 TTCAACCTTGGTTCAATATTTCCAGT
66 TTCAACCTTAGTTCAAGATTTCCAGT
*
58559 GGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAATAAGTTCATAATGAGAAGAACTTG
1 GGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
* *
58624 TTCAACATTGGTTCAAGATTTCCAGT
66 TTCAACCTTAGTTCAAGATTTCCAGT
*
58650 GGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
1 GGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
58715 TTCAACCTTAGTTCAAGATTTCCAGT
66 TTCAACCTTAGTTCAAGATTTCCAGT
* * *
58741 GGAAAGTTCATAATGAGAAGAACTCATCTAACGAGGGGGAAGAAGTTCATAATGAGAAGAACTTG
1 GGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
*
58806 TTCAACCTTAGCTC-AGCATTTCCAGT
66 TTCAACCTTAGTTCAAG-ATTTCCAGT
*
58832 GGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
1 GGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
* ** **
58897 CTCAACCTTAACTC-AGTATTTCCAAC
66 TTCAACCTTAGTTCAAG-ATTTCCAGT
*
58923 GGAGAGTTCATAATGAGAAGAACTCGTCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
1 GGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
* *
58988 TTCAACCTTGGTTCAATATTTCCAGT
66 TTCAACCTTAGTTCAAGATTTCCAGT
* *
59014 GGAGAGTTCATAATGAGAAGAACTCATCCAACGATGGAGAATAAGTTCATAATGAGAAGAACTTG
1 GGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
*
59079 TTCAACCTTGGTTCAAGATTTCCAGT
66 TTCAACCTTAGTTCAAGATTTCCAGT
* * *
59105 GGAGAGTTCATAATGAGAATAACTCATCCAATGAGGGAGAAGAAGTTCATAACGAGAAGAACTTG
1 GGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
* **
59170 TTCAACCTTAGCTC-AGTATTTCCAAC
66 TTCAACCTTAGTTCAAG-ATTTCCAGT
* * **
59196 GAAGAGTTCATAATGAGAATAACTCATCCATAATAGAGGAG-A-AA-TTCATAATGAGAAGAACT
1 GGAGAGTTCATAATGAGAAGAACTCATCCA-ACGAG-GGAGAAGAAGTTCATAATGAGAAGAACT
59258 TGTTC
64 TGTTC
59263 CTTCTGGCTC
Statistics
Matches: 904, Mismatches: 66, Indels: 15
0.92 0.07 0.02
Matches are distributed among these distances:
90 28 0.03
91 866 0.96
92 6 0.01
93 4 0.00
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (91 bp):
GGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
TTCAACCTTAGTTCAAGATTTCCAGT
Found at i:61623 original size:15 final size:15
Alignment explanation
Indices: 61599--61650 Score: 86
Period size: 15 Copynumber: 3.5 Consensus size: 15
61589 ATCGACATAT
*
61599 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
61614 AATAAATTATTTTAT
1 AATAAATTATTTTAA
61629 AATAAATTATTTTAA
1 AATAAATTATTTTAA
61644 AATAAAT
1 AATAAAT
61651 AACCTTATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:72757 original size:45 final size:47
Alignment explanation
Indices: 72692--72800 Score: 113
Period size: 45 Copynumber: 2.4 Consensus size: 47
72682 TTTAATAAAT
* *
72692 AAAATAA-ATAAATAAATAAAAAAGGAAAAG-AAAAAAC-AATAATGA
1 AAAATAATATATATATATAAAAAAGGAAAAGTAAAAAACAAATAAT-A
* ** *
72737 AAAA-AATATATATATAT--AAAATGTTAGGTAAAAAACAAATAATA
1 AAAATAATATATATATATAAAAAAGGAAAAGTAAAAAACAAATAATA
72781 AAAATAATATATATATATAA
1 AAAATAATATATATATATAA
72801 CGTTAGGAGA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
43 7 0.13
44 14 0.27
45 31 0.60
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (47 bp):
AAAATAATATATATATATAAAAAAGGAAAAGTAAAAAACAAATAATA
Found at i:72814 original size:43 final size:43
Alignment explanation
Indices: 72722--72807 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 43
72712 AAAGGAAAAG
*
72722 AAAAAACAATAATGAAAAAAATATATATATATAAAATGTTAGGT
1 AAAAAACAATAATGAAAAAAATATATATATAT-AAACGTTAGGT
72766 AAAAAACAAATAAT-AAAAATAATATATATATAT-AACGTTAGG
1 AAAAAAC-AATAATGAAAAA-AATATATATATATAAACGTTAGG
72808 AGAAAAAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
43 8 0.21
44 12 0.31
45 19 0.49
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (43 bp):
AAAAAACAATAATGAAAAAAATATATATATATAAACGTTAGGT
Found at i:72849 original size:14 final size:13
Alignment explanation
Indices: 72810--72870 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
72800 ACGTTAGGAG
72810 AAAAAATAAAAAA
1 AAAAAATAAAAAA
*
72823 AAGAAAA-CAAAAA
1 AA-AAAATAAAAAA
* **
72836 GAAAAATAGTAAA
1 AAAAAATAAAAAA
72849 AAAAAATAAAAAA
1 AAAAAATAAAAAA
72862 ATAAAAATA
1 A-AAAAATA
72871 TATATATTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
12 4 0.11
13 22 0.59
14 11 0.30
ACGTcount: A:0.84, C:0.02, G:0.05, T:0.10
Consensus pattern (13 bp):
AAAAAATAAAAAA
Found at i:72861 original size:27 final size:28
Alignment explanation
Indices: 72808--72872 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
72798 TAACGTTAGG
72808 AGAAAAA-ATAAAAAAAAGAAAACAAAA
1 AGAAAAATATAAAAAAAAGAAAACAAAA
*
72835 AGAAAAATAGTAAAAAAAA-ATAA-AAAA
1 AGAAAAATA-TAAAAAAAAGAAAACAAAA
*
72862 ATAAAAATATA
1 AGAAAAATATA
72873 TATATTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 2 0.06
27 19 0.56
28 4 0.12
29 9 0.26
ACGTcount: A:0.82, C:0.02, G:0.06, T:0.11
Consensus pattern (28 bp):
AGAAAAATATAAAAAAAAGAAAACAAAA
Found at i:74015 original size:10 final size:9
Alignment explanation
Indices: 74000--74033 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
73990 AAATAAAGAG
74000 ATATATATA
1 ATATATATA
74009 TATATATATA
1 -ATATATATA
74019 ATACTATATA
1 ATA-TATATA
74029 ATATA
1 ATATA
74034 CGCATATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.22
10 18 0.78
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (9 bp):
ATATATATA
Found at i:74088 original size:22 final size:21
Alignment explanation
Indices: 74040--74088 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
74030 TATACGCATA
*
74040 TACATATGAACACAATGTACG
1 TACATATGAACACAATGTAAG
* *
74061 TAACATATGCACACTATGTAAG
1 T-ACATATGAACACAATGTAAG
74083 CTACAT
1 -TACAT
74089 CTTAAATATG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 21 0.91
23 1 0.04
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (21 bp):
TACATATGAACACAATGTAAG
Found at i:74158 original size:23 final size:23
Alignment explanation
Indices: 74115--74158 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
74105 ATTTACACCG
**
74115 TATAATATACACATATCATATAC
1 TATAATATACACATAAAATATAC
74138 TATAA-ATACATCATAAAATAT
1 TATAATATACA-CATAAAATAT
74159 TATGTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (23 bp):
TATAATATACACATAAAATATAC
Found at i:87870 original size:20 final size:20
Alignment explanation
Indices: 87845--87884 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
87835 TCCTTTAGAG
*
87845 GGTATCGATACCCTCCTTAC
1 GGTATCGATACCCTCATTAC
87865 GGTATCGATACCCTCATTAC
1 GGTATCGATACCCTCATTAC
87885 ATTCTGTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.30
Consensus pattern (20 bp):
GGTATCGATACCCTCATTAC
Done.