Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 44 of 190
Found at i:7501840 original size:62 final size:61
Alignment explanation
Indices: 7501753--7501873 Score: 165
Period size: 62 Copynumber: 2.0 Consensus size: 61
7501743 AAAAAAAACA
* *
7501753 TTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCAA-AAAAAGTAT
1 TTTTTAAAGAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAAATTTT-AAGAAAAAGTAT
* *
7501814 TTTTTTAAGAAAAAATTGCAAA-TATCAATTTTCCTTAAAGATAAAATTTTAAGAAAAAGT
1 TTTTTAAAG-AAAAATTG-AAAGTATCAATTTTCCTTAAAAATAAAATTTTAAGAAAAAGT
7501874 TGAAAGTATC
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
61 10 0.19
62 40 0.75
63 3 0.06
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (61 bp):
TTTTTAAAGAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTAAGAAAAAGTAT
Found at i:7503933 original size:25 final size:25
Alignment explanation
Indices: 7503905--7503955 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
7503895 TTGGGTATCT
* *
7503905 TTTGTTTTGATGTTGCAACAACATA
1 TTTGGTTTAATGTTGCAACAACATA
* *
7503930 TTTGGTTTAATGTTGTAGCAACATA
1 TTTGGTTTAATGTTGCAACAACATA
7503955 T
1 T
7503956 ATTACATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (25 bp):
TTTGGTTTAATGTTGCAACAACATA
Found at i:7504379 original size:12 final size:12
Alignment explanation
Indices: 7504362--7504387 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7504352 TAATTTGAAT
7504362 AAAATTAATAAA
1 AAAATTAATAAA
7504374 AAAATTAATAAA
1 AAAATTAATAAA
7504386 AA
1 AA
7504388 GTATTTCTAA
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATTAATAAA
Found at i:7504554 original size:36 final size:37
Alignment explanation
Indices: 7504497--7504579 Score: 111
Period size: 36 Copynumber: 2.3 Consensus size: 37
7504487 ATAAGTGGTA
7504497 AATTTTATTTATCATTCTAAGTAGAGTG-AATTATTTT
1 AATTTTATTTATCATTCTAAGTAGAGTGAAATT-TTTT
*
7504534 -ATTTTATTTATTGATT-TAAGTAGAGTGAAATTTTTT
1 AATTTTATTTA-TCATTCTAAGTAGAGTGAAATTTTTT
7504570 AATTTT-TTTA
1 AATTTTATTTA
7504580 ATTTTTTATA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
36 29 0.69
37 13 0.31
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.55
Consensus pattern (37 bp):
AATTTTATTTATCATTCTAAGTAGAGTGAAATTTTTT
Found at i:7504813 original size:2 final size:2
Alignment explanation
Indices: 7504806--7504841 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7504796 AGCTTCCAAT
7504806 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7504842 CTAGGTCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7505521 original size:18 final size:18
Alignment explanation
Indices: 7505498--7505535 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
7505488 CATCATATAT
7505498 ATATATATATATACACAC
1 ATATATATATATACACAC
*
7505516 ATATATATATATATACAC
1 ATATATATATATACACAC
7505534 AT
1 AT
7505536 GTCCCCTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATATATATATACACAC
Found at i:7505521 original size:20 final size:20
Alignment explanation
Indices: 7505496--7505534 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
7505486 TCCATCATAT
7505496 ATATATATATATATACACAC
1 ATATATATATATATACACAC
7505516 ATATATATATATATACACA
1 ATATATATATATATACACA
7505535 TGTCCCCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATATATATATATACACAC
Found at i:7505548 original size:2 final size:2
Alignment explanation
Indices: 7505492--7505530 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
7505482 TGGATCCATC
* * *
7505492 AT AT AT AT AT AT AT AT AT AC AC AC AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7505531 CACATGTCCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:7509942 original size:21 final size:21
Alignment explanation
Indices: 7509912--7509963 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
7509902 GAGGCCATGT
*
7509912 AAGA-GAAAGGGAAGGAGGGA
1 AAGAGGAAAGGGAAGGAGAGA
*
7509932 AAGAGGAAAGGGATGGAGAGA
1 AAGAGGAAAGGGAAGGAGAGA
*
7509953 AAAAGAGAAAG
1 AAGAG-GAAAG
7509964 AATAAATGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 4 0.15
21 18 0.67
22 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.44, T:0.02
Consensus pattern (21 bp):
AAGAGGAAAGGGAAGGAGAGA
Found at i:7512117 original size:8 final size:8
Alignment explanation
Indices: 7512093--7512262 Score: 129
Period size: 8 Copynumber: 21.9 Consensus size: 8
7512083 TTAGGGTCTT
7512093 GTTTTAAG
1 GTTTTAAG
*
7512101 ATTTTAAG
1 GTTTTAAG
7512109 GTTTTAAG
1 GTTTTAAG
7512117 G-TTTAAG
1 GTTTTAAG
** *
7512124 GAATTAGG
1 GTTTTAAG
7512132 GTTTT-AG
1 GTTTTAAG
7512139 GTTTTAAG
1 GTTTTAAG
*
7512147 GTTTTGAG
1 GTTTTAAG
7512155 GTTTT-AG
1 GTTTTAAG
*
7512162 GGTTTAAG
1 GTTTTAAG
* *
7512170 GTTCTAGG
1 GTTTTAAG
*
7512178 GTTTTGA-
1 GTTTTAAG
*
7512185 GTTTAAAG
1 GTTTTAAG
7512193 GTTTTGAA-
1 GTTTT-AAG
*
7512201 -TTTTAGG
1 GTTTTAAG
7512208 GTTTTAAG
1 GTTTTAAG
*
7512216 GTTTTAGG
1 GTTTTAAG
*
7512224 GTTTT-GG
1 GTTTTAAG
*
7512231 GATTTTATG
1 G-TTTTAAG
*
7512240 GTTTCAAG
1 GTTTTAAG
*
7512248 GTTTTAGG
1 GTTTTAAG
7512256 GTTTTAA
1 GTTTTAA
7512263 ATTTTTTTCT
Statistics
Matches: 126, Mismatches: 27, Indels: 18
0.74 0.16 0.11
Matches are distributed among these distances:
6 1 0.01
7 31 0.25
8 90 0.71
9 4 0.03
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (8 bp):
GTTTTAAG
Found at i:7512145 original size:46 final size:44
Alignment explanation
Indices: 7512082--7512259 Score: 182
Period size: 46 Copynumber: 3.9 Consensus size: 44
7512072 ATTTTTAGAA
* * *
7512082 TTTAGGGTCTT-GTTTTAAGATTTTAAGGTTTTAAGGTTTAAGG
1 TTTAGGGTTTTGGTTTTAAGGTTTTAAGGTTTTAGGGTTTAAGG
* *
7512125 AATTAGGGTTTTAGGTTTTAAGGTTTTGAGGTTTTAGGGTTTAAGG
1 -TTTAGGGTTTT-GGTTTTAAGGTTTTAAGGTTTTAGGGTTTAAGG
*
7512171 TTCTAGGGTTTTGAGTTTAAAGGTTTTGAA--TTTTAGGGTTTTAAGG
1 TT-TAGGGTTTTG-GTTTTAAGGTTTT-AAGGTTTTAGGG-TTTAAGG
* *
7512217 TTTTAGGGTTTTGGGATTTTATGGTTTCAAGGTTTTAGGGTTT
1 -TTTAGGGTTTT-GG-TTTTAAGGTTTTAAGGTTTTAGGGTTT
7512260 TAAATTTTTT
Statistics
Matches: 112, Mismatches: 11, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
44 9 0.08
45 10 0.09
46 69 0.62
47 16 0.14
48 8 0.07
ACGTcount: A:0.20, C:0.02, G:0.29, T:0.49
Consensus pattern (44 bp):
TTTAGGGTTTTGGTTTTAAGGTTTTAAGGTTTTAGGGTTTAAGG
Found at i:7512170 original size:23 final size:22
Alignment explanation
Indices: 7512095--7512259 Score: 120
Period size: 23 Copynumber: 7.1 Consensus size: 22
7512085 AGGGTCTTGT
* *
7512095 TTTAAGATTTTAAGGTTTTAAGG
1 TTTAAGGTTTT-AGGTTTTAGGG
** *
7512118 TTTAAGGAATTAGGGTTTTAGGT
1 TTTAAGGTTTTA-GGTTTTAGGG
7512141 TTTAAGGTTTTGAGGTTTTAGGG
1 TTTAAGGTTTT-AGGTTTTAGGG
* *
7512164 TTTAAGGTTCTAGGGTTTT-GAG
1 TTTAAGGTTTTA-GGTTTTAGGG
*
7512186 TTTAAAGGTTTT-GAATTTTAGGG
1 TTT-AAGGTTTTAG-GTTTTAGGG
7512209 TTTTAAGGTTTTAGGGTTTT-GGG
1 -TTTAAGGTTTTA-GGTTTTAGGG
* *
7512232 ATTTTATGGTTTCAAGGTTTTAGGG
1 --TTTAAGGTTT-TAGGTTTTAGGG
7512257 TTT
1 TTT
7512260 TAAATTTTTT
Statistics
Matches: 114, Mismatches: 16, Indels: 24
0.74 0.10 0.16
Matches are distributed among these distances:
21 1 0.01
22 11 0.10
23 73 0.64
24 24 0.21
25 5 0.04
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.48
Consensus pattern (22 bp):
TTTAAGGTTTTAGGTTTTAGGG
Found at i:7515761 original size:47 final size:48
Alignment explanation
Indices: 7515701--7515826 Score: 139
Period size: 50 Copynumber: 2.6 Consensus size: 48
7515691 TTTGTTTTTA
*
7515701 TTTTATTTTTAAATTTTTCACCATTTGGGTCAATTT-GAA-ATTTCCT
1 TTTTATTTCTAAATTTTTCACCATTTGGGTCAATTTAGAATATTTCCT
* * * * *
7515747 TTTTGATTTCTAAATTTTCCACCATTTTGGTCTATTTAGAATTTTTTTCT
1 TTTT-ATTTCTAAATTTTTCACCATTTGGGTCAATTTAGAA-TATTTCCT
**
7515797 TTTTAATTTCTAAATTTTTTGCCATTTGGG
1 TTTT-ATTTCTAAATTTTTCACCATTTGGG
7515827 AGAACTTAGA
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
46 4 0.06
47 28 0.43
48 3 0.05
50 30 0.46
ACGTcount: A:0.21, C:0.13, G:0.10, T:0.56
Consensus pattern (48 bp):
TTTTATTTCTAAATTTTTCACCATTTGGGTCAATTTAGAATATTTCCT
Found at i:7515811 original size:50 final size:46
Alignment explanation
Indices: 7515701--7515814 Score: 129
Period size: 47 Copynumber: 2.4 Consensus size: 46
7515691 TTTGTTTTTA
* *
7515701 TTTTATTTTTAAATTTTTCACCATTTGGGTCAATTTGAAATTTCCT
1 TTTTATTTCTAAATTTTCCACCATTTGGGTCAATTTGAAATTTCCT
* * * *
7515747 TTTTGATTTCTAAATTTTCCACCATTTTGGTCTATTTAGAATTTTTTTCT
1 TTTT-ATTTCTAAATTTTCCACCATTTGGGTCAATTT-GAA--ATTTCCT
7515797 TTTTAATTTCTAAATTTT
1 TTTT-ATTTCTAAATTTT
7515815 TTGCCATTTG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 4 0.07
47 28 0.49
48 3 0.05
50 22 0.39
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.58
Consensus pattern (46 bp):
TTTTATTTCTAAATTTTCCACCATTTGGGTCAATTTGAAATTTCCT
Found at i:7517626 original size:17 final size:18
Alignment explanation
Indices: 7517599--7517642 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
7517589 ATGTTAAAAA
*
7517599 TTCGCAAGAA-TATTAGG
1 TTCGTAAGAATTATTAGG
* *
7517616 TTTGTAAGAATTTTTAGG
1 TTCGTAAGAATTATTAGG
7517634 TTCGTAAGA
1 TTCGTAAGA
7517643 CATAAAGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.39
Consensus pattern (18 bp):
TTCGTAAGAATTATTAGG
Found at i:7517796 original size:15 final size:15
Alignment explanation
Indices: 7517785--7517815 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7517775 AAGATTCGCG
7517785 TTTAAGAGATTCACA
1 TTTAAGAGATTCACA
*
7517800 TTTGAGAGATTCACA
1 TTTAAGAGATTCACA
7517815 T
1 T
7517816 CCAAAGTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (15 bp):
TTTAAGAGATTCACA
Found at i:7518043 original size:97 final size:98
Alignment explanation
Indices: 7517929--7518108 Score: 272
Period size: 97 Copynumber: 1.8 Consensus size: 98
7517919 TTTTCAATTG
* * *
7517929 AGTTCAAATATTCACATTCGATAAATTTTAGAGTTTCACATTTAAATTC-AAGGTTCTCATTTAA
1 AGTTCAAAGATTCACATTCGATAAATTTTAAAGTTTCACATCTAAATTCAAAGGTTCTCATTTAA
*
7517993 AAAATTTGGGGTTCTCATCCACAAGTTCATTCA
66 AAAATTTAGGGTTCTCATCCACAAGTTCATTCA
* * * *
7518026 AGTTCAAAGATTCACATTCGATAGATTTTAAAGTTTCTCATCTAAATTCAAAGGTTCTTATTTTA
1 AGTTCAAAGATTCACATTCGATAAATTTTAAAGTTTCACATCTAAATTCAAAGGTTCTCATTTAA
*
7518091 AAAATTTAGGGTTTTCAT
66 AAAATTTAGGGTTCTCAT
7518109 TTAAAACTTC
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
97 44 0.60
98 29 0.40
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (98 bp):
AGTTCAAAGATTCACATTCGATAAATTTTAAAGTTTCACATCTAAATTCAAAGGTTCTCATTTAA
AAAATTTAGGGTTCTCATCCACAAGTTCATTCA
Found at i:7518195 original size:48 final size:49
Alignment explanation
Indices: 7518113--7518214 Score: 152
Period size: 51 Copynumber: 2.1 Consensus size: 49
7518103 TTTCATTTAA
* *
7518113 AACTTCTTAAAGATTCTCACTTAAAATTCTTTAAAGATTTTCATTATTTTT
1 AACTTCTTAAAGATTCTCACTTAAAA-T-TTTAAAGATTATCATCATTTTT
*
7518164 AACTTCTTAAAGATTCTCATTTAAAA-TTTAAAGATTATCATCATTTTT
1 AACTTCTTAAAGATTCTCACTTAAAATTTTAAAGATTATCATCATTTTT
7518212 AAC
1 AAC
7518215 ATTAAAAATG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
48 23 0.48
51 25 0.52
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.46
Consensus pattern (49 bp):
AACTTCTTAAAGATTCTCACTTAAAATTTTAAAGATTATCATCATTTTT
Found at i:7518820 original size:79 final size:79
Alignment explanation
Indices: 7518674--7518831 Score: 201
Period size: 79 Copynumber: 2.0 Consensus size: 79
7518664 TTTTTTTTTT
* * * * * *
7518674 TAGCTTCTTAACACTAGCAATTTCAAAATAAATTATGTCAGCTGATCCATATTATTTCCATCGTT
1 TAGCTTCTCAACACTAGCAATTTCAAAACAAATTATATCAGCTGATCCACATAATTTCCATCATT
7518739 TGATCACAACTCAC
66 TGATCACAACTCAC
* * * * *
7518753 TAGCTTCTCAGCACTAGCGATTTCAGAACAAATTTTATCCA-CTGATCCACATAATTTTCATCAT
1 TAGCTTCTCAACACTAGCAATTTCAAAACAAATTATAT-CAGCTGATCCACATAATTTCCATCAT
7518817 TTGATCACAACTCAC
65 TTGATCACAACTCAC
7518832 AGGTTAGGTC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
79 65 0.97
80 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.34
Consensus pattern (79 bp):
TAGCTTCTCAACACTAGCAATTTCAAAACAAATTATATCAGCTGATCCACATAATTTCCATCATT
TGATCACAACTCAC
Found at i:7519462 original size:35 final size:36
Alignment explanation
Indices: 7519423--7519504 Score: 89
Period size: 34 Copynumber: 2.3 Consensus size: 36
7519413 CTTCCTTTTC
*
7519423 TTTCATTTTTTTTTAATTTTTTCACATTCCTC-AT-T
1 TTTCATTTTTTTTCAATTTTTTCA-ATTCCTCTATAT
* * * *
7519458 TTTCA-CTTTTTTCATTTTTTTCATTTTCTCTATAT
1 TTTCATTTTTTTTCAATTTTTTCAATTCCTCTATAT
7519493 TTTCATTTTTTT
1 TTTCATTTTTTT
7519505 CATCATCCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
33 5 0.13
34 17 0.45
35 11 0.29
36 5 0.13
ACGTcount: A:0.15, C:0.16, G:0.00, T:0.70
Consensus pattern (36 bp):
TTTCATTTTTTTTCAATTTTTTCAATTCCTCTATAT
Found at i:7519505 original size:35 final size:34
Alignment explanation
Indices: 7519423--7519507 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 34
7519413 CTTCCTTTTC
* *
7519423 TTTCATTTTTTTTTAATTTTTTCACATTCCTCATT
1 TTTCA-TTTTTTTCATTTTTTTCACATTCCTCATT
* * *
7519458 TTTCACTTTTTTCATTTTTTTCA-TTTTCTCTATAT
1 TTTCATTTTTTTCATTTTTTTCACATTCCTC-AT-T
7519493 TTTCATTTTTTTCAT
1 TTTCATTTTTTTCAT
7519508 CATCCATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
33 5 0.12
34 17 0.40
35 20 0.48
ACGTcount: A:0.15, C:0.16, G:0.00, T:0.68
Consensus pattern (34 bp):
TTTCATTTTTTTCATTTTTTTCACATTCCTCATT
Found at i:7519506 original size:9 final size:9
Alignment explanation
Indices: 7519456--7519507 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
7519446 ACATTCCTCA
*
7519456 TTTTTCACT
1 TTTTTCATT
7519465 TTTTTCATT
1 TTTTTCATT
7519474 TTTTTCA-T
1 TTTTTCATT
*
7519482 TTTCTC-TAT
1 TTTTTCAT-T
*
7519491 ATTTTCATT
1 TTTTTCATT
7519500 TTTTTCAT
1 TTTTTCAT
7519508 CATCCATTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
8 6 0.17
9 28 0.80
10 1 0.03
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTTCATT
Found at i:7520449 original size:17 final size:19
Alignment explanation
Indices: 7520413--7520449 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
7520403 AAAATGATAA
7520413 AAAATAAAATCTTATTACAT
1 AAAATAAAATCTTA-TACAT
7520433 AAAA-AAAATCTTA-ACAT
1 AAAATAAAATCTTATACAT
7520450 TACTTTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAATAAAATCTTATACAT
Found at i:7522844 original size:15 final size:15
Alignment explanation
Indices: 7522824--7522868 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
7522814 TTCATTTCAA
7522824 TTTAATAATAATAAT
1 TTTAATAATAATAAT
7522839 TTTAATAATAATAA-
1 TTTAATAATAATAAT
7522853 --TAATAATAATAAT
1 TTTAATAATAATAAT
7522866 TTT
1 TTT
7522869 TAAAAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 12 0.44
15 15 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAATAATAATAAT
Found at i:7522885 original size:3 final size:3
Alignment explanation
Indices: 7522826--7522865 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
7522816 CATTTCAATT
**
7522826 TAA TAA TAA TAA TTT TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
7522866 TTTTAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:7522965 original size:23 final size:22
Alignment explanation
Indices: 7522933--7522981 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
7522923 TGCCACTGTC
7522933 GCCCCCGACCAGCCCCCTATCTA
1 GCCCCCGACCAGCCCCCTATC-A
* *
7522956 GCCCCTGACCAGCCCCCTGTCA
1 GCCCCCGACCAGCCCCCTATCA
7522978 GCCC
1 GCCC
7522982 ACCTATAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.14, C:0.57, G:0.16, T:0.12
Consensus pattern (22 bp):
GCCCCCGACCAGCCCCCTATCA
Found at i:7523948 original size:17 final size:19
Alignment explanation
Indices: 7523909--7523949 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
7523899 ATTTTTCTAA
**
7523909 TTTTTTGTTATATATTATT
1 TTTTTTGTTATATATTAAG
7523928 TTTTTTGTTAT-T-TTAAG
1 TTTTTTGTTATATATTAAG
7523945 TTTTT
1 TTTTT
7523950 ATATTTATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
19 11 0.55
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (19 bp):
TTTTTTGTTATATATTAAG
Found at i:7524241 original size:14 final size:13
Alignment explanation
Indices: 7524221--7524263 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
7524211 TAAGTTTTCA
*
7524221 TAAAAAAAAGATT
1 TAAAAAAAAAATT
7524234 TAAAAAAAAACATTT
1 TAAAAAAAAA-A-TT
7524249 TAAAATAAAAAATT
1 TAAAA-AAAAAATT
7524263 T
1 T
7524264 TTATGTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 9 0.35
14 4 0.15
15 8 0.31
16 5 0.19
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (13 bp):
TAAAAAAAAAATT
Found at i:7524266 original size:16 final size:15
Alignment explanation
Indices: 7524222--7524264 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
7524212 AAGTTTTCAT
*
7524222 AAAAAAAAGA-TTTA
1 AAAAAAAACATTTTA
7524236 AAAAAAAACATTTTA
1 AAAAAAAACATTTTA
7524251 AAATAAAAA-ATTTT
1 AAA-AAAAACATTTT
7524265 TATGTTTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.35
15 12 0.46
16 5 0.19
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (15 bp):
AAAAAAAACATTTTA
Found at i:7526245 original size:50 final size:50
Alignment explanation
Indices: 7526177--7526272 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
7526167 TTTATTTTTA
* * * *
7526177 TTTTATTTCTAAATTTTCCACCACTTGGGTCTATTTAG-AAATTTTCTCT
1 TTTTATTTCTAAAGTTTCCACAACTTGGGACAATTTAGAAAATTTTCTCT
*
7526226 TTTTAATTTCTAAAGTTTCCACAATTTGGGACAATTTAGAAAATTTT
1 TTTT-ATTTCTAAAGTTTCCACAACTTGGGACAATTTAGAAAATTTT
7526273 ATCATTAGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 4 0.10
50 29 0.73
51 7 0.17
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.48
Consensus pattern (50 bp):
TTTTATTTCTAAAGTTTCCACAACTTGGGACAATTTAGAAAATTTTCTCT
Found at i:7532243 original size:63 final size:63
Alignment explanation
Indices: 7532140--7532258 Score: 220
Period size: 63 Copynumber: 1.9 Consensus size: 63
7532130 CTACTATATT
7532140 TAATTTGATCTAAGTGTGATTTTATCATTATACTTGTAATTCAATTGAAAAATCAAAGTTAAC
1 TAATTTGATCTAAGTGTGATTTTATCATTATACTTGTAATTCAATTGAAAAATCAAAGTTAAC
* *
7532203 TAATTTGATCTAAGTGTGATTTTATCATTATACTTTTAATTCAATTGAAAATTCAA
1 TAATTTGATCTAAGTGTGATTTTATCATTATACTTGTAATTCAATTGAAAAATCAA
7532259 TCTTAACGCT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.44
Consensus pattern (63 bp):
TAATTTGATCTAAGTGTGATTTTATCATTATACTTGTAATTCAATTGAAAAATCAAAGTTAAC
Found at i:7535140 original size:2 final size:2
Alignment explanation
Indices: 7535133--7535169 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7535123 ACCAAACTGG
7535133 AT AT AT AT AT 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 AT AT AT AT AT A
7535170 CTATGTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7535551 original size:16 final size:17
Alignment explanation
Indices: 7535530--7535563 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7535520 TTATTTTTTG
7535530 ATTTGTA-TCCAAATAA
1 ATTTGTATTCCAAATAA
*
7535546 ATTTGTATTCTAAATAA
1 ATTTGTATTCCAAATAA
7535563 A
1 A
7535564 AAAGTTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (17 bp):
ATTTGTATTCCAAATAA
Found at i:7535632 original size:30 final size:29
Alignment explanation
Indices: 7535598--7535720 Score: 117
Period size: 30 Copynumber: 4.1 Consensus size: 29
7535588 ATTTAGGTAC
*
7535598 AAATTAAAGGTTAA-AGGCTTATTTGCGTGT
1 AAATTAAAGGTTAAGA-TCTTATTTG-GTGT
* *
7535628 AAATTAAAGGCTAAGATCTTATTTGAGTGC
1 AAATTAAAGGTTAAGATCTTATTTG-GTGT
* *
7535658 AAATTAATGGTTAAGATTTTATTTGGATGT
1 AAATTAAAGGTTAAGATCTTATTTGG-TGT
7535688 AAATTAAA-GTTAAGGGAT-TTATTTGGATGT
1 AAATTAAAGGTTAA--GATCTTATTTGG-TGT
7535718 AAA
1 AAA
7535721 AATAATATAT
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
29 6 0.08
30 70 0.88
31 4 0.05
ACGTcount: A:0.37, C:0.04, G:0.21, T:0.38
Consensus pattern (29 bp):
AAATTAAAGGTTAAGATCTTATTTGGTGT
Found at i:7536704 original size:21 final size:20
Alignment explanation
Indices: 7536675--7536713 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
7536665 TGAATAAAAA
*
7536675 TAATTATTATATGACATATGG
1 TAATAATTATATGA-ATATGG
*
7536696 TAATAATTATTTGAATAT
1 TAATAATTATATGAATAT
7536714 AAATAGATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (20 bp):
TAATAATTATATGAATATGG
Found at i:7542577 original size:4 final size:4
Alignment explanation
Indices: 7542568--7542600 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
7542558 TAAACAATAA
7542568 AAAT AAAT AAAT AAAT -AAT AAAT -AAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
7542601 ATACTTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 6 0.22
4 21 0.78
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:7542587 original size:7 final size:7
Alignment explanation
Indices: 7542558--7542599 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
7542548 TTTCACCAAC
*
7542558 TAAACAA
1 TAAATAA
7542565 TAAA-AA
1 TAAATAA
7542571 TAAATAAA
1 TAAAT-AA
7542579 TAAATAA
1 TAAATAA
7542586 TAAATAA
1 TAAATAA
7542593 TAAATAA
1 TAAATAA
7542600 AATACTTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.18
7 20 0.61
8 7 0.21
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAATAA
Found at i:7542594 original size:18 final size:18
Alignment explanation
Indices: 7542563--7542600 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
7542553 CCAACTAAAC
7542563 AATAAAAATAAATAAATA
1 AATAAAAATAAATAAATA
7542581 AATAATAAAT-AATAAATA
1 AATAA-AAATAAATAAATA
7542599 AA
1 AA
7542601 ATACTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AATAAAAATAAATAAATA
Found at i:7550141 original size:56 final size:57
Alignment explanation
Indices: 7550012--7550233 Score: 268
Period size: 56 Copynumber: 3.8 Consensus size: 57
7550002 TGCTTTCGTA
* ** *
7550012 CAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAAAAATATTGTTTTAAAAAAATTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTT-CCT--TAAAAATATT-TTTT-TGAAGATTATTTT
* *
7550074 CAA-AGAAAATTGATACTTTCAACTTTTCCTTGAAAATATTTTTTTGAAGATT-TATT
1 CAAGA-AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTGAAGATTATTTT
* *
7550130 CAAGAAAAATTGATACTTTCAAGTTTTTCTTAAAAATATTTTTTTGAAGACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTGAAGA-TTATTTT
* *
7550188 CAAGAAAAAATTGATACATTCAACTTTTCTTTAAAAATATTTTTTT
1 CAAG-AAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTT
7550234 TGTAATTTTA
Statistics
Matches: 141, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
56 48 0.34
57 8 0.06
58 11 0.08
59 45 0.32
61 4 0.03
62 25 0.18
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (57 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTGAAGATTATTTT
Found at i:7550225 original size:115 final size:117
Alignment explanation
Indices: 7550012--7550233 Score: 306
Period size: 115 Copynumber: 1.9 Consensus size: 117
7550002 TGCTTTCGTA
7550012 CAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAAAAATATTGTTTTAAAAAAATTATTTTCAA
1 CAAGAAAAATTGATACTTTCAACTTTTCCCT-AAAAAAATATTGTTTTAAAAAAATTATTTTCAA
* * *
7550077 AGAAAATTGATACTTTCAACTTTTCCTTGAAAATATTTTTTTGAAGATTTATT
65 AAAAAATTGATACATTCAACTTTTCCTTAAAAATATTTTTTTGAAGATTTATT
* * * ** * *
7550130 CAAGAAAAATTGATACTTTCAAGTTTT-TCT-TAAAAATATT-TTTTTGAAGACTTATTTTCAAG
1 CAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAAAATATTGTTTTAAAAAAATTATTTTCAA-
*
7550192 AAAAAATTGATACATTCAACTTTTCTTTAAAAATATTTTTTT
65 AAAAAATTGATACATTCAACTTTTCCTTAAAAATATTTTTTT
7550234 TGTAATTTTA
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
114 17 0.18
115 47 0.51
117 2 0.02
118 26 0.28
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (117 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAAAATATTGTTTTAAAAAAATTATTTTCAAA
AAAAATTGATACATTCAACTTTTCCTTAAAAATATTTTTTTGAAGATTTATT
Found at i:7550264 original size:4 final size:5
Alignment explanation
Indices: 7550251--7550315 Score: 69
Period size: 5 Copynumber: 12.4 Consensus size: 5
7550241 TTATTTAAAG
* *
7550251 AAAAT AAAAT -AAAT AAAAT AAAAAT AAAAAT AATGAT AAAAAT AGAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AA-AAT -AAAAT AAAAT
7550299 AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AA
7550316 GAAATACTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
4 4 0.08
5 31 0.60
6 15 0.29
7 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:7550355 original size:3 final size:3
Alignment explanation
Indices: 7550347--7550381 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
7550337 CCTATCAATA
*
7550347 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7550382 ATAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:7551190 original size:15 final size:15
Alignment explanation
Indices: 7551167--7551197 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7551157 AGATAATTTT
*
7551167 AATATAAAAATAATA
1 AATAGAAAAATAATA
7551182 AATAGAAAAATAATA
1 AATAGAAAAATAATA
7551197 A
1 A
7551198 TAAAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
AATAGAAAAATAATA
Found at i:7551251 original size:30 final size:29
Alignment explanation
Indices: 7551166--7551251 Score: 81
Period size: 30 Copynumber: 3.0 Consensus size: 29
7551156 AAGATAATTT
*
7551166 TAAT-ATAAAAATAAT-AAATAGAAAA-A
1 TAATAATAAAATTAATAAAATAGAAAATA
* *
7551192 TAATAATAAAATT-ATATCAACAGATAAATA
1 TAATAATAAAATTAATA-AAATAGA-AAATA
*
7551222 TAATAATAATATTAATAAAATAGTAAAATA
1 TAATAATAAAATTAATAAAATAG-AAAATA
7551252 AATTTAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
26 6 0.13
27 7 0.15
28 5 0.11
29 3 0.06
30 22 0.47
31 4 0.09
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.29
Consensus pattern (29 bp):
TAATAATAAAATTAATAAAATAGAAAATA
Found at i:7554158 original size:13 final size:13
Alignment explanation
Indices: 7554140--7554164 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7554130 ATTCTTTTTT
7554140 AATTAACTATCAA
1 AATTAACTATCAA
7554153 AATTAACTATCA
1 AATTAACTATCA
7554165 TTGTGTTCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
AATTAACTATCAA
Found at i:7577953 original size:275 final size:276
Alignment explanation
Indices: 7577462--7578020 Score: 994
Period size: 275 Copynumber: 2.0 Consensus size: 276
7577452 TTTGGGAACA
* *
7577462 TTCTCTTCTTAATTTTTCGTTCTCACAAGTCAAATCAACGATATTTATTTCTTTAGCCTTCACTA
1 TTCTCTTCTTAATTTTTCGTTCTCACAAGTCAAATCAACGATATTTATTTCTTTAACATTCACTA
*
7577527 ATATGCGTAATCTCTTATGCTATTGTCGTAGCTCCATCAATTCTGAAAGGGCATCATCACTCTCT
66 ATATGCGCAATCTCTTATGCTATTGTCGTAGCTCCATCAATTCTGAAAGGGCATCATCACTCTCT
* *
7577592 CTAGTAGCCCTTGGAGTCTTGCTTTCAACCTTTAATCTTTTACGTCGTTGATGAAGTTTAACCAA
131 CTAGTAGCCCTAGGAGTCTTGCTTTCAACCTTTAATCTTTTACGCCGTTGATGAAGTTTAACCAA
7577657 ATCCCTAACTACCTATCATGCTCTCTAGAAATCTCTCGAACTTAGACTTCTAACTTTT-TAATTT
196 ATCCCTAACTACCTATCATGCTCTCTAGAAATCTCTCGAACTTAGACTTCTAACTTTTCTAATTT
7577721 ATCTTTACACTACCCC
261 ATCTTTACACTACCCC
* * *
7577737 TTCTCTTCTTAATTTTTCGTTCTCACAAGTCAAATTAACGATATTTATTTTTTTAACATTCACTT
1 TTCTCTTCTTAATTTTTCGTTCTCACAAGTCAAATCAACGATATTTATTTCTTTAACATTCACTA
* *
7577802 GTATGCGCAATCTCTTATGCTATTGTCGTAGCTCCATCAATTCTGAAAGGGCATCGTCACTCTCT
66 ATATGCGCAATCTCTTATGCTATTGTCGTAGCTCCATCAATTCTGAAAGGGCATCATCACTCTCT
*
7577867 CTAGTAGCCCTAGGAGTCTTGCTTTCAACCTTTAATCTTTTGCGCCGTTGATGAAGTTTAACCAA
131 CTAGTAGCCCTAGGAGTCTTGCTTTCAACCTTTAATCTTTTACGCCGTTGATGAAGTTTAACCAA
*
7577932 ATCCCTAACTACCTATCATGCTCTCTAGAAATCTCTCGAACTTAGACTTCTAACTTTTCTACTTT
196 ATCCCTAACTACCTATCATGCTCTCTAGAAATCTCTCGAACTTAGACTTCTAACTTTTCTAATTT
*
7577997 ATCTTTACACTACCCT
261 ATCTTTACACTACCCC
7578013 TTCTCTTC
1 TTCTCTTC
7578021 ATGAAGCCTT
Statistics
Matches: 270, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
275 242 0.90
276 28 0.10
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.40
Consensus pattern (276 bp):
TTCTCTTCTTAATTTTTCGTTCTCACAAGTCAAATCAACGATATTTATTTCTTTAACATTCACTA
ATATGCGCAATCTCTTATGCTATTGTCGTAGCTCCATCAATTCTGAAAGGGCATCATCACTCTCT
CTAGTAGCCCTAGGAGTCTTGCTTTCAACCTTTAATCTTTTACGCCGTTGATGAAGTTTAACCAA
ATCCCTAACTACCTATCATGCTCTCTAGAAATCTCTCGAACTTAGACTTCTAACTTTTCTAATTT
ATCTTTACACTACCCC
Found at i:7580912 original size:24 final size:24
Alignment explanation
Indices: 7580880--7580962 Score: 64
Period size: 24 Copynumber: 3.4 Consensus size: 24
7580870 TACTTAAAAT
7580880 AATAAAAAAAAAC-AAGTAAAATGA
1 AATAAAAAAAAACTAAG-AAAATGA
* *
7580904 AATAGAAAATAACTAAGAAAAT-A
1 AATAAAAAAAAACTAAGAAAATGA
* *
7580927 TATAAAAATAAAA-TAAATGAAAATGT
1 AATAAAAA-AAAACT-AA-GAAAATGA
*
7580953 AATTAAAAAA
1 AATAAAAAAA
7580963 TGAAAAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
23 8 0.17
24 21 0.46
25 11 0.24
26 6 0.13
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.19
Consensus pattern (24 bp):
AATAAAAAAAAACTAAGAAAATGA
Found at i:7581776 original size:3 final size:3
Alignment explanation
Indices: 7581768--7581822 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
7581758 TATAAACAAG
7581768 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
7581816 ATA ATA A
1 ATA ATA A
7581823 ACACAATATG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7582654 original size:30 final size:30
Alignment explanation
Indices: 7582618--7582705 Score: 131
Period size: 30 Copynumber: 2.9 Consensus size: 30
7582608 CATACATATC
*
7582618 TTTAATTGGATAAAAATAAATGTTTAAAGA
1 TTTAATTGGATAAAAATAAATATTTAAAGA
* * * *
7582648 TTTAATTGAATGAAAATATATATTTAAGGA
1 TTTAATTGGATAAAAATAAATATTTAAAGA
7582678 TTTAATTGGATAAAAATAAATATTTAAA
1 TTTAATTGGATAAAAATAAATATTTAAA
7582706 TCTCAATTGA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (30 bp):
TTTAATTGGATAAAAATAAATATTTAAAGA
Found at i:7587012 original size:15 final size:16
Alignment explanation
Indices: 7586983--7587015 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7586973 ACCGTAAACT
7586983 TTTTCACTAAAAGTTA
1 TTTTCACTAAAAGTTA
*
7586999 TTTT-ACTAAGAGTTA
1 TTTTCACTAAAAGTTA
7587014 TT
1 TT
7587016 CCACAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.48
Consensus pattern (16 bp):
TTTTCACTAAAAGTTA
Found at i:7588838 original size:18 final size:18
Alignment explanation
Indices: 7588802--7588841 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7588792 TACTAAATAC
*
7588802 TATTTAATAATGTTGTAA
1 TATTTAATAATATTGTAA
* *
7588820 TATTTAATATTATTTTAA
1 TATTTAATAATATTGTAA
7588838 TATT
1 TATT
7588842 AATTATTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
TATTTAATAATATTGTAA
Found at i:7588848 original size:25 final size:26
Alignment explanation
Indices: 7588820--7588871 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
7588810 AATGTTGTAA
* *
7588820 TATTTAATATTAT-TTTAATATTAAT
1 TATTAAATATTATATTAAATATTAAT
7588845 TATTAAATATTATATTAAATATTAAT
1 TATTAAATATTATATTAAATATTAAT
7588871 T
1 T
7588872 TAACAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TATTAAATATTATATTAAATATTAAT
Found at i:7588862 original size:12 final size:12
Alignment explanation
Indices: 7588819--7588868 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
7588809 TAATGTTGTA
*
7588819 ATATTTAATATT
1 ATATTAAATATT
*
7588831 AT-TTTAATATT
1 ATATTAAATATT
7588842 AATTATTAAATATT
1 -A-TATTAAATATT
7588856 ATATTAAATATT
1 ATATTAAATATT
7588868 A
1 A
7588869 ATTTAACAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
11 9 0.26
12 15 0.44
13 2 0.06
14 8 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
ATATTAAATATT
Found at i:7588879 original size:26 final size:26
Alignment explanation
Indices: 7588825--7588933 Score: 73
Period size: 26 Copynumber: 4.2 Consensus size: 26
7588815 TGTAATATTT
* *
7588825 AATATTAT-TTTAATATTAATTATTA-
1 AATATTATATTAAATATTAATT-TAAC
7588850 AATATTATATTAAATATTAATTTAAC
1 AATATTATATTAAATATTAATTTAAC
* * * **
7588876 AATATTTAATATAAAAAAAT-ATTT-TT
1 AATA-TT-ATATTAAATATTAATTTAAC
* * *
7588902 AATTTTATATTCAATATTGATTTAAC
1 AATATTATATTAAATATTAATTTAAC
7588928 AATATT
1 AATATT
7588934 TTAATGTTAT
Statistics
Matches: 63, Mismatches: 15, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
24 8 0.13
25 16 0.25
26 24 0.38
27 6 0.10
28 9 0.14
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.50
Consensus pattern (26 bp):
AATATTATATTAAATATTAATTTAAC
Found at i:7588999 original size:10 final size:10
Alignment explanation
Indices: 7588986--7589082 Score: 52
Period size: 10 Copynumber: 9.3 Consensus size: 10
7588976 ATATTAATTT
7588986 AATAATATTA
1 AATAATATTA
* *
7588996 AATATTATTG
1 AATAATATTA
*
7589006 AACAATATTA
1 AATAATATTA
* *
7589016 AATATTAATTT
1 AATAAT-ATTA
*
7589027 AATCATATTA
1 AATAATATTA
*
7589037 ATTATTAA-ATTT
1 A--A-TAATATTA
*
7589049 AATAATATTC
1 AATAATATTA
* *
7589059 AATATTAATCA
1 AATAAT-ATTA
7589070 AATAATATTA
1 AATAATATTA
7589080 AAT
1 AAT
7589083 TTTAATTATA
Statistics
Matches: 62, Mismatches: 19, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
9 3 0.05
10 38 0.61
11 14 0.23
12 5 0.08
13 2 0.03
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (10 bp):
AATAATATTA
Found at i:7588999 original size:21 final size:21
Alignment explanation
Indices: 7588975--7589102 Score: 152
Period size: 21 Copynumber: 6.1 Consensus size: 21
7588965 AATATTAATC
7588975 AATATTAATTTAATAATATTA
1 AATATTAATTTAATAATATTA
* *
7588996 AATATT-ATTGAACAATATTA
1 AATATTAATTTAATAATATTA
*
7589016 AATATTAATTTAATCATATTA
1 AATATTAATTTAATAATATTA
* *
7589037 ATTATTAAATTTAATAATATTC
1 AATATT-AATTTAATAATATTA
**
7589059 AATATTAATCAAATAATATTA
1 AATATTAATTTAATAATATTA
*
7589080 AATTTTAATTATAA-AATATTA
1 AATATTAATT-TAATAATATTA
7589101 AA
1 AA
7589103 GATTTCCTAA
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
20 18 0.20
21 51 0.57
22 20 0.22
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.45
Consensus pattern (21 bp):
AATATTAATTTAATAATATTA
Found at i:7589014 original size:20 final size:20
Alignment explanation
Indices: 7588975--7589022 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
7588965 AATATTAATC
* *
7588975 AATATTAATTTAATAATATTA
1 AATATT-ATTGAACAATATTA
7588996 AATATTATTGAACAATATTA
1 AATATTATTGAACAATATTA
7589016 AATATTA
1 AATATTA
7589023 ATTTAATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
AATATTATTGAACAATATTA
Found at i:7589054 original size:16 final size:16
Alignment explanation
Indices: 7588957--7589067 Score: 74
Period size: 14 Copynumber: 7.1 Consensus size: 16
7588947 AATAAAATTT
*
7588957 TAATACTAAATATTAA
1 TAATATTAAATATTAA
7588973 TCAATATT-AAT-TTAA
1 T-AATATTAAATATTAA
7588988 TAATATTAAATATTATTGAA
1 TAATATT-AA-A-TATT-AA
*
7589008 CAATATTAAATATTAA
1 TAATATTAAATATTAA
* * *
7589024 T-TTAAT-CATATTAA
1 TAATATTAAATATTAA
7589038 T--TATTAAAT-TTAA
1 TAATATTAAATATTAA
*
7589051 TAATATTCAATATTAA
1 TAATATTAAATATTAA
7589067 T
1 T
7589068 CAAATAATAT
Statistics
Matches: 75, Mismatches: 9, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
13 8 0.11
14 16 0.21
15 15 0.20
16 12 0.16
17 10 0.13
18 2 0.03
19 4 0.05
20 8 0.11
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.45
Consensus pattern (16 bp):
TAATATTAAATATTAA
Found at i:7589078 original size:43 final size:41
Alignment explanation
Indices: 7588973--7589082 Score: 139
Period size: 43 Copynumber: 2.6 Consensus size: 41
7588963 TAAATATTAA
7588973 TCAATATTAATTTAATAATATTAAATATTATTGAACAATAT
1 TCAATATTAATTTAATAATATTAAATATTATTGAACAATAT
* * * * *
7589014 TAAATATTAATTTAATCATATTAATTATTAAATTTAATAATAT
1 TCAATATTAATTTAATAATATTAAATATT--ATTGAACAATAT
**
7589057 TCAATATTAATCAAATAATATTAAAT
1 TCAATATTAATTTAATAATATTAAAT
7589083 TTTAATTATA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 26 0.46
43 31 0.54
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.45
Consensus pattern (41 bp):
TCAATATTAATTTAATAATATTAAATATTATTGAACAATAT
Found at i:7589215 original size:11 final size:11
Alignment explanation
Indices: 7589151--7589485 Score: 84
Period size: 11 Copynumber: 32.2 Consensus size: 11
7589141 GACTTTAATA
7589151 TTTAATATTAT
1 TTTAATATTAT
**
7589162 TTTGGTGA-TA-
1 TTTAAT-ATTAT
*
7589172 TTTAATTTTAT
1 TTTAATATTAT
7589183 GTGTTAACTATTAAT
1 -T-TTAA-TATT-AT
*
7589198 TTAAATATTAT
1 TTTAATATTAT
7589209 TTTAATATTAAAT
1 TTTAATATT--AT
*
7589222 ATTAAT-TTA-
1 TTTAATATTAT
** * *
7589231 ACTAATTTTTT
1 TTTAATATTAT
7589242 ATTTAATATTAT
1 -TTTAATATTAT
*
7589254 TTTAGTATTA-
1 TTTAATATTAT
* *
7589264 ---AATAGTAA
1 TTTAATATTAT
* *
7589272 TTGAATAATAT
1 TTTAATATTAT
7589283 TTTAATATTA-
1 TTTAATATTAT
*
7589293 TTTAAT-TAAT
1 TTTAATATTAT
7589303 TTT-ATCA-TA-
1 TTTAAT-ATTAT
*
7589312 TTTAATGTTAT
1 TTTAATATTAT
*
7589323 TTT-ATATTAA
1 TTTAATATTAT
* *
7589333 ATTATTAATT-T
1 TTTAAT-ATTAT
7589344 TTTAA-A--AT
1 TTTAATATTAT
*
7589352 TTAAATATT-T
1 TTTAATATTAT
*
7589362 TTTAATAATA-
1 TTTAATATTAT
7589372 TTT--TATTA-
1 TTTAATATTAT
* *
7589380 CTAAATATTAT
1 TTTAATATTAT
7589391 TTTAATGA-TAT
1 TTTAAT-ATTAT
7589402 TATT-ATATTAT
1 T-TTAATATTAT
*
7589413 TTTAATAATAT
1 TTTAATATTAT
* *
7589424 TATAATTTTAT
1 TTTAATATTAT
*
7589435 TTTAATAATAT
1 TTTAATATTAT
*
7589446 TTT-ATATGA-
1 TTTAATATTAT
7589455 ---AATATTA-
1 TTTAATATTAT
*
7589462 TTTAATAATAT
1 TTTAATATTAT
7589473 TTTAATATTAT
1 TTTAATATTAT
7589484 TT
1 TT
7589486 AATTAATGAA
Statistics
Matches: 231, Mismatches: 52, Indels: 82
0.63 0.14 0.22
Matches are distributed among these distances:
7 10 0.04
8 10 0.04
9 14 0.06
10 59 0.26
11 97 0.42
12 21 0.09
13 14 0.06
14 4 0.02
15 2 0.01
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (11 bp):
TTTAATATTAT
Found at i:7589221 original size:18 final size:17
Alignment explanation
Indices: 7589193--7589231 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
7589183 GTGTTAACTA
*
7589193 TTAATTTAAATATTATT
1 TTAATTTAAATATTAAT
7589210 TTAATATTAAATATTAAT
1 TTAAT-TTAAATATTAAT
7589228 TTAA
1 TTAA
7589232 CTAATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTAATTTAAATATTAAT
Found at i:7589242 original size:30 final size:28
Alignment explanation
Indices: 7589186--7589257 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 28
7589176 ATTTTATGTG
*
7589186 TTAACTATTAATTTAAATATTATTTTAAT
1 TTAAATATTAATTTAAATATTATTTT-AT
*
7589215 ATTAAATATTAATTTAACTAATT-TTTTAT
1 -TTAAATATTAATTTAAAT-ATTATTTTAT
*
7589244 TT-AATATTATTTTA
1 TTAAATATTAATTTA
7589258 GTATTAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
27 11 0.29
28 2 0.05
29 2 0.05
30 20 0.53
31 3 0.08
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (28 bp):
TTAAATATTAATTTAAATATTATTTTAT
Found at i:7589256 original size:45 final size:45
Alignment explanation
Indices: 7589196--7589286 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
7589186 TTAACTATTA
* * *
7589196 ATTTAAATATTATTTTAATATTAAATATTAATTTAACTAATTTTTT
1 ATTTAAATATTATTTTAATATTAAATAGTAATTGAA-TAATATTTT
*
7589242 ATTT-AATATTATTTTAGTATTAAATAGTAATTGAATAATATTTT
1 ATTTAAATATTATTTTAATATTAAATAGTAATTGAATAATATTTT
7589286 A
1 A
7589287 ATATTATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 9 0.22
45 28 0.68
46 4 0.10
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (45 bp):
ATTTAAATATTATTTTAATATTAAATAGTAATTGAATAATATTTT
Found at i:7589267 original size:18 final size:17
Alignment explanation
Indices: 7589198--7589267 Score: 55
Period size: 18 Copynumber: 4.4 Consensus size: 17
7589188 AACTATTAAT
7589198 TTAAATATTATTTTAATA
1 TTAAATATTATTTT-ATA
*
7589216 TTAAATATTAATTTA-A
1 TTAAATATTATTTTATA
*
7589232 CT--A-ATT-TTTTAT-
1 TTAAATATTATTTTATA
7589244 TT-AATATTATTTTAGTA
1 TTAAATATTATTTTA-TA
7589261 TTAAATA
1 TTAAATA
7589268 GTAATTGAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
12 5 0.12
13 4 0.10
14 4 0.10
15 5 0.12
16 3 0.07
17 3 0.07
18 17 0.41
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (17 bp):
TTAAATATTATTTTATA
Found at i:7589302 original size:22 final size:22
Alignment explanation
Indices: 7589277--7589550 Score: 83
Period size: 22 Copynumber: 12.8 Consensus size: 22
7589267 AGTAATTGAA
7589277 TAATATTTTAATATTATTTAAT
1 TAATATTTTAATATTATTTAAT
7589299 T-A-ATTTT-ATCA-TATTTAAT
1 TAATATTTTAAT-ATTATTTAAT
*
7589318 GT--TATTTT-ATATTAAATT-AT
1 -TAATATTTTAATATT-ATTTAAT
* *
7589338 TAATTTTTTAA-A--ATTTAAA
1 TAATATTTTAATATTATTTAAT
* * *
7589357 T-ATTTTTTAATAATATTTTAT
1 TAATATTTTAATATTATTTAAT
*
7589378 TACTA----AATATTATTTTAA-
1 TAATATTTTAATATTA-TTTAAT
*
7589396 TGATATTATT-ATATTATTTTAA-
1 TAATATT-TTAATATTA-TTTAAT
* *
7589418 TAATATTATAATTTTATTTTAA-
1 TAATATTTTAATATTA-TTTAAT
7589440 TAATATTTTATATGAAATATTATTTAA-
1 TAATA--TT-T-T--AATATTATTTAAT
7589467 TAATATTTTAATATTATTTAAT
1 TAATATTTTAATATTATTTAAT
* *
7589489 TAATGAACTATTATATTTTATTTAAT
1 TAAT--A-TTTTA-ATATTATTTAAT
* * *
7589515 TAA-A--TTAATAATATTAAAA
1 TAATATTTTAATATTATTTAAT
*
7589534 TAATATTTTAATTTTAT
1 TAATATTTTAATATTAT
7589551 GTATTAACTA
Statistics
Matches: 193, Mismatches: 25, Indels: 68
0.67 0.09 0.24
Matches are distributed among these distances:
18 21 0.11
19 30 0.16
20 21 0.11
21 29 0.15
22 49 0.25
23 2 0.01
24 4 0.02
25 6 0.03
26 15 0.08
27 10 0.05
28 6 0.03
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (22 bp):
TAATATTTTAATATTATTTAAT
Found at i:7589324 original size:40 final size:40
Alignment explanation
Indices: 7589275--7589379 Score: 99
Period size: 40 Copynumber: 2.6 Consensus size: 40
7589265 ATAGTAATTG
* * *
7589275 AATAATATTTTAATATTATTTAATTAATTTTATCATATTT-
1 AATATTATTTTAATATTATTT-ATTAATTTTATAAAATTTA
* * *
7589315 AATGTTATTTT-ATATTAAATTATTAATTTTTTAAAATTTA
1 AATATTATTTTAATATT-ATTTATTAATTTTATAAAATTTA
*
7589355 AATATT-TTTTAATAATATTTTATTA
1 AATATTATTTTAATATTA-TTTATTA
7589380 CTAAATATTA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
39 25 0.48
40 27 0.52
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (40 bp):
AATATTATTTTAATATTATTTATTAATTTTATAAAATTTA
Found at i:7589354 original size:39 final size:40
Alignment explanation
Indices: 7589280--7589368 Score: 94
Period size: 39 Copynumber: 2.2 Consensus size: 40
7589270 AATTGAATAA
* * *
7589280 TATTTTAATATTATTTAATTAATTTTATCATATTTAATGT
1 TATTTTAATATTAATTAATTAATTTTATAAAATTTAATGT
* *
7589320 TATTTT-ATATTAAATT-ATTAATTTTTTAAAATTTAAATAT
1 TATTTTAATATT-AATTAATTAATTTTATAAAATTT-AATGT
7589360 T-TTTTAATA
1 TATTTTAATA
7589369 ATATTTTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
39 24 0.59
40 17 0.41
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (40 bp):
TATTTTAATATTAATTAATTAATTTTATAAAATTTAATGT
Found at i:7589359 original size:69 final size:67
Alignment explanation
Indices: 7589208--7589394 Score: 200
Period size: 69 Copynumber: 2.8 Consensus size: 67
7589198 TTAAATATTA
*
7589208 TTTTAATA-TTAAATATTAATTTAACTAATTTT-TTATTTAATATTATTTTAGTATTAAATAGTA
1 TTTTAATATTTAAATATT-ATTTAATTAATTTTATTATTTAATATTATTTTAGTATTAAATAGTA
7589271 ATT
65 ATT
*** * * *
7589274 GAATAATATTTTAATATTATTTAATTAATTTTATCATATTTAATGTTATTTTA-TATTAAATTAT
1 TTTTAATATTTAAATATTATTTAATTAATTTTAT--TATTTAATATTATTTTAGTATTAAA-TAG
7589338 TAATT
63 TAATT
* * * * *
7589343 TTTTAAAATTTAAATATTTTTTAATAATATTTTATTACTAAATATTATTTTA
1 TTTTAATATTTAAATATTATTTAATTA-ATTTTATTATTTAATATTATTTTA
7589395 ATGATATTAT
Statistics
Matches: 98, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
66 18 0.18
67 9 0.09
68 21 0.21
69 43 0.44
70 7 0.07
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (67 bp):
TTTTAATATTTAAATATTATTTAATTAATTTTATTATTTAATATTATTTTAGTATTAAATAGTAA
TT
Found at i:7589388 original size:182 final size:181
Alignment explanation
Indices: 7589199--7589887 Score: 508
Period size: 186 Copynumber: 3.8 Consensus size: 181
7589189 ACTATTAATT
*
7589199 TAAATATTATTTTAATATTAAATATTAATTTAACTAAT-TTTTTA-TTTAATATTATTTTAGTAT
1 TAAATATTATTTTAATATTAAATATTAATTTAACTAATATTTTTATTTTAATAATATTTTA-TAT
7589262 TAAATAGTAATTGAATAATATTTTAATATTATTTAATTAATTTTATCATATTTAATGTTATTTTA
65 TAAATA-TAATTGAATAATATTTTAATATTATTTAATTAATTTTATCATATTTAATGTTATTTTA
*
7589327 TATTAAATTATTAATTTTTTAAAATTTAAATATTTTTTAATAATATTTTATTAC
129 TATTAAATTATTAATTTTTTAAAATTTTAATATTTTTTAATAATATTTTATT-C
* *
7589381 TAAATATTATTTTAATGATATTATTATATTATTTTAA-TAATATTATAATTTTATTTTAATAATA
1 TAAATATTATTTT-A--ATATTA-AATATTAATTTAACT-A-A-TAT--TTTTATTTTAATAATA
* * * * * *
7589445 TTTTATATGAAATATTATTTAATAATATTTTAATATTATTTAATTAA--TGAAC-TA-TTATATT
57 TTTTATATTAAATATAATTGAATAATATTTTAATATTATTTAATTAATTTTATCATATTTA-ATG
* ** * * * *
7589506 TTA-TTTA-ATTAAATTAATAATATTAAAATAATATTTTAAT-TTTATGTATTAACTA-TTAATT
121 TTATTTTATATTAAATTATTAAT-TT--TTTAAAATTTTAATATTT-TTTAATAA-TATTTTATT
7589567 -
181 C
* * * *
7589567 TAATTATTATTTTAATCTTAAATGTTAATTTAACAAATTTAATGTTTAATATTTTAATAATATTT
1 TAAATATTATTTTAATATTAAATATTAATTTAACTAA--T-AT-TTT--TATTTTAATAATATTT
*
7589632 TAATATTAAATATTAATTGGAA-AATATTTTAATATTATTTAATTAATTTTATAATATTTTAATG
60 T-ATATTAAATA-TAATT-GAATAATATTTTAATATTATTTAATTAATTTTATCATA-TTTAATG
* * * * *
7589696 TTATTTTAATATTAGATAGGAAAATATTGATTTTTTAAATTTTTACTATCATTTTAATAATATTT
121 TTATTTT-ATA-T---T---AAATTATTAATTTTTTAAAATTTTAATAT-TTTTTAATAATATTT
7589761 TAATTC
177 T-ATTC
*
7589767 TAAATATTATTTT-A-A-T--A-A-T-A--T-A-T-A-ATTTTTATTTTAATAATATTTTATAGT
1 TAAATATTATTTTAATATTAAATATTAATTTAACTAATATTTTTATTTTAATAATATTTTATATT
* *
7589818 AAATATTAATTTG-TTAATATTTTAATATTATTTAATTAA--TTATC-TATTATAATTTTA-TTT
66 AAATA-TAA-TTGAATAATATTTTAATATTATTTAATTAATTTTATCATATT-TAATGTTATTTT
7589878 -TATTAAATTA
128 ATATTAAATTA
7589888 ATATTAACTA
Statistics
Matches: 407, Mismatches: 52, Indels: 112
0.71 0.09 0.20
Matches are distributed among these distances:
166 5 0.01
169 1 0.00
172 1 0.00
173 2 0.00
175 5 0.01
176 9 0.02
177 4 0.01
179 38 0.09
180 19 0.05
181 1 0.00
182 32 0.08
183 10 0.02
184 17 0.04
185 30 0.07
186 61 0.15
187 14 0.03
188 27 0.07
189 6 0.01
190 37 0.09
191 19 0.05
192 16 0.04
193 2 0.00
194 1 0.00
195 1 0.00
197 13 0.03
198 9 0.02
199 7 0.02
200 20 0.05
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (181 bp):
TAAATATTATTTTAATATTAAATATTAATTTAACTAATATTTTTATTTTAATAATATTTTATATT
AAATATAATTGAATAATATTTTAATATTATTTAATTAATTTTATCATATTTAATGTTATTTTATA
TTAAATTATTAATTTTTTAAAATTTTAATATTTTTTAATAATATTTTATTC
Found at i:7589629 original size:11 final size:11
Alignment explanation
Indices: 7589613--7589706 Score: 52
Period size: 11 Copynumber: 8.2 Consensus size: 11
7589603 ATTTAATGTT
7589613 TAATATTTTAA
1 TAATATTTTAA
7589624 TAATATTTTAATA
1 TAATATTTT-A-A
7589637 TTAAATATTAATTGGAA
1 -T-AATATT--TT--AA
7589654 -AATATTTTAA
1 TAATATTTTAA
*
7589664 TATTA-TTTAA
1 TAATATTTTAA
*
7589674 TTA-ATTTT-A
1 TAATATTTTAA
7589683 TAATATTTTAA
1 TAATATTTTAA
**
7589694 TGTTATTTTAA
1 TAATATTTTAA
7589705 TA
1 TA
7589707 TTAGATAGGA
Statistics
Matches: 64, Mismatches: 8, Indels: 22
0.68 0.09 0.23
Matches are distributed among these distances:
9 4 0.06
10 16 0.25
11 23 0.36
12 3 0.05
13 1 0.02
14 7 0.11
15 6 0.09
17 3 0.05
18 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (11 bp):
TAATATTTTAA
Found at i:7589679 original size:30 final size:29
Alignment explanation
Indices: 7589625--7589701 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 29
7589615 ATATTTTAAT
**
7589625 AATATTTTAATATTAAATATTAATTGGAA
1 AATATTTTAATATTATTTATTAATTGGAA
** *
7589654 AATATTTTAATATTATTTAATTAATTTTAT
1 AATATTTTAATATTATTT-ATTAATTGGAA
*
7589684 AATATTTTAATGTTATTT
1 AATATTTTAATATTATTT
7589702 TAATATTAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 16 0.39
30 25 0.61
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (29 bp):
AATATTTTAATATTATTTATTAATTGGAA
Found at i:7589705 original size:19 final size:18
Alignment explanation
Indices: 7589656--7589708 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
7589646 AATTGGAAAA
7589656 TATTTTAATATTATTTAATT
1 TATTTTAATA-T-TTTAATT
*
7589676 AATTTTATAATATTTTAATGT
1 TA-TTT-TAATATTTTAAT-T
7589697 TATTTTAATATT
1 TATTTTAATATT
7589709 AGATAGGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
19 7 0.25
20 10 0.36
21 6 0.21
22 5 0.18
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TATTTTAATATTTTAATT
Found at i:7589778 original size:29 final size:28
Alignment explanation
Indices: 7589746--7589843 Score: 84
Period size: 28 Copynumber: 3.7 Consensus size: 28
7589736 TTTTACTATC
7589746 ATTTTAATAATATTTTAATTCTAAATATT
1 ATTTTAATAATATTTTAATT-TAAATATT
*
7589775 ATTTTAATAATA-TATAA-TT---T-TT
1 ATTTTAATAATATTTTAATTTAAATATT
*
7589797 ATTTTAATAATATTTT-ATAGTAAATATT
1 ATTTTAATAATATTTTAAT-TTAAATATT
* **
7589825 AATTTGTTAATATTTTAAT
1 ATTTTAATAATATTTTAAT
7589844 ATTATTTAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
22 15 0.27
23 3 0.05
24 1 0.02
26 1 0.02
27 2 0.04
28 19 0.35
29 14 0.25
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (28 bp):
ATTTTAATAATATTTTAATTTAAATATT
Found at i:7589892 original size:27 final size:26
Alignment explanation
Indices: 7589831--7589893 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
7589821 TATTAATTTG
*
7589831 TTAATATTTTAATATTATTTAATTAA
1 TTAATATTATAATATTATTTAATTAA
* * *
7589857 TTATCTATTATAATTTTATTTTATTAAA
1 TTA-ATATTATAATATTATTTAATT-AA
7589885 TTAATATTA
1 TTAATATTA
7589894 ACTAGTTGGA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.10
27 22 0.73
28 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (26 bp):
TTAATATTATAATATTATTTAATTAA
Found at i:7590513 original size:3 final size:3
Alignment explanation
Indices: 7590505--7590530 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7590495 ATATTTTCAA
7590505 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
7590531 CAGCAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7596553 original size:54 final size:54
Alignment explanation
Indices: 7596315--7596554 Score: 133
Period size: 54 Copynumber: 4.5 Consensus size: 54
7596305 TAAAGGAAAT
* * * *
7596315 AGTTAAAATATCAATTTTT-TTAAAATGAAATTATTTTAAAAAATTAAGAAAAATAA
1 AGTTAAAATATCAATTTTTCCTAAGATAAAATTATTTCAAAAAATTAAG--AAA-AA
* *** * *
7596371 AGTTTAAATATCAATTTTTCCT----T--AAGCCTTT-GAAAGATCT-AGAAAAAA
1 AGTTAAAATATCAATTTTTCCTAAGATAAAATTATTTCAAAAAAT-TAAG-AAAAA
* *** *
7596419 AGTTAAAATATCAATTTTTCCTTAAAATAAAATTATTTTGGAAAATTAAG-GAAA
1 AGTTAAAATATCAATTTTTCC-TAAGATAAAATTATTTCAAAAAATTAAGAAAAA
** * * * *
7596473 CTTTGAAATATTAATTCTTTCTTAAGATAAAATT-TTTCAAAAATATTTAGAAAAA
1 AGTTAAAATATCAATT-TTTCCTAAGATAAAATTATTTCAAAAA-ATTAAGAAAAA
*
7596528 AGTTAAAATATCAAATTTTCCTAAGAT
1 AGTTAAAATATCAATTTTTCCTAAGAT
7596555 TGAGAAAAAT
Statistics
Matches: 139, Mismatches: 31, Indels: 30
0.69 0.16 0.15
Matches are distributed among these distances:
48 22 0.16
49 5 0.04
50 7 0.05
51 6 0.04
53 8 0.06
54 41 0.29
55 24 0.17
56 25 0.18
57 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (54 bp):
AGTTAAAATATCAATTTTTCCTAAGATAAAATTATTTCAAAAAATTAAGAAAAA
Found at i:7597312 original size:118 final size:118
Alignment explanation
Indices: 7597181--7597418 Score: 476
Period size: 118 Copynumber: 2.0 Consensus size: 118
7597171 TATTAATACT
7597181 AATGTTCTCAGTCAAATTGCTGATATGGTATGAAAATGCTAATACATGTTAAAAAATTTAGTCAA
1 AATGTTCTCAGTCAAATTGCTGATATGGTATGAAAATGCTAATACATGTTAAAAAATTTAGTCAA
7597246 CACGATATCATCATTGCCACACTAATATTAAAGGAAATTTTCTAAAAAATCTA
66 CACGATATCATCATTGCCACACTAATATTAAAGGAAATTTTCTAAAAAATCTA
7597299 AATGTTCTCAGTCAAATTGCTGATATGGTATGAAAATGCTAATACATGTTAAAAAATTTAGTCAA
1 AATGTTCTCAGTCAAATTGCTGATATGGTATGAAAATGCTAATACATGTTAAAAAATTTAGTCAA
7597364 CACGATATCATCATTGCCACACTAATATTAAAGGAAATTTTCTAAAAAATCTA
66 CACGATATCATCATTGCCACACTAATATTAAAGGAAATTTTCTAAAAAATCTA
7597417 AA
1 AA
7597419 AAAATTAAAA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 120 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (118 bp):
AATGTTCTCAGTCAAATTGCTGATATGGTATGAAAATGCTAATACATGTTAAAAAATTTAGTCAA
CACGATATCATCATTGCCACACTAATATTAAAGGAAATTTTCTAAAAAATCTA
Found at i:7597429 original size:18 final size:18
Alignment explanation
Indices: 7597406--7597508 Score: 75
Period size: 18 Copynumber: 5.6 Consensus size: 18
7597396 GGAAATTTTC
*
7597406 TAAAAAATCTAAAAAAAT
1 TAAAAAATTTAAAAAAAT
*
7597424 TAAAAATTTTAACAAAAAT
1 TAAAAAATTTAA-AAAAAT
* *
7597443 CTAAAACATTTTTAAAAAAT
1 -TAAAA-AATTTAAAAAAAT
*
7597463 TAAAGAAAATT-AAAAAAT
1 TAAA-AAATTTAAAAAAAT
* * *
7597481 TAAATATTTTTAAAAAAT
1 TAAAAAATTTAAAAAAAT
*
7597499 T-TAAAATTTA
1 TAAAAAATTTA
7597509 TTAAAACTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
17 8 0.12
18 29 0.43
19 13 0.19
20 12 0.18
21 6 0.09
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (18 bp):
TAAAAAATTTAAAAAAAT
Found at i:7597440 original size:19 final size:18
Alignment explanation
Indices: 7597417--7597527 Score: 107
Period size: 18 Copynumber: 5.9 Consensus size: 18
7597407 AAAAAATCTA
*
7597417 AAAAAATTAAAAATTTTA
1 AAAAAATTAAAAATTTTT
7597435 ACAAAAATCTAAAACATTTTT
1 A-AAAAAT-TAAAA-ATTTTT
**
7597456 AAAAAATTAAAGAA-AATT
1 AAAAAATTAAA-AATTTTT
*
7597474 AAAAAATTAAATATTTTT
1 AAAAAATTAAAAATTTTT
*
7597492 AAAAAATTTAAAATTTATT
1 AAAAAATTAAAAATTT-TT
**
7597511 AAAACTTTAAAAATTTT
1 AAAAAATTAAAAATTTT
7597528 AATAAAGAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
17 1 0.01
18 31 0.41
19 26 0.34
20 12 0.16
21 6 0.08
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (18 bp):
AAAAAATTAAAAATTTTT
Found at i:7597789 original size:25 final size:26
Alignment explanation
Indices: 7597755--7597808 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
7597745 ATTTTTTATA
*
7597755 TATTTTTTTAA-TTTTAAAAAAATTT
1 TATTTCTTTAATTTTTAAAAAAATTT
**
7597780 TATTTCTTTAATTTTTATTAAAATTT
1 TATTTCTTTAATTTTTAAAAAAATTT
7597806 TAT
1 TAT
7597809 GTTTTATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (26 bp):
TATTTCTTTAATTTTTAAAAAAATTT
Found at i:7597814 original size:25 final size:25
Alignment explanation
Indices: 7597760--7597824 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
7597750 TTATATATTT
*
7597760 TTTTAA-TTTTAAAAAAATTTTATT
1 TTTTAATTTTTAAAAAAATTTTATG
**
7597784 TCTTTAATTTTTATTAAAATTTTATG
1 T-TTTAATTTTTAAAAAAATTTTATG
7597810 TTTTATAGTTTTTAA
1 TTTTA-A-TTTTTAA
7597825 TTTTAGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
24 1 0.03
25 9 0.27
26 17 0.52
27 6 0.18
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (25 bp):
TTTTAATTTTTAAAAAAATTTTATG
Found at i:7597851 original size:17 final size:17
Alignment explanation
Indices: 7597818--7597856 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
7597808 TGTTTTATAG
7597818 TTTTTAATTTTAGAAAAA
1 TTTTTAATTTTAG-AAAA
*
7597836 TTTTTAATTTT-TAAAA
1 TTTTTAATTTTAGAAAA
7597852 TTTTT
1 TTTTT
7597857 TGTTTATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
18 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTTAATTTTAGAAAA
Found at i:7597876 original size:29 final size:28
Alignment explanation
Indices: 7597844--7597916 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
7597834 AATTTTTAAT
*
7597844 TTTTAAAATTTTTTGTTTATGTTC-CAAAA
1 TTTTAAAATTTTTTATTT-T-TTCACAAAA
* *
7597873 TTTTTAAATGTTTTTATTTTTTCAGAAAA
1 TTTTAAAAT-TTTTTATTTTTTCACAAAA
*
7597902 TTTTCAAATTTTTTA
1 TTTTAAAATTTTTTA
7597917 AAAAACTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
28 9 0.24
29 21 0.55
30 8 0.21
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTTAAAATTTTTTATTTTTTCACAAAA
Found at i:7597921 original size:20 final size:20
Alignment explanation
Indices: 7597888--7597936 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
7597878 AAATGTTTTT
*
7597888 ATTTTTTCAGAAAA-TTTTCAA
1 ATTTTTT-AAAAAACTTTT-AA
7597909 ATTTTTTAAAAAACTTTTAA
1 ATTTTTTAAAAAACTTTTAA
7597929 ATTTTTTA
1 ATTTTTTA
7597937 TTTTTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTTTTTAAAAAACTTTTAA
Found at i:7597945 original size:36 final size:36
Alignment explanation
Indices: 7597902--7597976 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
7597892 TTTCAGAAAA
*
7597902 TTTTC-AAATTTTTTAAAAAACTTTTAAATTTTTTAT
1 TTTTCAAAAATTTTT-AAAAACTTTTAAATTTTTTAT
* * *
7597938 TTTTCAAAAATTTTTGAAAATTTTTAGATTTTTTAT
1 TTTTCAAAAATTTTTAAAAACTTTTAAATTTTTTAT
7597974 TTT
1 TTT
7597977 CAGTCTCTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 26 0.76
37 8 0.24
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (36 bp):
TTTTCAAAAATTTTTAAAAACTTTTAAATTTTTTAT
Found at i:7597947 original size:26 final size:27
Alignment explanation
Indices: 7597911--7597963 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
7597901 ATTTTCAAAT
*
7597911 TTTTTAAAAAACTTTT-AAATTTTTTA
1 TTTTTAAAAAACTTTTGAAAATTTTTA
* *
7597937 TTTTTCAAAAATTTTTGAAAATTTTTA
1 TTTTTAAAAAACTTTTGAAAATTTTTA
7597964 GATTTTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (27 bp):
TTTTTAAAAAACTTTTGAAAATTTTTA
Found at i:7597959 original size:48 final size:49
Alignment explanation
Indices: 7597869--7597962 Score: 131
Period size: 48 Copynumber: 1.9 Consensus size: 49
7597859 TTTATGTTCC
* *
7597869 AAAATTTTTAAATGTTTTTATTTTTTCAGAAAATTTTCAAATTTTTTAA
1 AAAACTTTTAAATGTTTTTATTTTTTCAGAAAATTTTAAAATTTTTTAA
7597918 AAAACTTTTAAAT-TTTTTA-TTTTTCA-AAAATTTTTGAAAATTTTT
1 AAAACTTTTAAATGTTTTTATTTTTTCAGAAAA-TTTT-AAAATTTTT
7597963 AGATTTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
46 4 0.10
47 11 0.27
48 14 0.34
49 12 0.29
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.55
Consensus pattern (49 bp):
AAAACTTTTAAATGTTTTTATTTTTTCAGAAAATTTTAAAATTTTTTAA
Found at i:7598037 original size:9 final size:8
Alignment explanation
Indices: 7598025--7598189 Score: 60
Period size: 9 Copynumber: 18.4 Consensus size: 8
7598015 AAGAAATTTA
7598025 TTTTTACAT
1 TTTTTA-AT
*
7598034 TTTTTAAA
1 TTTTTAAT
* *
7598042 TTTCTCAT
1 TTTTTAAT
7598050 TTTTTGAAT
1 TTTTT-AAT
7598059 TTTCATTAAT
1 TTT--TTAAT
7598069 TTTTTAGAT
1 TTTTTA-AT
*
7598078 TTTTGAATT
1 TTTTTAA-T
7598087 TTTTTAAAAT
1 TTTTT--AAT
*
7598097 TTTTAAAT
1 TTTTTAAT
*
7598105 TTTCCTAAT
1 TTT-TTAAT
7598114 TTTTATAAT
1 TTTT-TAAT
**
7598123 TTTAAAAAT
1 TTT-TTAAT
*
7598132 ATTTTAGAT
1 TTTTTA-AT
7598141 ATTTTTAAATTT
1 -TTTTT-AA--T
7598153 TTTTTAAAT
1 TTTTT-AAT
*
7598162 TTTATAAAT
1 TTT-TTAAT
*
7598171 TTCTTAAT
1 TTTTTAAT
*
7598179 TTTTGAAT
1 TTTTTAAT
7598187 TTT
1 TTT
7598190 AAAAAATATT
Statistics
Matches: 117, Mismatches: 23, Indels: 33
0.68 0.13 0.19
Matches are distributed among these distances:
8 34 0.29
9 52 0.44
10 17 0.15
11 13 0.11
12 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (8 bp):
TTTTTAAT
Found at i:7598062 original size:17 final size:16
Alignment explanation
Indices: 7598031--7598065 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
7598021 TTTATTTTTA
7598031 CATTTTTTAAATTTCT
1 CATTTTTTAAATTTCT
*
7598047 CATTTTTTGAATTT-T
1 CATTTTTTAAATTTCT
7598062 CATT
1 CATT
7598066 AATTTTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.23, C:0.11, G:0.03, T:0.63
Consensus pattern (16 bp):
CATTTTTTAAATTTCT
Found at i:7598064 original size:15 final size:15
Alignment explanation
Indices: 7598026--7598065 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
7598016 AGAAATTTAT
7598026 TTTTACATTTTTTAAA
1 TTTT-CATTTTTTAAA
*
7598042 TTTCTCATTTTTTGAA
1 TTT-TCATTTTTTAAA
7598058 TTTTCATT
1 TTTTCATT
7598066 AATTTTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 5 0.23
16 16 0.73
17 1 0.05
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.65
Consensus pattern (15 bp):
TTTTCATTTTTTAAA
Found at i:7598099 original size:27 final size:27
Alignment explanation
Indices: 7598050--7598107 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
7598040 AATTTCTCAT
* *
7598050 TTTTTGAATTTTCATTAATTTTTTAGA
1 TTTTTGAATTTTCATTAAATTTTTAAA
*
7598077 TTTTTGAATTTT-TTTAAAATTTTTAAA
1 TTTTTGAATTTTCATT-AAATTTTTAAA
7598104 TTTT
1 TTTT
7598108 CCTAATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (27 bp):
TTTTTGAATTTTCATTAAATTTTTAAA
Found at i:7598154 original size:8 final size:8
Alignment explanation
Indices: 7598064--7598189 Score: 58
Period size: 8 Copynumber: 14.1 Consensus size: 8
7598054 TGAATTTTCA
*
7598064 TTAATTTT
1 TTAAATTT
*
7598072 TTAGATTT
1 TTAAATTT
*
7598080 TTGAATTTTT
1 TT-AA-ATTT
7598090 TTAAAATTT
1 TT-AAATTT
7598099 TTAAATTT
1 TTAAATTT
7598107 TCCT-AATTT
1 T--TAAATTT
7598116 TTATAATTT
1 TTA-AATTT
*
7598125 TAAAAATATT
1 T-TAAAT-TT
7598135 TTAGATATTT
1 TTA-A-ATTT
7598145 TTAAATTTTTT
1 TTAAA---TTT
7598156 TTAAATTT
1 TTAAATTT
7598164 TATAAATTT
1 T-TAAATTT
7598173 CTT-AATTT
1 -TTAAATTT
*
7598181 TTGAATTT
1 TTAAATTT
7598189 T
1 T
7598190 AAAAAATATT
Statistics
Matches: 94, Mismatches: 8, Indels: 32
0.70 0.06 0.24
Matches are distributed among these distances:
7 3 0.03
8 31 0.33
9 31 0.33
10 19 0.20
11 10 0.11
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (8 bp):
TTAAATTT
Found at i:7598162 original size:65 final size:62
Alignment explanation
Indices: 7598018--7598202 Score: 194
Period size: 65 Copynumber: 2.9 Consensus size: 62
7598008 TTATTTTAAG
* * * ** *
7598018 AAATTTATTTTTACATTTTTTAAATTT-CTCATTTTTTGAATTTTCATTAATTTTTTAGATTTTT
1 AAATTT-TTTTTA-AATTTTTAAATTTCCTAATTTTTT-AATTTTAAAAAATATTTTAGATTTTT
* *
7598082 GAATTTTTTTAAAATTTTTAAATTTTCCTAATTTTTATAATTTT-AAAAATATTTTAGATATTTT
1 AAATTTTTTTTAAATTTTTAAA-TTTCCTAATTTTT-TAATTTTAAAAAATATTTTAG--ATTTT
7598146 T
62 T
* *
7598147 AAATTTTTTTTAAATTTTATAAATTTCTTAATTTTTGAATTTTAAAAAATATTTTA
1 AAATTTTTTTTAAATTTT-TAAATTTCCTAATTTTTTAATTTTAAAAAATATTTTA
7598203 AAATTTTCTT
Statistics
Matches: 103, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
62 9 0.09
63 18 0.17
64 25 0.24
65 47 0.46
66 4 0.04
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.60
Consensus pattern (62 bp):
AAATTTTTTTTAAATTTTTAAATTTCCTAATTTTTTAATTTTAAAAAATATTTTAGATTTTT
Found at i:7598163 original size:19 final size:19
Alignment explanation
Indices: 7598068--7598172 Score: 59
Period size: 19 Copynumber: 5.1 Consensus size: 19
7598058 TTTTCATTAA
* *
7598068 TTTTTTAGATTTTTGAATT
1 TTTTTTAAATTTTTAAATT
*
7598087 TTTTTAAAATTTTTAAATTTT
1 TTTTTTAAATTTTTAAA--TT
**
7598108 CCTAATTTTTATAA-TTTTAAAAA
1 --T--TTTTTA-AATTTTTAAATT
*
7598131 TATTTTAGATATTTTTAAATT
1 TTTTTTA-A-ATTTTTAAATT
7598152 TTTTTTAAATTTTATAAATT
1 TTTTTTAAATTTT-TAAATT
7598172 T
1 T
7598173 CTTAATTTTT
Statistics
Matches: 65, Mismatches: 11, Indels: 19
0.68 0.12 0.20
Matches are distributed among these distances:
19 25 0.38
20 9 0.14
21 16 0.25
23 1 0.02
25 12 0.18
26 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTTTAAATTTTTAAATT
Found at i:7598177 original size:18 final size:17
Alignment explanation
Indices: 7598088--7598181 Score: 61
Period size: 17 Copynumber: 5.2 Consensus size: 17
7598078 TTTTGAATTT
7598088 TTTTA-AAATTTTTAAA
1 TTTTATAAATTTTTAAA
*
7598104 TTTTCCT-AATTTTTATAA
1 TTTT-ATAAATTTTTA-AA
*
7598122 TTTTAAAAATATTTTAGATA
1 TTTTATAAAT-TTTTA-A-A
7598142 TTTT-TAAATTTTTTTTAAA
1 TTTTATAAA---TTTTTAAA
7598161 TTTTATAAATTTCTT-AA
1 TTTTATAAATTT-TTAAA
7598178 TTTT
1 TTTT
7598182 TGAATTTTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 21
0.70 0.06 0.24
Matches are distributed among these distances:
16 4 0.06
17 17 0.27
18 11 0.18
19 14 0.23
20 10 0.16
21 5 0.08
22 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (17 bp):
TTTTATAAATTTTTAAA
Found at i:7599320 original size:125 final size:124
Alignment explanation
Indices: 7599168--7599393 Score: 271
Period size: 125 Copynumber: 1.8 Consensus size: 124
7599158 TTTATGAAGT
* * * * *
7599168 GGTTATTCAAAGCATTTTTGGACAAAAACACCTTGAATAATC-CTTTCTGATTTTGTATTAGG-G
1 GGTTATTCAAAGCATTTCTAGACAAAAACACCTTAAATAATCTCCTTC-AATTTT-TATTAGGAG
*
7599231 ATTATTTAAGGCGT-TTTTTCCTAAAAAAATACCTTAAATAATCCACTCATAAAATTGAATAG
64 ATTATTCAA-G-GTATTTTTCCTAAAAAAATACCTTAAATAATCCACTCATAAAATTGAATAG
* **
7599293 GGTTATTCAAGGCATTTCTAG-CTAAAAATGCCTTAAATAATCTCCTTCAATTTTTATTAGGAGA
1 GGTTATTCAAAGCATTTCTAGAC-AAAAACACCTTAAATAATCTCCTTCAATTTTTATTAGGAGA
* * *
7599357 TTATTCAAGGTATTTTTGCTCAAAAAATGCCTTAAAT
65 TTATTCAAGGTATTTTTCCTAAAAAAATACCTTAAAT
7599394 GATCATTATT
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
123 2 0.02
124 31 0.36
125 48 0.56
126 4 0.05
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (124 bp):
GGTTATTCAAAGCATTTCTAGACAAAAACACCTTAAATAATCTCCTTCAATTTTTATTAGGAGAT
TATTCAAGGTATTTTTCCTAAAAAAATACCTTAAATAATCCACTCATAAAATTGAATAG
Found at i:7600149 original size:24 final size:24
Alignment explanation
Indices: 7600122--7600190 Score: 120
Period size: 24 Copynumber: 2.9 Consensus size: 24
7600112 GAAGATGTAG
* *
7600122 TTGGTTACATTGTTTATTATGTGA
1 TTGGTTACATTGCTTATGATGTGA
7600146 TTGGTTACATTGCTTATGATGTGA
1 TTGGTTACATTGCTTATGATGTGA
7600170 TTGGTTACATTGCTTATGATG
1 TTGGTTACATTGCTTATGATG
7600191 CAATAATTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.20, C:0.07, G:0.23, T:0.49
Consensus pattern (24 bp):
TTGGTTACATTGCTTATGATGTGA
Found at i:7611344 original size:19 final size:18
Alignment explanation
Indices: 7611311--7611355 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
7611301 TTTCTTATAA
*
7611311 AATAATA-AATAAAAATT
1 AATAATATATTAAAAATT
7611328 AATTAATATATTAAAAATT
1 AA-TAATATATTAAAAATT
7611347 AATAATATA
1 AATAATATA
7611356 AATAAGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 2 0.08
18 12 0.48
19 11 0.44
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AATAATATATTAAAAATT
Found at i:7611755 original size:21 final size:21
Alignment explanation
Indices: 7611729--7611773 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
7611719 CTACACACGG
7611729 ATCCTCTTTAACTAAAATAAC
1 ATCCTCTTTAACTAAAATAAC
7611750 ATCCTCTTTAACTAAAATAAC
1 ATCCTCTTTAACTAAAATAAC
7611771 ATC
1 ATC
7611774 GTTTTAAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.33
Consensus pattern (21 bp):
ATCCTCTTTAACTAAAATAAC
Found at i:7617035 original size:17 final size:17
Alignment explanation
Indices: 7617008--7617048 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
7616998 TTTTATATCA
7617008 AATAA-TATT-AAAATT
1 AATAATTATTAAAAATT
7617023 AATCAATTATTAAAAATT
1 AAT-AATTATTAAAAATT
7617041 AATAATTA
1 AATAATTA
7617049 AAATAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 3 0.13
16 2 0.09
17 9 0.39
18 9 0.39
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
AATAATTATTAAAAATT
Found at i:7617056 original size:18 final size:19
Alignment explanation
Indices: 7617016--7617058 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
7617006 CAAATAATAT
**
7617016 TAAAATTAATCAATTATTA
1 TAAAATTAATCAATTAAAA
7617035 -AAAATTAAT-AATTAAAA
1 TAAAATTAATCAATTAAAA
7617052 TAAAATT
1 TAAAATT
7617059 TATTTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAAATTAATCAATTAAAA
Found at i:7618982 original size:224 final size:222
Alignment explanation
Indices: 7618564--7619015 Score: 769
Period size: 224 Copynumber: 2.0 Consensus size: 222
7618554 ACTTTAAAAA
* * * * *
7618564 ATAAAATTATTAATTTGGTATTCAAATTTCGTTTTGTCATTCACTTTGATATCTAAAACTAGTAT
1 ATAAAATTATTAATTTGGTACTCAAATTTCATTTTGTCATTCACTCTGATATCTAAAACTAATAC
* *
7618629 TATCAGTCAACTTGCTGATATGACATAACATACAATAAGATACTGAAATGTATAAAAAAAAAAGT
66 TATCAATCAACTTACTGATATGACATAACATACAATAAGATACTGAAATGTATAAAAAAAAAAGT
7618694 CCAATCAATCCCACATAATCAATTTCCACATCAGCTTTAAAAGAAAATTCTAAAACAAATTCTAA
131 CCAATCAATCCCACATAATCAATTTCCACATCAGCTTTAAAAGAAAATTCTAAAACAAATTCTAA
7618759 AAGATTTCAAACAATATTTAAAAAATT
196 AAGATTTCAAACAATATTTAAAAAATT
* *
7618786 ATAAAATTATTAATTTGGTACTCTAAATTTTATTTTGTCATTCACTCTGATATCTAAAACTAATG
1 ATAAAATTATTAATTTGGTACTC-AAATTTCATTTTGTCATTCACTCTGATATCTAAAACTAATA
* * *
7618851 CTATCAATCAATTTACTGATATGACATAACGTACAATAAGATGCTGAAATGTATAAAAAAAAAAA
65 CTATCAATCAACTTACTGATATGACATAACATACAATAAGATACTGAAATGTAT-AAAAAAAAAA
*
7618916 GTCCAGTCAATCCCACATAATCAATTTCCACATCAGCTTTAAAAGAAAATTCTAAAACAAATTCT
129 GTCCAATCAATCCCACATAATCAATTTCCACATCAGCTTTAAAAGAAAATTCTAAAACAAATTCT
7618981 AAAAGATTTCAAACAATATTTAAAAAATT
194 AAAAGATTTCAAACAATATTTAAAAAATT
7619010 ATAAAA
1 ATAAAA
7619016 AAATTAAAGA
Statistics
Matches: 215, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
222 22 0.10
223 84 0.39
224 109 0.51
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.33
Consensus pattern (222 bp):
ATAAAATTATTAATTTGGTACTCAAATTTCATTTTGTCATTCACTCTGATATCTAAAACTAATAC
TATCAATCAACTTACTGATATGACATAACATACAATAAGATACTGAAATGTATAAAAAAAAAAGT
CCAATCAATCCCACATAATCAATTTCCACATCAGCTTTAAAAGAAAATTCTAAAACAAATTCTAA
AAGATTTCAAACAATATTTAAAAAATT
Found at i:7619284 original size:9 final size:9
Alignment explanation
Indices: 7619266--7619345 Score: 65
Period size: 9 Copynumber: 8.6 Consensus size: 9
7619256 ATATTTTTAG
7619266 TTTTTATAAA
1 TTTTT-TAAA
7619276 TTTTTTAAA
1 TTTTTTAAA
* *
7619285 TGTTTCAAA
1 TTTTTTAAA
*
7619294 ATTTTTAAA
1 TTTTTTAAA
7619303 TTTTTT-AA
1 TTTTTTAAA
7619311 TTTTTCATAAAA
1 TTTTT--T-AAA
*
7619323 ATTTTT-AA
1 TTTTTTAAA
7619331 TTTTTTAAAA
1 TTTTTT-AAA
7619341 TTTTT
1 TTTTT
7619346 CAAAAAAGTT
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
8 14 0.25
9 22 0.39
10 14 0.25
12 6 0.11
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:7619342 original size:46 final size:46
Alignment explanation
Indices: 7619254--7619345 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
7619244 TTTTCTAGAA
* *
7619254 AAATATTTTTAGTTTTTATAAATTTTTTAAATGTTTCAAAATTTTT
1 AAATATTTTTAATTTTTATAAAATTTTTAAATGTTTCAAAATTTTT
* *
7619300 AAAT-TTTTTAATTTTTCATAAAAATTTTT-AATTTTTTAAAATTTTT
1 AAATATTTTTAATTTTT-AT-AAAATTTTTAAATGTTTCAAAATTTTT
7619346 CAAAAAAGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
45 11 0.28
46 21 0.52
47 8 0.20
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (46 bp):
AAATATTTTTAATTTTTATAAAATTTTTAAATGTTTCAAAATTTTT
Found at i:7619351 original size:29 final size:28
Alignment explanation
Indices: 7619274--7619365 Score: 109
Period size: 29 Copynumber: 3.3 Consensus size: 28
7619264 AGTTTTTATA
*
7619274 AATTTTTTAAATGTTTC--AAAATTTTT
1 AATTTTTTAAATTTTTCAAAAAATTTTT
7619300 AAATTTTTT-AATTTTTCATAAAAATTTTT
1 -AATTTTTTAAATTTTTCA-AAAAATTTTT
*
7619329 AATTTTTTAAAATTTTTCAAAAAAGTTTT
1 AATTTTTT-AAATTTTTCAAAAAATTTTT
*
7619358 GATTTTTT
1 AATTTTTT
7619366 TTTATTTTTA
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
26 7 0.12
27 8 0.14
28 8 0.14
29 25 0.44
30 9 0.16
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (28 bp):
AATTTTTTAAATTTTTCAAAAAATTTTT
Found at i:7619372 original size:29 final size:30
Alignment explanation
Indices: 7619303--7619374 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
7619293 AATTTTTAAA
*
7619303 TTTTTTAATTTTTCATAAAAATTTTTAATT
1 TTTTTTAATTTTTCATAAAAAGTTTTAATT
** *
7619333 TTTTAAAATTTTTCA-AAAAAGTTTTGATT
1 TTTTTTAATTTTTCATAAAAAGTTTTAATT
*
7619362 TTTTTTTATTTTT
1 TTTTTTAATTTTT
7619375 AATTTTTTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
29 22 0.63
30 13 0.37
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (30 bp):
TTTTTTAATTTTTCATAAAAAGTTTTAATT
Found at i:7619421 original size:20 final size:21
Alignment explanation
Indices: 7619375--7619421 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
7619365 TTTTATTTTT
* *
7619375 AATTTTTTTAACTTTTGTGAA
1 AATTTTTTGAACTTTTGAGAA
**
7619396 TCTTTTTTGAA-TTTTGAGAA
1 AATTTTTTGAACTTTTGAGAA
7619416 AATTTT
1 AATTTT
7619422 ATTTTTATTA
Statistics
Matches: 20, Mismatches: 6, Indels: 1
0.74 0.22 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.57
Consensus pattern (21 bp):
AATTTTTTGAACTTTTGAGAA
Found at i:7619475 original size:29 final size:28
Alignment explanation
Indices: 7619435--7619490 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
7619425 TTTATTAAAT
*
7619435 TTAAAATTTTTAAATTTTTATGATTTTTA
1 TTAAAATTTTTAAATTTTT-TAATTTTTA
*
7619464 TTAAAATTTTTAGATTTTTTAATTTTT
1 TTAAAATTTTTAAATTTTTTAATTTTT
7619491 TAATTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (28 bp):
TTAAAATTTTTAAATTTTTTAATTTTTA
Found at i:7619491 original size:29 final size:29
Alignment explanation
Indices: 7619291--7619492 Score: 82
Period size: 29 Copynumber: 6.9 Consensus size: 29
7619281 TAAATGTTTC
* * *
7619291 AAAATTTTTAAATTTTTTAATTTTTCATA
1 AAAATTTTTAGATTTTTTAATTTTTTATT
* *
7619320 AAAATTTTTA-ATTTTTTAAAATTTTTCA-A
1 AAAATTTTTAGATTTTTT--AATTTTTTATT
*
7619349 AAAAGTTTT-GATTTTTT--TTTATTT-TT
1 AAAATTTTTAGATTTTTTAATTT-TTTATT
** * *
7619375 AATTTTTTTA-ACTTTTGTGAATCTTTT-TT
1 AAAATTTTTAGA-TTTT-TTAATTTTTTATT
* * ** *
7619404 -GAATTTTGAGAAAATTTTATTTTTATTAAATTT
1 AAAATTTTTAG-ATTTTTTAATTTT-TT--A-TT
* *
7619437 AAAATTTTTAAATTTTTATGA-TTTTTATT
1 AAAATTTTTAGATTTTT-TAATTTTTTATT
7619466 AAAATTTTTAGATTTTTTAATTTTTTA
1 AAAATTTTTAGATTTTTTAATTTTTTA
7619493 ATTTTCATAT
Statistics
Matches: 127, Mismatches: 26, Indels: 40
0.66 0.13 0.21
Matches are distributed among these distances:
25 3 0.02
26 9 0.07
27 4 0.03
28 20 0.16
29 59 0.46
30 13 0.10
32 2 0.02
33 9 0.07
34 8 0.06
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (29 bp):
AAAATTTTTAGATTTTTTAATTTTTTATT
Found at i:7620652 original size:20 final size:19
Alignment explanation
Indices: 7620604--7620657 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
7620594 CATTCTTTTT
*
7620604 ATTTTTTAATATTTAATAA
1 ATTTTTTAAAATTTAATAA
*
7620623 ATTGTTTAAAATTATAA-AA
1 ATTTTTTAAAATT-TAATAA
7620642 ATGTTTTTAAAGATTT
1 AT-TTTTTAAA-ATTT
7620658 TATTTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 15 0.52
20 11 0.38
21 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.52
Consensus pattern (19 bp):
ATTTTTTAAAATTTAATAA
Found at i:7621032 original size:28 final size:26
Alignment explanation
Indices: 7621001--7621076 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 26
7620991 TTAAACAAAA
7621001 ATCCAAATAAATAAAAATATAAAACAT
1 ATCCAAATAAA-AAAAATATAAAACAT
*
7621028 CATCC-AATAAAAAACCAAATATAAAATAT
1 -ATCCAAAT-AAAAA--AAATATAAAACAT
7621057 AT--ATAATAAAAAAAATATAA
1 ATCCA-AATAAAAAAAATATAA
7621077 CATTAAATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
25 8 0.19
27 10 0.24
28 12 0.29
29 12 0.29
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (26 bp):
ATCCAAATAAAAAAAATATAAAACAT
Found at i:7621103 original size:20 final size:19
Alignment explanation
Indices: 7621044--7621103 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
7621034 ATAAAAAACC
7621044 AAATATAAAATATATATAAT
1 AAATATAAAATATA-ATAAT
* *
7621064 AAA-A-AAAATATAACATT
1 AAATATAAAATATAATAAT
7621081 AAATATAATAATATAATAAT
1 AAATATAA-AATATAATAAT
7621101 AAA
1 AAA
7621104 AAAAAAAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 6 0.18
18 9 0.27
19 3 0.09
20 15 0.45
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
AAATATAAAATATAATAAT
Found at i:7622218 original size:21 final size:20
Alignment explanation
Indices: 7622186--7622227 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
7622176 GGAACCTATG
*
7622186 GTAAGAACAAAAGTA-AAGTA
1 GTAAAAACAAAA-TAGAAGTA
7622206 GTAAAAACTAAAATAGAAGTA
1 GTAAAAAC-AAAATAGAAGTA
7622227 G
1 G
7622228 CAAACAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.60, C:0.05, G:0.19, T:0.17
Consensus pattern (20 bp):
GTAAAAACAAAATAGAAGTA
Found at i:7623053 original size:3 final size:3
Alignment explanation
Indices: 7623045--7623159 Score: 130
Period size: 3 Copynumber: 39.7 Consensus size: 3
7623035 GTCTTATATC
* * * * *
7623045 TTA TTA TTA TCA TCA TTA TTA TTG TTG TTA -TA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
7623092 TTA CTA TTA TTA TTA TTA TTA TTA -TA TTA TCA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7623139 TTA TTA TTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
7623160 TTTCTTTCCA
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
2 8 0.08
3 89 0.92
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:7623104 original size:41 final size:41
Alignment explanation
Indices: 7622981--7623154 Score: 154
Period size: 41 Copynumber: 4.4 Consensus size: 41
7622971 AAGTCTAATA
* *
7622981 TATTATTATATATTATTATATTAT-AGTGTAACTA-TATTACTA-
1 TATTATTAT-TATTATTATAATATCA-T-T-ATTATTATTACTAT
*
7623023 TATTATTA-TATTGTCT-T-ATATC-TTATTATTA-T-C-AT
1 TATTATTATTATTAT-TATAATATCATTATTATTATTACTAT
* * * *
7623058 CATTATTATTGTTGTTATAATATTATTATTATTATTACTAT
1 TATTATTATTATTATTATAATATCATTATTATTATTACTAT
*
7623099 TATTATTATTATTATTATATTATCATTATTATTATTACTAT
1 TATTATTATTATTATTATAATATCATTATTATTATTACTAT
7623140 TATTATTATT-TTATT
1 TATTATTATTATTATT
7623155 TTATTTTTCT
Statistics
Matches: 110, Mismatches: 11, Indels: 24
0.76 0.08 0.17
Matches are distributed among these distances:
34 1 0.01
35 9 0.08
36 10 0.09
37 7 0.06
38 10 0.09
39 4 0.04
40 12 0.11
41 49 0.45
42 8 0.07
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (41 bp):
TATTATTATTATTATTATAATATCATTATTATTATTACTAT
Found at i:7624205 original size:16 final size:18
Alignment explanation
Indices: 7624174--7624210 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
7624164 AAAAAAATAA
*
7624174 AAAAATCTTTTTC-AAAT
1 AAAAATCTTTTACAAAAT
7624191 AAAAATC-TTTACAAAAT
1 AAAAATCTTTTACAAAAT
7624208 AAA
1 AAA
7624211 TTCATGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAATCTTTTACAAAAT
Found at i:7628877 original size:38 final size:38
Alignment explanation
Indices: 7628800--7628877 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 38
7628790 GATAAAAAAC
* **
7628800 AAAAATAAAAGAGTAAAAAAAGTGCAAAAAAGGGCAAA
1 AAAAATAAAAGAGTAAAAAAAGTACAAAAAAAAGCAAA
* * *
7628838 AAAAATAAAAG-GTGAAAAAAATTATAAAAAAAAGTAAA
1 AAAAATAAAAGAGT-AAAAAAAGTACAAAAAAAAGCAAA
7628876 AA
1 AA
7628878 GAAAAAGAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
37 2 0.06
38 31 0.94
ACGTcount: A:0.72, C:0.03, G:0.14, T:0.12
Consensus pattern (38 bp):
AAAAATAAAAGAGTAAAAAAAGTACAAAAAAAAGCAAA
Found at i:7630278 original size:120 final size:121
Alignment explanation
Indices: 7629978--7630278 Score: 297
Period size: 122 Copynumber: 2.5 Consensus size: 121
7629968 TCATCCCATC
* * * * *
7629978 TCGACTCAGTCTAGATCATTTTTTTTACTCATGATTTTGTCTTAGTCATTAATCTTCAACATCGA
1 TCGACTCAGT-TAGATCATTTTTTTAACTCATAATTTTGTCTTGGTCATTCATCTTCGACATCGA
* * * * * *
7630043 CTCGATCATGGTTGTTTTATCTTTTAGACTCGTAGGTTTCATCTCAGTCATCAGATT
65 CTCGATCATGATTGCTTTATCTTTTAGACTAGCAGGTCTCATCTCAATCATCAGATT
* *** ** * *
7630100 TCGACTCAGTTCAGATCATTTTTTTGACTTGCAATTTTGTCCCGATCATTCATCTTCGACCTCGA
1 TCGACTCAGTT-AGATCATTTTTTTAACTCATAATTTTGTCTTGGTCATTCATCTTCGACATCGA
* *
7630165 CTCGATCCTGATTGCTTTATCTTTTAGACTAGCA-G-CTCAATC-CTAATCA-CTTGATCT
65 CTCGATCATGATTGCTTTATCTTTTAGACTAGCAGGTCTC-ATCTC-AATCATC-AGAT-T
* **
7630222 TTG-CTCAGTTAGATCATTTTTTTAACTCATAATTTCATCTTGGTCATTCATCTTCGA
1 TCGACTCAGTTAGATCATTTTTTTAACTCATAATTTTGTCTTGGTCATTCATCTTCGA
7630279 TCTTGGCTCA
Statistics
Matches: 144, Mismatches: 30, Indels: 12
0.77 0.16 0.06
Matches are distributed among these distances:
120 42 0.29
121 19 0.13
122 83 0.58
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (121 bp):
TCGACTCAGTTAGATCATTTTTTTAACTCATAATTTTGTCTTGGTCATTCATCTTCGACATCGAC
TCGATCATGATTGCTTTATCTTTTAGACTAGCAGGTCTCATCTCAATCATCAGATT
Found at i:7630647 original size:31 final size:31
Alignment explanation
Indices: 7630609--7630682 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
7630599 TATAGTTTGA
7630609 TATATTATTATATTATAGT-TAACTATATTAC
1 TATATTATTATATTATAGTAT-ACTATATTAC
* * *
7630640 TATATTATTATATTGTAGTATATTATATTAT
1 TATATTATTATATTATAGTATACTATATTAC
7630671 TATCATTATTAT
1 TAT-ATTATTAT
7630683 TATTGTTATC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 29 0.76
32 9 0.24
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (31 bp):
TATATTATTATATTATAGTATACTATATTAC
Found at i:7630673 original size:3 final size:3
Alignment explanation
Indices: 7630660--7630755 Score: 101
Period size: 3 Copynumber: 33.3 Consensus size: 3
7630650 TATTGTAGTA
* * * *
7630660 TAT TA- TAT TAT TAT CAT TAT TAT TAT TGT TAT CAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
7630707 TA- TAT TAT CAT TAT TAT TAC T-T TAT TAC TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7630752 TAT T
1 TAT T
7630756 TTCCTTTTCA
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
2 7 0.09
3 68 0.91
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Done.