Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000250.1 Hibiscus syriacus cultivar Beakdansim tig00000452_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: 2850692
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 12
Found at i:1478152 original size:23 final size:25
Alignment explanation
Indices: 1478122--1478170 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 25
1478112 TCTTGACCCC
1478122 CCTTTTTTTTCT-TT-TTTCTTTTT
1 CCTTTTTTTTCTGTTCTTTCTTTTT
*
1478145 CCTTTTTTTTCTGTTCTTTTTTTTT
1 CCTTTTTTTTCTGTTCTTTCTTTTT
1478170 C
1 C
1478171 TGTTCTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.52
24 2 0.09
25 9 0.39
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (25 bp):
CCTTTTTTTTCTGTTCTTTCTTTTT
Found at i:1478165 original size:15 final size:15
Alignment explanation
Indices: 1478130--1478177 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
1478120 CCCCTTTTTT
*
1478130 TTCTTTTTTCTT-T-
1 TTCTTTTTTTTTCTG
*
1478143 TTCCTTTTTTTTCTG
1 TTCTTTTTTTTTCTG
1478158 TTCTTTTTTTTTCTG
1 TTCTTTTTTTTTCTG
1478173 TTCTT
1 TTCTT
1478178 CAAGCATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 10 0.33
14 1 0.03
15 19 0.63
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (15 bp):
TTCTTTTTTTTTCTG
Found at i:1485422 original size:15 final size:16
Alignment explanation
Indices: 1485399--1485436 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
1485389 TGAAATGAAT
*
1485399 AATGAATGTATGC-AA
1 AATGTATGTATGCAAA
1485414 AATGTATGTATGCAAA
1 AATGTATGTATGCAAA
1485430 AATGTAT
1 AATGTAT
1485437 TGATCCCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (16 bp):
AATGTATGTATGCAAA
Found at i:1490790 original size:3 final size:3
Alignment explanation
Indices: 1490782--1490806 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1490772 AATTATTTTT
1490782 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
1490807 TGTCGTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1493025 original size:12 final size:12
Alignment explanation
Indices: 1493004--1493100 Score: 80
Period size: 12 Copynumber: 8.2 Consensus size: 12
1492994 AATATTTATT
*
1493004 AATAAAAATATA
1 AATAATAATATA
1493016 AATAAT-A-AT-
1 AATAATAATATA
1493025 AATAATAATATA
1 AATAATAATATA
1493037 AATAAT-ATATA
1 AATAATAATATA
1493048 TAATAATAAT-TA
1 -AATAATAATATA
*
1493060 TAATTATAAT-TA
1 -AATAATAATATA
1493072 TAATAATAATAATA
1 -AATAATAAT-ATA
*
1493086 AATAAATAAAATA
1 AAT-AATAATATA
1493099 AA
1 AA
1493101 ATGGGTAAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
9 6 0.08
10 3 0.04
11 8 0.11
12 39 0.53
13 10 0.14
14 7 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AATAATAATATA
Found at i:1493028 original size:9 final size:9
Alignment explanation
Indices: 1493003--1493099 Score: 85
Period size: 9 Copynumber: 10.7 Consensus size: 9
1492993 TAATATTTAT
*
1493003 TAATAAAAA
1 TAATAATAA
1493012 T-ATAAATAA
1 TAAT-AATAA
1493021 TAATAATAA
1 TAATAATAA
1493030 TAAT-ATAAA
1 TAATAAT-AA
1493039 TAAT-ATATA
1 TAATAATA-A
1493048 TAATAATAA
1 TAATAATAA
* *
1493057 TTATAATTA
1 TAATAATAA
*
1493066 TAATTATAA
1 TAATAATAA
1493075 TAATAATAA
1 TAATAATAA
1493084 TAAATAAATAA
1 T-AAT-AATAA
1493095 -AATAA
1 TAATAA
1493100 AATGGGTAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
8 7 0.09
9 54 0.73
10 8 0.11
11 5 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TAATAATAA
Found at i:1493075 original size:6 final size:6
Alignment explanation
Indices: 1493046--1493086 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
1493036 AAATAATATA
* * *
1493046 TATAAT AATAAT TATAAT TATAAT TATAAT AATAAT AATAA
1 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TATAA
1493087 ATAAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (6 bp):
TATAAT
Found at i:1493459 original size:37 final size:36
Alignment explanation
Indices: 1493418--1493685 Score: 157
Period size: 37 Copynumber: 7.3 Consensus size: 36
1493408 CGAGTGATGG
1493418 AAATTTCTTTTTCGAGTGAAACTGTCTCGAGCGAGAC
1 AAATTT-TTTTTCGAGTGAAACTGTCTCGAGCGAGAC
* ** ** * * *
1493455 AAATTTTGTTTT-AAGAAAAACAATCTCAAGTGAGAT
1 AAATTTT-TTTTCGAGTGAAACTGTCTCGAGCGAGAC
* *
1493491 AAATTGCTGTTTCGAGTGAAACTGTCTCGAGCGAGAC
1 AAATT-TTTTTTCGAGTGAAACTGTCTCGAGCGAGAC
* * ** ** * * *
1493528 AAAGTTTGTTTT-AAGAAAAACAATCTCAAGTGAGAT
1 AAA-TTTTTTTTCGAGTGAAACTGTCTCGAGCGAGAC
*
1493564 AAATTGTTGTTTCGAGTGAAACTGTCTCGAGCGAGAC
1 AAATT-TTTTTTCGAGTGAAACTGTCTCGAGCGAGAC
* * * ** * * *
1493601 AAAGTTTGTTTT--AATAAAAACAATCTCAAGTGAGAT
1 AAA-TTTTTTTTCGAGT-GAAACTGTCTCGAGCGAGAC
*
1493637 AAATTGTTGTTTCGAGTGAAACTGTCTCGAGCGAGAC
1 AAATT-TTTTTTCGAGTGAAACTGTCTCGAGCGAGAC
*
1493674 AAAGTTTGTTTT
1 AAA-TTTTTTTT
1493686 AAGAAAAACA
Statistics
Matches: 160, Mismatches: 59, Indels: 24
0.66 0.24 0.10
Matches are distributed among these distances:
35 6 0.04
36 69 0.43
37 77 0.48
38 8 0.05
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (36 bp):
AAATTTTTTTTCGAGTGAAACTGTCTCGAGCGAGAC
Found at i:1493495 original size:73 final size:73
Alignment explanation
Indices: 1493418--1493730 Score: 531
Period size: 73 Copynumber: 4.3 Consensus size: 73
1493408 CGAGTGATGG
* *
1493418 AAATTTCTTTTTCGAGTGAAACTGTCTCGAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCA
1 AAATTTCTGTTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTCA
1493483 AGTGAGAT
66 AGTGAGAT
*
1493491 AAATTGCTGTTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTCA
1 AAATTTCTGTTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTCA
1493556 AGTGAGAT
66 AGTGAGAT
*
1493564 AAATTGT-TGTTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTGTTTTAATAAAAACAATCTC
1 AAATT-TCTGTTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTC
1493628 AAGTGAGAT
65 AAGTGAGAT
1493637 AAATTGT-TGTTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTC
1 AAATT-TCTGTTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTC
1493701 AAGTGAGAT
65 AAGTGAGAT
* * *
1493710 AAATTGCTATTTCGAGGGAAA
1 AAATTTCTGTTTCGAGTGAAA
1493731 ATGTTTACTA
Statistics
Matches: 229, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
73 229 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (73 bp):
AAATTTCTGTTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTCA
AGTGAGAT
Found at i:1493538 original size:36 final size:36
Alignment explanation
Indices: 1493427--1493684 Score: 196
Period size: 36 Copynumber: 7.1 Consensus size: 36
1493417 GAAATTTCTT
*
1493427 TTTCGAGTGAAACTGTCTCGAGCGAGACAAATTTTG
1 TTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTG
** ** ** * * *
1493463 TTTTAAGAAAAACAATCTCAAGTGAGATAAA-TTGCTG
1 TTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTT--TG
1493500 TTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTG
1 TTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTG
** ** ** * * * *
1493536 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTG
1 TTTCGAGTGAAACTGTCTCGAGCGAGACAAAGT-TTG
1493573 TTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTG
1 TTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTG
* * * ** * * * *
1493609 TTT-TAATAAAAACAATCTCAAGTGAGATAAATTGTTG
1 TTTCGAGT-GAAACTGTCTCGAGCGAGACAAAGT-TTG
1493646 TTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTG
1 TTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTG
1493682 TTT
1 TTT
1493685 TAAGAAAAAC
Statistics
Matches: 159, Mismatches: 56, Indels: 14
0.69 0.24 0.06
Matches are distributed among these distances:
35 4 0.03
36 77 0.48
37 74 0.47
38 4 0.03
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (36 bp):
TTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTG
Found at i:1494421 original size:22 final size:22
Alignment explanation
Indices: 1494394--1494451 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
1494384 AATAAAGCTT
1494394 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
1494416 TTATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
1494438 TCATCTTTGAAAAG
1 TCATCTTTGAAAAG
1494452 TGTAGAAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:1497006 original size:93 final size:93
Alignment explanation
Indices: 1496900--1497171 Score: 458
Period size: 93 Copynumber: 2.9 Consensus size: 93
1496890 GATCATGCAG
* * *
1496900 TTCATCTTTCAAA-TCTAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAA
1 TTCATCTTCCAAATTC-AATGATTGGTTATGTGGTTTCATACCAAACCAGATCAGATAACTCAAA
1496964 AAACACTTCCAGAAGATGCTATGAGCACA
65 AAACACTTCCAGAAGATGCTATGAGCACA
* *
1496993 TTCATCTTCCAAATTCAATGACTGGTTATGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTCCAAATTCAATGATTGGTTATGTGGTTTCATACCAAACCAGATCAGATAACTCAAAA
1497058 AACACTTCCAGAAGATGCTATGAGCACA
66 AACACTTCCAGAAGATGCTATGAGCACA
1497086 TTCATCTTCCAAATTCAATGATTGGTTATGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTCCAAATTCAATGATTGGTTATGTGGTTTCATACCAAACCAGATCAGATAACTCAAA-
*
1497151 AAA-ACTTCCAGAAGATACTAT
65 AAACACTTCCAGAAGATGCTAT
1497172 TGGGTCTTCT
Statistics
Matches: 169, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
93 165 0.98
94 4 0.02
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (93 bp):
TTCATCTTCCAAATTCAATGATTGGTTATGTGGTTTCATACCAAACCAGATCAGATAACTCAAAA
AACACTTCCAGAAGATGCTATGAGCACA
Found at i:1501923 original size:16 final size:17
Alignment explanation
Indices: 1501889--1501925 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
1501879 ATACGAACGT
1501889 AAAAATGCAAATATGAA
1 AAAAATGCAAATATGAA
1501906 AAAAATGCAAATAT-AA
1 AAAAATGCAAATATGAA
1501922 AAAA
1 AAAA
1501926 TATGAATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.70, C:0.05, G:0.08, T:0.16
Consensus pattern (17 bp):
AAAAATGCAAATATGAA
Found at i:1504257 original size:13 final size:13
Alignment explanation
Indices: 1504241--1504289 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
1504231 TTAATTCTTG
1504241 AATATAATAAATA
1 AATATAATAAATA
*
1504254 AATAAAATAAA-A
1 AATATAATAAATA
*
1504266 AATAATAATATATA
1 AAT-ATAATAAATA
*
1504280 AAAATAATAA
1 AATATAATAA
1504290 GTAATAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 4 0.14
13 22 0.76
14 3 0.10
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AATATAATAAATA
Found at i:1504268 original size:16 final size:15
Alignment explanation
Indices: 1504244--1504301 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 15
1504234 ATTCTTGAAT
*
1504244 ATAATAAATAAATAAA
1 ATAAAAAAT-AATAAA
*
1504260 ATAAAAAATAATAAT
1 ATAAAAAATAATAAA
1504275 ATATAAAAATAATAAGTA
1 ATA-AAAAATAATAA--A
1504293 ATAAAAAAT
1 ATAAAAAAT
1504302 TTGAAAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
15 8 0.22
16 19 0.53
17 6 0.17
18 3 0.08
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (15 bp):
ATAAAAAATAATAAA
Found at i:1504283 original size:23 final size:23
Alignment explanation
Indices: 1504244--1504301 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
1504234 ATTCTTGAAT
1504244 ATAATAAATAAATAAAATAAAAA
1 ATAATAAATAAATAAAATAAAAA
* *
1504267 ATAAT-AATATATAAAAATAATAA
1 ATAATAAATAAAT-AAAATAAAAA
*
1504290 GTAATAAA-AAAT
1 ATAATAAATAAAT
1504302 TTGAAAGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 6 0.21
23 21 0.72
24 2 0.07
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (23 bp):
ATAATAAATAAATAAAATAAAAA
Found at i:1506636 original size:12 final size:12
Alignment explanation
Indices: 1506615--1506711 Score: 80
Period size: 12 Copynumber: 8.2 Consensus size: 12
1506605 AATATTTATT
*
1506615 AATAAAAATATA
1 AATAATAATATA
1506627 AATAAT-A-AT-
1 AATAATAATATA
1506636 AATAATAATATA
1 AATAATAATATA
1506648 AATAAT-ATATA
1 AATAATAATATA
1506659 TAATAATAAT-TA
1 -AATAATAATATA
*
1506671 TAATTATAAT-TA
1 -AATAATAATATA
1506683 TAATAATAATAATA
1 -AATAATAAT-ATA
*
1506697 AATAAATAAAATA
1 AAT-AATAATATA
1506710 AA
1 AA
1506712 ATGGGTAAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
9 6 0.08
10 3 0.04
11 8 0.11
12 39 0.53
13 10 0.14
14 7 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AATAATAATATA
Found at i:1506639 original size:9 final size:9
Alignment explanation
Indices: 1506614--1506710 Score: 85
Period size: 9 Copynumber: 10.7 Consensus size: 9
1506604 TAATATTTAT
*
1506614 TAATAAAAA
1 TAATAATAA
1506623 T-ATAAATAA
1 TAAT-AATAA
1506632 TAATAATAA
1 TAATAATAA
1506641 TAAT-ATAAA
1 TAATAAT-AA
1506650 TAAT-ATATA
1 TAATAATA-A
1506659 TAATAATAA
1 TAATAATAA
* *
1506668 TTATAATTA
1 TAATAATAA
*
1506677 TAATTATAA
1 TAATAATAA
1506686 TAATAATAA
1 TAATAATAA
1506695 TAAATAAATAA
1 T-AAT-AATAA
1506706 -AATAA
1 TAATAA
1506711 AATGGGTAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
8 7 0.09
9 54 0.73
10 8 0.11
11 5 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TAATAATAA
Found at i:1506686 original size:6 final size:6
Alignment explanation
Indices: 1506657--1506697 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
1506647 AAATAATATA
* * *
1506657 TATAAT AATAAT TATAAT TATAAT TATAAT AATAAT AATAA
1 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TATAA
1506698 ATAAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (6 bp):
TATAAT
Found at i:1508332 original size:2 final size:2
Alignment explanation
Indices: 1508325--1508351 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1508315 AACGAAAGCA
1508325 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1508352 AAGATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1509748 original size:22 final size:22
Alignment explanation
Indices: 1509722--1509767 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1509712 TCATGGGCTT
*
1509722 TTAATGAATAATAAT-CATGAGA
1 TTAATGAATAACAATGCATG-GA
*
1509744 TTAATGCATAACAATGCATGGA
1 TTAATGAATAACAATGCATGGA
1509766 TT
1 TT
1509768 GGAAACGACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (22 bp):
TTAATGAATAACAATGCATGGA
Found at i:1526585 original size:21 final size:20
Alignment explanation
Indices: 1526561--1526599 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
1526551 TTAGTTTCTT
1526561 TTTATTTATTTATTGTTATGG
1 TTTATTTATTTATT-TTATGG
1526582 TTTATTTATTTATTTTAT
1 TTTATTTATTTATTTTAT
1526600 TTTTCTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TTTATTTATTTATTTTATGG
Found at i:1529455 original size:40 final size:40
Alignment explanation
Indices: 1529404--1529514 Score: 179
Period size: 40 Copynumber: 2.8 Consensus size: 40
1529394 AAGGACACTA
*
1529404 AGTGTACATGGTGGGCACGACCTTATGTGTAATACACTT-
1 AGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTC
* *
1529443 TGATGTATATGGTGGGCATGACCTTATGTGTAATACACTTC
1 AG-TGTATATGGTGGGCACGACCTTATGTGTAATACACTTC
1529484 AGTGTATATGGTGGGCACGACCTTATGTGTA
1 AGTGTATATGGTGGGCACGACCTTATGTGTA
1529515 GGACTAAGGT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.02
40 63 0.97
41 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.33
Consensus pattern (40 bp):
AGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTC
Found at i:1532161 original size:19 final size:19
Alignment explanation
Indices: 1532137--1532173 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1532127 CAAATTTAAA
* *
1532137 TTAGGATTTATTTTTAATT
1 TTAGGAATTATGTTTAATT
1532156 TTAGGAATTATGTTTAAT
1 TTAGGAATTATGTTTAAT
1532174 AATTATCGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.57
Consensus pattern (19 bp):
TTAGGAATTATGTTTAATT
Found at i:1534936 original size:12 final size:13
Alignment explanation
Indices: 1534909--1534944 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
1534899 TTACTACACA
1534909 TTTTTTCTTACTTC
1 TTTTTT-TTACTTC
1534923 TTTTTTTTAC-TC
1 TTTTTTTTACTTC
1534935 TTTTTTTTAC
1 TTTTTTTTAC
1534945 CACTGTTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.55
13 4 0.18
14 6 0.27
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTTTTACTTC
Found at i:1540451 original size:10 final size:10
Alignment explanation
Indices: 1540438--1540462 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1540428 CAAATATAAC
1540438 CTAAATGCAA
1 CTAAATGCAA
1540448 CTAAATGCAA
1 CTAAATGCAA
1540458 CTAAA
1 CTAAA
1540463 ATGTTGTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.20, G:0.08, T:0.20
Consensus pattern (10 bp):
CTAAATGCAA
Found at i:1547835 original size:21 final size:21
Alignment explanation
Indices: 1547792--1547831 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1547782 GCATCAAGGT
1547792 TTTTGTTGAAGCCATGAAATC
1 TTTTGTTGAAGCCATGAAATC
*
1547813 TTTTGTTGAGGCCAT-AAAT
1 TTTTGTTGAAGCCATGAAAT
1547832 TCTTGTAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (21 bp):
TTTTGTTGAAGCCATGAAATC
Found at i:1556954 original size:3 final size:3
Alignment explanation
Indices: 1556946--1557018 Score: 128
Period size: 3 Copynumber: 24.0 Consensus size: 3
1556936 TTTTTTGTCC
*
1556946 TAT TAT TAT TAT TAC 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
1556994 TAT TAT TAT TAT TAT TGAT TAT TAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT
1557019 GTATGATTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 64 0.96
4 3 0.04
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1557145 original size:195 final size:196
Alignment explanation
Indices: 1556813--1557192 Score: 726
Period size: 195 Copynumber: 1.9 Consensus size: 196
1556803 TATGATGGAT
* *
1556813 TTGATTAATGTGTATGATTCAATTTTTACATGTTTTTTATGATGAATGTGATATTTATAAAAGAA
1 TTGATTAATATGTATGATTCAATTTTTACATGTTTTTGATGATGAATGTGATATTTATAAAAGAA
1556878 TATAAAAAGGAGTTTTTCGTATGTTTTAGATTTGGGTAATTTTGGTGTGTAATCACCATTTTTTG
66 TATAAAAAGGAGTTTTTCGTATGTTTTAGATTTGGGTAATTTTGGTGTGTAATCACCATTTTTTG
1556943 TCCTATTATTATTATTACTATTATTATTATTATTATTATTATTATT-ATTATTATTATTATTATT
131 TCCTATTATTATTATTACTATTATTATTATTATTATTATTATTATTGATTATTATTATTATTATT
1557007 A
196 A
*
1557008 TTGATTATTATGTATGATTCAATTTTTACATGTTTTTGATGATGAATGTGATATTTATAAAAGAA
1 TTGATTAATATGTATGATTCAATTTTTACATGTTTTTGATGATGAATGTGATATTTATAAAAGAA
1557073 TATAAAAAGGAGTTTTTCGTATGTTTTAGATTTGGGTAATTTTGGTGTGTAATCACCATTTTTTG
66 TATAAAAAGGAGTTTTTCGTATGTTTTAGATTTGGGTAATTTTGGTGTGTAATCACCATTTTTTG
1557138 TCCTATTATTATTATTACTATTATTATTATTATTATTATTATTATTGATTATTAT
131 TCCTATTATTATTATTACTATTATTATTATTATTATTATTATTATTGATTATTAT
1557193 GTATGATTCA
Statistics
Matches: 181, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
195 173 0.96
196 8 0.04
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.52
Consensus pattern (196 bp):
TTGATTAATATGTATGATTCAATTTTTACATGTTTTTGATGATGAATGTGATATTTATAAAAGAA
TATAAAAAGGAGTTTTTCGTATGTTTTAGATTTGGGTAATTTTGGTGTGTAATCACCATTTTTTG
TCCTATTATTATTATTACTATTATTATTATTATTATTATTATTATTGATTATTATTATTATTATT
A
Found at i:1557149 original size:3 final size:3
Alignment explanation
Indices: 1557141--1557192 Score: 86
Period size: 3 Copynumber: 17.0 Consensus size: 3
1557131 TTTTTTGTCC
*
1557141 TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TGAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
1557187 TAT TAT
1 TAT TAT
1557193 GTATGATTCA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:1557256 original size:174 final size:174
Alignment explanation
Indices: 1556967--1557346 Score: 724
Period size: 174 Copynumber: 2.2 Consensus size: 174
1556957 TTACTATTAT
1556967 TATTATTATTATTATTATTATTATTATTATTATTATTATTATTGATTATTATGTATGATTCAATT
1 TATTATTATTATTATTATTATTATTATTATTATTATTATTATTGATTATTATGTATGATTCAATT
1557032 TTTACATGTTTTTGATGATGAATGTGATATTTATAAAAGAATATAAAAAGGAGTTTTTCGTATGT
66 TTTACATGTTTTTGATGATGAATGTGATATTTATAAAAGAATATAAAAAGGAGTTTTTCGTATGT
1557097 TTTAGATTTGGGTAATTTTGGTGTGTAATCACCATTTTTTGTCC
131 TTTAGATTTGGGTAATTTTGGTGTGTAATCACCATTTTTTGTCC
*
1557141 TATTATTATTATTACTATTATTATTATTATTATTATTATTATTGATTATTATGTATGATTCAATT
1 TATTATTATTATTATTATTATTATTATTATTATTATTATTATTGATTATTATGTATGATTCAATT
1557206 TTTACATGTTTTTGATGATGAATGTGATATTTATAAAAGAATATAAAAAGGAGTTTTTCGTATGT
66 TTTACATGTTTTTGATGATGAATGTGATATTTATAAAAGAATATAAAAAGGAGTTTTTCGTATGT
*
1557271 TTTAGATTTGGGTAATTTTGGTGTGTAATCACCATTTTTTGTCT
131 TTTAGATTTGGGTAATTTTGGTGTGTAATCACCATTTTTTGTCC
* *
1557315 TATTATTGTTATTATTATTACTATTATTATTA
1 TATTATTATTATTATTATTATTATTATTATTA
1557347 CAATCAACCA
Statistics
Matches: 201, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 201 1.00
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.53
Consensus pattern (174 bp):
TATTATTATTATTATTATTATTATTATTATTATTATTATTATTGATTATTATGTATGATTCAATT
TTTACATGTTTTTGATGATGAATGTGATATTTATAAAAGAATATAAAAAGGAGTTTTTCGTATGT
TTTAGATTTGGGTAATTTTGGTGTGTAATCACCATTTTTTGTCC
Found at i:1557331 original size:12 final size:12
Alignment explanation
Indices: 1557314--1557347 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1557304 ATTTTTTGTC
**
1557314 TTATTATTGTTA
1 TTATTATTACTA
1557326 TTATTATTACTA
1 TTATTATTACTA
1557338 TTATTATTAC
1 TTATTATTAC
1557348 AATCAACCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:1563148 original size:104 final size:104
Alignment explanation
Indices: 1562968--1563177 Score: 420
Period size: 104 Copynumber: 2.0 Consensus size: 104
1562958 CACACTTATG
1562968 TTGATAACGTTTAATGTTGATTCTAATCTTTACATATGAAATAGTGGAGCAGATGATTTTAGTTT
1 TTGATAACGTTTAATGTTGATTCTAATCTTTACATATGAAATAGTGGAGCAGATGATTTTAGTTT
1563033 TGGCAAATTTCTTGGGAATTGAACTCTAAAGGTGAGACT
66 TGGCAAATTTCTTGGGAATTGAACTCTAAAGGTGAGACT
1563072 TTGATAACGTTTAATGTTGATTCTAATCTTTACATATGAAATAGTGGAGCAGATGATTTTAGTTT
1 TTGATAACGTTTAATGTTGATTCTAATCTTTACATATGAAATAGTGGAGCAGATGATTTTAGTTT
1563137 TGGCAAATTTCTTGGGAATTGAACTCTAAAGGTGAGACT
66 TGGCAAATTTCTTGGGAATTGAACTCTAAAGGTGAGACT
1563176 TT
1 TT
1563178 CTTACCTTTA
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 106 1.00
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (104 bp):
TTGATAACGTTTAATGTTGATTCTAATCTTTACATATGAAATAGTGGAGCAGATGATTTTAGTTT
TGGCAAATTTCTTGGGAATTGAACTCTAAAGGTGAGACT
Found at i:1563386 original size:2 final size:2
Alignment explanation
Indices: 1563379--1563455 Score: 109
Period size: 2 Copynumber: 38.5 Consensus size: 2
1563369 GGCAAATAAT
* * * *
1563379 AC AC AC AC AC AC AC TC TC AC AC AC AA AC AT AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
1563421 AC AC AT AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1563456 TATATAATAT
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.45, G:0.00, T:0.05
Consensus pattern (2 bp):
AC
Found at i:1565364 original size:35 final size:35
Alignment explanation
Indices: 1565199--1565758 Score: 495
Period size: 36 Copynumber: 15.7 Consensus size: 35
1565189 TCACACATGG
* * *
1565199 GATTGTTTTTCTTACATCATATTTTATCTCACTTGC
1 GATTG-TTTTCTTAAAACATATTTTATCTCACTTGA
*
1565235 GATTGTTTTCCTTAAAACATATTTTATCTTACTTGA
1 GATTGTTTT-CTTAAAACATATTTTATCTCACTTGA
* *
1565271 GATTATCTTTCTTAAAACATATTTTATCTTACTTGA
1 GATTGT-TTTCTTAAAACATATTTTATCTCACTTGA
1565307 GATTGTTTTCCTTAAAACATATTTTATCTCACTTGA
1 GATTGTTTT-CTTAAAACATATTTTATCTCACTTGA
** * * *
1565343 GATCATTTTCTTAAAATATATTATATATCACTTGA
1 GATTGTTTTCTTAAAACATATTTTATCTCACTTGA
* * * * *
1565378 CATTAATTTTCTTAAAAATATATTTTATCTCACATAA
1 GATT-GTTTTCTT-AAAACATATTTTATCTCACTTGA
1565415 GATT-TTTTACTTAAAACATATTTTATCTCACTTGA
1 GATTGTTTT-CTTAAAACATATTTTATCTCACTTGA
* *
1565450 GATT-TTTCCCTTAAAACATATTTTATTTCACTTGA
1 GATTGTTT-TCTTAAAACATATTTTATCTCACTTGA
* * *
1565485 GATCGTTTTCCTTATAATATATTTTATCTCACTTGA
1 GATTGTTTT-CTTAAAACATATTTTATCTCACTTGA
* * * * *
1565521 GAGTGTTTTATAAAAATAGATTTTATCTCACTTGA
1 GATTGTTTTCTTAAAACATATTTTATCTCACTTGA
* * *
1565556 GATTGTTTTATAAAAACA-ATTTTTTTCTCACTTGA
1 GATTGTTTTCTTAAAACATA-TTTTATCTCACTTGA
* * *
1565591 GAGTGTTTTTCTAAAAACAAATTTTATCTCACTTGA
1 GATTG-TTTTCTTAAAACATATTTTATCTCACTTGA
* * *
1565627 GACTGTTTTTCTAAAAAACA-ATTTTTATCTCGCTTGA
1 GATTG-TTTTCT-TAAAACATA-TTTTATCTCACTTGA
* * * *
1565664 AATTGTTTTACTTAAAACAAAGTTCATCTCACTAT-A
1 GATTGTTTT-CTTAAAACATATTTTATCTCACT-TGA
* * ** * *
1565700 GATTGTTTT-TCTCAAATA-ATTTTAAATTACTTAA
1 GATTGTTTTCT-TAAAACATATTTTATCTCACTTGA
*
1565734 GATTGTTTTTCTTAAAACAAATTTT
1 GATTG-TTTTCTTAAAACATATTTT
1565759 GCCTTACATT
Statistics
Matches: 443, Mismatches: 59, Indels: 44
0.81 0.11 0.08
Matches are distributed among these distances:
33 1 0.00
34 16 0.04
35 161 0.36
36 211 0.48
37 54 0.12
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.47
Consensus pattern (35 bp):
GATTGTTTTCTTAAAACATATTTTATCTCACTTGA
Found at i:1566306 original size:77 final size:77
Alignment explanation
Indices: 1566206--1566414 Score: 208
Period size: 77 Copynumber: 2.7 Consensus size: 77
1566196 CCTTGTTAAG
* ** *
1566206 ATCCATCACAGAAGGAGGA-GGATCAACATTTCCATTAGAATAA-TTCGTAATGAGAA-AAATTC
1 ATCCATCACAAAAGGA-GATGGATCAACATTTCCAACA-AATAAGTTCATAATGAGAAGAAATT-
1566268 ATTCAACCATGGCTC
63 ATTCAACCATGGCTC
* * * * * *
1566283 ATCCATCACAAAAGGAGATGGATCTATATTTCCAACAAATAAGTTTATAATGATAAGAACTTGTT
1 ATCCATCACAAAAGGAGATGGATCAACATTTCCAACAAATAAGTTCATAATGAGAAGAAATTATT
* *
1566348 CAACCTTGGCTT
66 CAACCATGGCTC
* * * * **
1566360 ATCCATCACATAAGGAGATGGGTCAAAATTCCCAACAAATAAGTTTGTAATGAGA
1 ATCCATCACAAAAGGAGATGGATCAACATTTCCAACAAATAAGTTCATAATGAGA
1566415 GCTTGTGGCT
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
76 7 0.06
77 99 0.90
78 4 0.04
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (77 bp):
ATCCATCACAAAAGGAGATGGATCAACATTTCCAACAAATAAGTTCATAATGAGAAGAAATTATT
CAACCATGGCTC
Found at i:1566606 original size:6 final size:6
Alignment explanation
Indices: 1566597--1566623 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1566587 TATACATATA
1566597 AATTAT AATTAT AATTAT AATTAT AAT
1 AATTAT AATTAT AATTAT AATTAT AAT
1566624 GACCCACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTAT
Found at i:1571419 original size:12 final size:12
Alignment explanation
Indices: 1571402--1571438 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
1571392 GGGGCAAATA
*
1571402 ATATATACATAT
1 ATATATACATAC
*
1571414 ATATATACACAC
1 ATATATACATAC
1571426 ATATATACATAC
1 ATATATACATAC
1571438 A
1 A
1571439 ATAAAGTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATATATACATAC
Found at i:1571429 original size:16 final size:16
Alignment explanation
Indices: 1571408--1571438 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1571398 AATAATATAT
*
1571408 ACATATATATATACAC
1 ACATATATACATACAC
1571424 ACATATATACATACA
1 ACATATATACATACA
1571439 ATAAAGTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (16 bp):
ACATATATACATACAC
Found at i:1573221 original size:44 final size:44
Alignment explanation
Indices: 1573173--1573256 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
1573163 ATATTTCACC
* * * *
1573173 TTCGCTCAATTTCATCGTATATGGAGTTGGATCAGCATCACCAT
1 TTCGCTCAATTCCATCGAATAGGGAGCTGGATCAGCATCACCAT
** *
1573217 TTCGCTCTGTTCCATCGAATAGGGAGCTGGTTCAGCATCA
1 TTCGCTCAATTCCATCGAATAGGGAGCTGGATCAGCATCA
1573257 TCTCACTTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (44 bp):
TTCGCTCAATTCCATCGAATAGGGAGCTGGATCAGCATCACCAT
Found at i:1573303 original size:36 final size:36
Alignment explanation
Indices: 1573256--1573786 Score: 446
Period size: 36 Copynumber: 15.0 Consensus size: 36
1573246 GTTCAGCATC
*
1573256 ATCTCACTTGAGATTGTTTTTCTTAAATCATATTTT
1 ATCTCACTTGAGATTGTTTTTCTTAAAACATATTTT
* * **
1573292 ATCTCACTTGAGATTATTTTCCTTAAAATGTATTTT
1 ATCTCACTTGAGATTGTTTTTCTTAAAACATATTTT
*
1573328 ATCTCACTAGAGATTGTTTTTCTTAAAACATATTTT
1 ATCTCACTTGAGATTGTTTTTCTTAAAACATATTTT
*
1573364 ATCTCACTTGAGATTGTTTTCCTT-AAACATATTTT
1 ATCTCACTTGAGATTGTTTTTCTTAAAACATATTTT
** ** *
1573399 ATCTCACTAAAGATCATTTTCCTTAAAACATATTTT
1 ATCTCACTTGAGATTGTTTTTCTTAAAACATATTTT
* * * *
1573435 ATCTCAATTAAGATTATTTTTTCTTAAAAACAGATTTT
1 ATCTCACTTGAGATT-GTTTTTCTT-AAAACATATTTT
* * * * *
1573473 ATCTCACTTGACATTGTATTCCAT-AAACAGATTTT
1 ATCTCACTTGAGATTGTTTTTCTTAAAACATATTTT
* **
1573508 ATCTCACTTGAGATTGTTTTCCTTATGACATATTTT
1 ATCTCACTTGAGATTGTTTTTCTTAAAACATATTTT
* * * *
1573544 AACTCACTTGAGATTGTTTTCCATAAAACAAATTTT
1 ATCTCACTTGAGATTGTTTTTCTTAAAACATATTTT
* * * *
1573580 ATCTCACTTGAGA--GTATTTTATAAAAACAAAAATTGT
1 ATCTCACTTGAGATTGT-TTTTCTTAAAAC--ATATTTT
* *
1573617 ATCTCACTTGAGAGTGTTTTTCTAAAAAC-TA----
1 ATCTCACTTGAGATTGTTTTTCTTAAAACATATTTT
* *
1573648 A---CACTTGAGAGTGTTTTTCTTAAAAACAAATTTT
1 ATCTCACTTGAGATTGTTTTTCTT-AAAACATATTTT
* * * *
1573682 ATCTAACTTGATG-TT-TTTTTACTTGAAACAAATTTC
1 ATCTCACTTGA-GATTGTTTTT-CTTAAAACATATTTT
* * *
1573718 ATCTCACTAGAGATTGTTTTTC-TAAAAGA-ATTGT
1 ATCTCACTTGAGATTGTTTTTCTTAAAACATATTTT
* * * * *
1573752 ATCTTACTTAAAAATGTTTTTCTTAAAACAAATTT
1 ATCTCACTTGAGATTGTTTTTCTTAAAACATATTT
1573787 CGTATTACAT
Statistics
Matches: 404, Mismatches: 67, Indels: 48
0.78 0.13 0.09
Matches are distributed among these distances:
28 19 0.05
29 5 0.01
30 1 0.00
31 1 0.00
34 23 0.06
35 84 0.21
36 188 0.47
37 46 0.11
38 35 0.09
39 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (36 bp):
ATCTCACTTGAGATTGTTTTTCTTAAAACATATTTT
Found at i:1573513 original size:109 final size:107
Alignment explanation
Indices: 1573256--1573786 Score: 440
Period size: 109 Copynumber: 5.0 Consensus size: 107
1573246 GTTCAGCATC
* *
1573256 ATCTCACTTGAGATTGTTTTTCTTAAATCATATTTTATCTCACTTGAGATTATTTTCCTTAAAAT
1 ATCTCACTTGAGATTGTTTTCCTTAAA-CATATTTTATCTCACTTGAGATTATTTTCCTTAAAAC
* * *
1573321 GTATTTTATCTC-ACTAGAGATTGTTTTTCTTAAAACATATTTT
65 ATATTTTATCTCAATTA-AGATTGTTTTTCTTAAAACAAATTTT
** *
1573364 ATCTCACTTGAGATTGTTTTCCTTAAACATATTTTATCTCACTAAAGATCATTTTCCTTAAAACA
1 ATCTCACTTGAGATTGTTTTCCTTAAACATATTTTATCTCACTTGAGATTATTTTCCTTAAAACA
* *
1573429 TATTTTATCTCAATTAAGATTATTTTTTCTTAAAAACAGATTTT
66 TATTTTATCTCAATTAAGATT-GTTTTTCTT-AAAACAAATTTT
* * * * * **
1573473 ATCTCACTTGACATTGTATTCCATAAACAGATTTTATCTCACTTGAGATTGTTTTCCTTATGACA
1 ATCTCACTTGAGATTGTTTTCCTTAAACATATTTTATCTCACTTGAGATTATTTTCCTTAAAACA
* * * * *
1573538 TATTTTAACTCACTTGAGATTGTTTTCCATAAAACAAATTTT
66 TATTTTATCTCAATTAAGATTGTTTTTCTTAAAACAAATTTT
* * * * * * * * * *
1573580 ATCTCACTTGAGAGTATTTT-ATAAAAACAAAAATTGTATCTCACTTGAGAGTGTTTTTCTAAAA
1 ATCTCACTTGAGATTGTTTTCCT-TAAAC--ATATTTTATCTCACTTGAGATTATTTTCCTTAAA
* * *
1573644 AC-TA----A---CACTTGAGAGTGTTTTTCTTAAAAACAAATTTT
63 ACATATTTTATCTCAATTAAGATTGTTTTTCTT-AAAACAAATTTT
* * * * * * * *
1573682 ATCTAACTTGATG-TTTTTTTACTTGAAACAAATTTCATCTCACTAGAGATTGTTTTTC-TAAAA
1 ATCTCACTTGA-GATTGTTTTCCTT-AAACATATTTTATCTCACTTGAGATTATTTTCCTTAAAA
* * * * * *
1573745 GA-ATTGTATCTTACTTAAAAATGTTTTTCTTAAAACAAATTT
64 CATATTTTATCTCAATTAAGATTGTTTTTCTTAAAACAAATTT
1573787 CGTATTACAT
Statistics
Matches: 347, Mismatches: 58, Indels: 38
0.78 0.13 0.09
Matches are distributed among these distances:
100 5 0.01
101 42 0.12
102 27 0.08
103 6 0.02
104 2 0.01
106 11 0.03
107 96 0.28
108 45 0.13
109 113 0.33
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (107 bp):
ATCTCACTTGAGATTGTTTTCCTTAAACATATTTTATCTCACTTGAGATTATTTTCCTTAAAACA
TATTTTATCTCAATTAAGATTGTTTTTCTTAAAACAAATTTT
Found at i:1573621 original size:37 final size:38
Alignment explanation
Indices: 1573573--1573645 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
1573563 TCCATAAAAC
*
1573573 AAATTTTATCTCACTTGAGAGT-ATTTTATAAAAACAA
1 AAATTGTATCTCACTTGAGAGTGATTTTATAAAAACAA
* *
1573610 AAATTGTATCTCACTTGAGAGTGTTTTTCTAAAAAC
1 AAATTGTATCTCACTTGAGAGTGATTTTATAAAAAC
1573646 TAACACTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 21 0.66
38 11 0.34
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.38
Consensus pattern (38 bp):
AAATTGTATCTCACTTGAGAGTGATTTTATAAAAACAA
Found at i:1573643 original size:72 final size:71
Alignment explanation
Indices: 1573256--1573786 Score: 406
Period size: 71 Copynumber: 7.5 Consensus size: 71
1573246 GTTCAGCATC
* *
1573256 ATCTCACTTGAGATTGTTTTTCTTAAATCATATTTTATCTCACTTGAGATTATTTTCCTTAAAAT
1 ATCTCACTTGAGATTGTTTTTCTTAAAACATATTTTATCTCACTTGAGATTATTTTCC-TAAAAC
*
1573321 GTATTTT
65 ATATTTT
* * *
1573328 ATCTCACTAGAGATTGTTTTTCTTAAAACATATTTTATCTCACTTGAGATTGTTTTCCTTAAACA
1 ATCTCACTTGAGATTGTTTTTCTTAAAACATATTTTATCTCACTTGAGATTATTTTCCTAAAACA
1573393 TATTTT
66 TATTTT
** ** * * * *
1573399 ATCTCACTAAAGATCATTTTCCTTAAAACATATTTTATCTCAATTAAGATTATTTTTTCTTAAAA
1 ATCTCACTTGAGATTGTTTTTCTTAAAACATATTTTATCTCACTTGAGATTA--TTTTCCT-AAA
*
1573464 ACAGATTTT
63 ACATATTTT
* * * * * * **
1573473 ATCTCACTTGACATTGTATTCCAT-AAACAGATTTTATCTCACTTGAGATTGTTTTCCTTATGAC
1 ATCTCACTTGAGATTGTTTTTCTTAAAACATATTTTATCTCACTTGAGATTATTTTCC-TAAAAC
1573537 ATATTTT
65 ATATTTT
* * * * * *
1573544 AACTCACTTGAGATTGTTTTCCATAAAACAAATTTTATCTCACTTGAGAGTATTTT-ATAAAAAC
1 ATCTCACTTGAGATTGTTTTTCTTAAAACATATTTTATCTCACTTGAGATTATTTTCCT-AAAAC
* *
1573608 AAAAATTGT
65 --ATATTTT
* * *
1573617 ATCTCACTTGAGAGTGTTTTTCTAAAAAC-TA----A---CACTTGAGAGTGT-TTTTCTTAAAA
1 ATCTCACTTGAGATTGTTTTTCTTAAAACATATTTTATCTCACTTGAGA-T-TATTTTCCT-AAA
*
1573673 ACAAATTTT
63 ACATATTTT
* * * * * * *
1573682 ATCTAACTTGATG-TT-TTTTTACTTGAAACAAATTTCATCTCACTAGAGATTGTTTTTCTAAAA
1 ATCTCACTTGA-GATTGTTTTT-CTTAAAACATATTTTATCTCACTTGAGATTATTTTCCTAAAA
* *
1573745 GA-ATTGT
64 CATATTTT
* * * * *
1573752 ATCTTACTTAAAAATGTTTTTCTTAAAACAAATTT
1 ATCTCACTTGAGATTGTTTTTCTTAAAACATATTT
1573787 CGTATTACAT
Statistics
Matches: 369, Mismatches: 66, Indels: 50
0.76 0.14 0.10
Matches are distributed among these distances:
64 5 0.01
65 32 0.09
66 6 0.02
67 8 0.02
68 1 0.00
70 29 0.08
71 104 0.28
72 91 0.25
73 66 0.18
74 27 0.07
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (71 bp):
ATCTCACTTGAGATTGTTTTTCTTAAAACATATTTTATCTCACTTGAGATTATTTTCCTAAAACA
TATTTT
Found at i:1573724 original size:101 final size:100
Alignment explanation
Indices: 1573548--1573744 Score: 238
Period size: 101 Copynumber: 1.9 Consensus size: 100
1573538 TATTTTAACT
* *
1573548 CACTTGAGATTGTTTTCCATAAAACAAATTTTATCTCACTTGAGAGTATTTTATAAAAACAAAAA
1 CACTTGAGAGTGTTTTCCATAAAACAAATTTTATCTAACTTGAGAGTATTTTATAAAAAC-AAAA
*
1573613 TTGTATCTCACTTGAGAGTGTTTTTCTAAAAACTAA
65 TTGTATCTCACTAGAGAGTGTTTTTCTAAAAACTAA
* * * * **
1573649 CACTTGAGAGTGTTTTTCTTAAAAACAAATTTTATCTAACTTGATG-TTTTTTTACTTGAAAC-A
1 CACTTGAGAGTGTTTTCCAT-AAAACAAATTTTATCTAACTTGA-GAGTATTTTA-TAAAAACAA
*
1573712 AATT-TCATCTCACTAGAGATTGTTTTTCTAAAA
63 AATTGT-ATCTCACTAGAGAGTGTTTTTCTAAAA
1573745 GAATTGTATC
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
100 1 0.01
101 47 0.57
102 28 0.34
103 6 0.07
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (100 bp):
CACTTGAGAGTGTTTTCCATAAAACAAATTTTATCTAACTTGAGAGTATTTTATAAAAACAAAAT
TGTATCTCACTAGAGAGTGTTTTTCTAAAAACTAA
Found at i:1574341 original size:77 final size:78
Alignment explanation
Indices: 1574252--1574418 Score: 178
Period size: 78 Copynumber: 2.2 Consensus size: 78
1574242 CAAAATGCAT
* * * *
1574252 TGGATCAGCA-TTTCTAATAAA-AGACTTTATAATGAGAAAAAATCATTCAACCATGGCTTGTCT
1 TGGATCAGCATTTTCCAACAAATA-ACTTTATAATGAGAAAAAATCATTCAACCATGGCTCGTCC
*
1574315 ATCACATAAGGAGA
65 ATCACAGAAGGAGA
* * * * ** *
1574329 TGGATC-GACATTTTCCAACAAATAAGTTTGTAATGAGAACAACTTGTTCAACCTTGGCTCGTCC
1 TGGATCAG-CATTTTCCAACAAATAACTTTATAATGAGAAAAAATCATTCAACCATGGCTCGTCC
1574393 ATCACAGAAGGAGA
65 ATCACAGAAGGAGA
*
1574407 TGGGTCAGCATT
1 TGGATCAGCATT
1574419 CCTAGAAAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
76 1 0.01
77 8 0.11
78 62 0.85
79 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (78 bp):
TGGATCAGCATTTTCCAACAAATAACTTTATAATGAGAAAAAATCATTCAACCATGGCTCGTCCA
TCACAGAAGGAGA
Found at i:1574387 original size:78 final size:77
Alignment explanation
Indices: 1574297--1574445 Score: 196
Period size: 78 Copynumber: 1.9 Consensus size: 77
1574287 GAAAAAATCA
* * *
1574297 TTCAACCATGGCTTGTCTATCACATAAGGAGATGGATC-GACATTTTCC-A-ACAAATAAGTTTG
1 TTCAACCATGGCTCGTCCATCACAGAAGGAGATGGATCAG-CA--TTCCTAGA-AAATAAGTTTG
1574359 TAATGAGAACAACTTG
62 TAATGAGAACAACTTG
* *
1574375 TTCAACCTTGGCTCGTCCATCACAGAAGGAGATGGGTCAGCATTCCTAGAAAATAAGTTTGTAAT
1 TTCAACCATGGCTCGTCCATCACAGAAGGAGATGGATCAGCATTCCTAGAAAATAAGTTTGTAAT
1574440 GAGAAC
66 GAGAAC
1574446 TTGTGGCTCA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
76 4 0.06
77 22 0.35
78 36 0.57
79 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (77 bp):
TTCAACCATGGCTCGTCCATCACAGAAGGAGATGGATCAGCATTCCTAGAAAATAAGTTTGTAAT
GAGAACAACTTG
Found at i:1579421 original size:2 final size:2
Alignment explanation
Indices: 1579416--1579455 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1579406 CCAAGACCAA
1579416 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1579456 TAATTAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1588557 original size:21 final size:21
Alignment explanation
Indices: 1588473--1588556 Score: 123
Period size: 21 Copynumber: 4.0 Consensus size: 21
1588463 ACTACAAAAC
1588473 CTGCTGAAAATCCTACAACCA
1 CTGCTGAAAATCCTACAACCA
*
1588494 CTGCTGAAATTCCTACAACCA
1 CTGCTGAAAATCCTACAACCA
* * *
1588515 CTACTGTAAATCCTACAGCCA
1 CTGCTGAAAATCCTACAACCA
*
1588536 TTGCTGAAAATCCTACAACCA
1 CTGCTGAAAATCCTACAACCA
1588557 TAGTAATTCC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.36, C:0.32, G:0.10, T:0.23
Consensus pattern (21 bp):
CTGCTGAAAATCCTACAACCA
Found at i:1594682 original size:18 final size:18
Alignment explanation
Indices: 1594659--1594693 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1594649 AAATTGTAAG
1594659 CAACAGGTGCCTAGTGAA
1 CAACAGGTGCCTAGTGAA
1594677 CAACAGGTGCCTAGTGA
1 CAACAGGTGCCTAGTGA
1594694 GCTACAACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.23, G:0.29, T:0.17
Consensus pattern (18 bp):
CAACAGGTGCCTAGTGAA
Found at i:1600350 original size:2 final size:2
Alignment explanation
Indices: 1600343--1600368 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1600333 CATTTTAAAT
1600343 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
1600369 AATTAATTTG
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):
TA
Found at i:1611433 original size:17 final size:18
Alignment explanation
Indices: 1611411--1611451 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
1611401 AAATAATTTC
1611411 ATATATT-A-TTAATAAAA
1 ATATATTGAGTTAA-AAAA
1611428 ATATATTGAGTTAAAAAA
1 ATATATTGAGTTAAAAAA
1611446 ATATAT
1 ATATAT
1611452 ACATGAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 11 0.50
19 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (18 bp):
ATATATTGAGTTAAAAAA
Found at i:1611940 original size:21 final size:21
Alignment explanation
Indices: 1611916--1611956 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
1611906 AAAATTGTGC
1611916 AATTTTTTAATAATTCTAATT
1 AATTTTTTAATAATTCTAATT
1611937 AATTTTTTAATAATTCTAAT
1 AATTTTTTAATAATTCTAAT
1611957 AGATTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
AATTTTTTAATAATTCTAATT
Found at i:1619057 original size:24 final size:24
Alignment explanation
Indices: 1619005--1619057 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
1618995 CATTAAAATG
* *
1619005 ATAAACGAACACAAATGAATAAAC
1 ATAAACGAACACAAACGAACAAAC
* * *
1619029 TTAAACTAACACAAACGAACGAAC
1 ATAAACGAACACAAACGAACAAAC
1619053 ATAAA
1 ATAAA
1619058 ATTAATTGGG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.60, C:0.19, G:0.08, T:0.13
Consensus pattern (24 bp):
ATAAACGAACACAAACGAACAAAC
Found at i:1619174 original size:16 final size:17
Alignment explanation
Indices: 1619145--1619177 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1619135 TATTTTTTTT
1619145 ATTTGAGTTAAAAAATA
1 ATTTGAGTTAAAAAATA
*
1619162 ATTT-AGTTTAAAAATA
1 ATTTGAGTTAAAAAATA
1619178 TTAATGGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (17 bp):
ATTTGAGTTAAAAAATA
Found at i:1621742 original size:18 final size:18
Alignment explanation
Indices: 1621721--1621759 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
1621711 AAAAAATGAC
1621721 AAAGAAGAATTGAGTAAA
1 AAAGAAGAATTGAGTAAA
1621739 AAAGAAGAATTGAGTAAA
1 AAAGAAGAATTGAGTAAA
1621757 AAA
1 AAA
1621760 TGATAAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.15
Consensus pattern (18 bp):
AAAGAAGAATTGAGTAAA
Found at i:1623579 original size:23 final size:23
Alignment explanation
Indices: 1623553--1623597 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1623543 CACCACAGCT
*
1623553 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
1623576 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
1623598 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:1623846 original size:149 final size:149
Alignment explanation
Indices: 1623576--1623879 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
1623566 CGAAGTGCCC
1623576 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
* *
1623641 CATATACATATACTATGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGGATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGGATATA
1623706 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
1623725 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1623790 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGGATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGGATATA
1623855 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
1623874 CGTAGA
1 CGTAGA
1623880 CCCTCTACCC
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGGATATA
CATATGTCCTAAAGAACCG
Found at i:1624479 original size:66 final size:67
Alignment explanation
Indices: 1624365--1624515 Score: 259
Period size: 67 Copynumber: 2.3 Consensus size: 67
1624355 TTTTTCTCAT
*
1624365 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCACTAGCATTCTGG-AATTCATATTCGT
1 GGGGGTATCGGTT-CCCCCCTGGGGGTATCGATTCCCCACTAGCATTCTGGAAATTCATATTCGT
1624429 TGA
65 TGA
* *
1624432 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGTATTCTGGAAATTCATATTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCACTAGCATTCTGGAAATTCATATTCGTT
1624497 GA
66 GA
1624499 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
1624516 TTGAATGGGT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
66 35 0.44
67 45 0.56
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCACTAGCATTCTGGAAATTCATATTCGTT
GA
Found at i:1631458 original size:23 final size:23
Alignment explanation
Indices: 1631404--1631458 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
1631394 TATTAATTTT
*
1631404 AAAATATTACTTATATTTTCATA
1 AAAATATTAATTATATTTTCATA
*
1631427 AATGA-ATTAATTATATTTT-ATA
1 AA-AATATTAATTATATTTTCATA
1631449 ACAAATATTA
1 A-AAATATTA
1631459 TTTTTTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
22 5 0.19
23 20 0.77
24 1 0.04
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.45
Consensus pattern (23 bp):
AAAATATTAATTATATTTTCATA
Found at i:1631483 original size:14 final size:15
Alignment explanation
Indices: 1631440--1631486 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
1631430 GAATTAATTA
1631440 TATTTTATAACAAATAT
1 TATTTTAT-A-AAATAT
*
1631457 TATTTTTTAAAAT-T
1 TATTTTATAAAATAT
*
1631471 TATTTTATGAAATAT
1 TATTTTATAAAATAT
1631486 T
1 T
1631487 TATATTAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 12 0.46
15 6 0.23
16 1 0.04
17 7 0.27
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (15 bp):
TATTTTATAAAATAT
Found at i:1631684 original size:14 final size:14
Alignment explanation
Indices: 1631645--1631684 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
1631635 AATTGTTTAT
1631645 AATTATATTTTATGA
1 AATT-TATTTTATGA
1631660 AATTT-TGTTTATGA
1 AATTTAT-TTTATGA
1631674 AATTTATTTTA
1 AATTTATTTTA
1631685 CAAAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 1 0.04
14 17 0.74
15 5 0.22
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (14 bp):
AATTTATTTTATGA
Found at i:1631690 original size:28 final size:27
Alignment explanation
Indices: 1631637--1631690 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
1631627 TTAGATTAAA
**
1631637 TTGTTTATAATTATATTTTATGAAATT
1 TTGTTTATAATTATATTTTACAAAATT
1631664 TTGTTTATGAAATT-TATTTTACAAAAT
1 TTGTTTAT--AATTATATTTTACAAAAT
1631691 ATTTAGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 8 0.35
28 11 0.48
29 4 0.17
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (27 bp):
TTGTTTATAATTATATTTTACAAAATT
Found at i:1632998 original size:58 final size:59
Alignment explanation
Indices: 1632894--1633040 Score: 154
Period size: 58 Copynumber: 2.5 Consensus size: 59
1632884 TATTGAATTT
** * * *
1632894 CCTCGACTATTAAAAGTTATAAAATGGTCATTCGACTGTTGATCATTGCTTTGTTGA-A
1 CCTCGACTATTAAAAGTTATAAAATTATCATTCGACTCTAGATCATTACTTTGTTGACA
* * * * *
1632952 TCTTGACTATTAAAAGTTATAAAATTATCTTTCGACTCTA-AGTCATTATTTTGTTGAGCC
1 CCTCGACTATTAAAAGTTATAAAATTATCATTCGACTCTAGA-TCATTACTTTGTTGA-CA
* *
1633012 CCTCGACTATTAAAAGTTACAAAAATATC
1 CCTCGACTATTAAAAGTTATAAAATTATC
1633041 GTATGACTAT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
57 1 0.01
58 46 0.64
60 25 0.35
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (59 bp):
CCTCGACTATTAAAAGTTATAAAATTATCATTCGACTCTAGATCATTACTTTGTTGACA
Found at i:1634217 original size:26 final size:25
Alignment explanation
Indices: 1634184--1634242 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
1634174 TATATTTTTA
1634184 TTAAAAATATATTTTACCCTAAAATT
1 TTAAAAATATATTTT-CCCTAAAATT
* * **
1634210 TTATAAATTTATTTTTTCTAAAATT
1 TTAAAAATATATTTTCCCTAAAATT
1634235 TTAAAAAT
1 TTAAAAAT
1634243 TCACTCCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 15 0.54
26 13 0.46
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (25 bp):
TTAAAAATATATTTTCCCTAAAATT
Found at i:1644703 original size:18 final size:18
Alignment explanation
Indices: 1644681--1644765 Score: 93
Period size: 18 Copynumber: 4.7 Consensus size: 18
1644671 TTTGGGCCTG
*
1644681 TAATAATATTTATTAATAA
1 TAATAATA-ATATTAATAA
*
1644700 -AATAATAATAATAATAA
1 TAATAATAATATTAATAA
*
1644717 TAATAATAATAATAATAA
1 TAATAATAATATTAATAA
* *
1644735 TAATAATAATAATGATAA
1 TAATAATAATATTAATAA
1644753 T-ATAAATAATATT
1 TAAT-AATAATATT
1644766 TAAATGAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
17 10 0.17
18 50 0.83
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (18 bp):
TAATAATAATATTAATAA
Found at i:1644706 original size:3 final size:3
Alignment explanation
Indices: 1644694--1644763 Score: 108
Period size: 3 Copynumber: 23.7 Consensus size: 3
1644684 TAATATTTAT
1644694 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1644741 TAA TAA TGA TAA T-A TAAA TAA TA
1 TAA TAA TAA TAA TAA T-AA TAA TA
1644764 TTTAAATGAA
Statistics
Matches: 62, Mismatches: 2, Indels: 6
0.89 0.03 0.09
Matches are distributed among these distances:
2 4 0.06
3 56 0.90
4 2 0.03
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1645050 original size:122 final size:121
Alignment explanation
Indices: 1644899--1645183 Score: 506
Period size: 122 Copynumber: 2.4 Consensus size: 121
1644889 ATGTTGAATA
*
1644899 AATTCTTCTCT-TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGTTGAC
1 AATTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGTTGAC
*
1644963 CTATTTCCTTCTGTGATAGAGTCATTCAAAAGGTTGAATAAGCTCTTCTCATTATG
66 CTATTTCCTTCTGTGATAGAGTCAATCAAAAGGTTGAATAAGCTCTTCTCATTATG
1645019 AACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGTTGA
1 AA-TTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGTTGA
*
1645084 TCTATTTCCTTCTGTGATAGAGTCAATCAAAAGGTTGAATAAGCTCTTCTCATTATG
65 CCTATTTCCTTCTGTGATAGAGTCAATCAAAAGGTTGAATAAGCTCTTCTCATTATG
1645141 AA--CTTC-TTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
1 AATTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
1645184 TTTGAAAAAG
Statistics
Matches: 160, Mismatches: 3, Indels: 6
0.95 0.02 0.04
Matches are distributed among these distances:
118 37 0.23
119 4 0.03
120 2 0.01
121 8 0.05
122 109 0.68
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (121 bp):
AATTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGTTGAC
CTATTTCCTTCTGTGATAGAGTCAATCAAAAGGTTGAATAAGCTCTTCTCATTATG
Found at i:1645420 original size:225 final size:225
Alignment explanation
Indices: 1645106--1645631 Score: 746
Period size: 226 Copynumber: 2.4 Consensus size: 225
1645096 TGTGATAGAG
* *
1645106 TCAATCAAAAGGTTGAATAAGCTCTTCTCATTATGAA---CTTCTT-CTTCTTCAGATGAGTTCT
1 TCAAACAAAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
* * * * *
1645167 TCTCATTATGAACTTTCTTTGAAAAAGCTGATCCATTAAGTGATGGATTTGAGCAAAAGGTTGAA
66 TCTCATTATGAACTTTCTCTGAAAAAGCTGATCCATCAAGTGATGAATTTAAGCAAAAAGTTGAA
*
1645232 CAAATTCTTCTCATTATGAA-T-TTCTT-CTTCTTCAGATGATGAGTTCTTCTCATTATGAACTC
131 CAAATTATTCTCATTATGAACTCTTCTTCCTTCTTCAGATGA--A-TTCTTCTCATTATGAACTC
* *
1645294 T-ACATGGCAATGTTGATCCATCAAATGATGAAT
193 TAAC-TGGCAATGCTGATCCACCAAATGATGAAT
* *
1645327 TCAAACAAAAGGTTGAATAAATTCTTCTCATCATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
1 TCAAACAAAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
*
1645392 TCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTAAGCAAAAAGTTGAA
66 TCTCATTATGAACTTTCTCTGAAAAAGCTGATCCATCAAGTGATGAATTTAAGCAAAAAGTTGAA
*
1645457 CAAGTTATTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCTA
131 CAAATTATTCTCATTATGAAC-TCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCTA
* ***
1645522 ACTGGCACTGCTGATCCACCGGGTGATGAAT
195 ACTGGCAATGCTGATCCACCAAATGATGAAT
* * *
1645553 TTAAGA-AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTC
1 TCAA-ACAAAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTC
1645617 TTCTCATTATGAACT
65 TTCTCATTATGAACT
1645632 CTAACTGGCA
Statistics
Matches: 272, Mismatches: 23, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
221 33 0.12
224 6 0.02
225 95 0.35
226 115 0.42
227 5 0.02
228 5 0.02
229 13 0.05
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.37
Consensus pattern (225 bp):
TCAAACAAAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
TCTCATTATGAACTTTCTCTGAAAAAGCTGATCCATCAAGTGATGAATTTAAGCAAAAAGTTGAA
CAAATTATTCTCATTATGAACTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCTAA
CTGGCAATGCTGATCCACCAAATGATGAAT
Found at i:1645655 original size:113 final size:113
Alignment explanation
Indices: 1645112--1645652 Score: 659
Period size: 113 Copynumber: 4.8 Consensus size: 113
1645102 AGAGTCAATC
* *
1645112 AAAAGGTTGAATAAGCTCTTCTCATTATGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *** ** * * * * *
1645173 TATGAACTTTCTTTGAAAAAGCTGATCCATTAAGTGATGGATTTGAGC
66 TATGAACTCTAACTGGCAATGCTGATCCATCAAGTGATGAATTTAAGA
* * **
1645221 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTT-CTTC-AGATGATGAGTTCTTCTCA
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA-GATGAGTTCTTCTCA
* * *
1645284 TTATGAACTCT-ACATGGCAATGTTGATCCATCAAATGATGAATTCAA-A
65 TTATGAACTCTAAC-TGGCAATGCTGATCCATCAAGTGATGAATTTAAGA
* * *
1645332 CAAAAGGTTGAATAAATTCTTCTCATCATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 -AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* ** * *
1645397 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTAAGCA
65 TTATGAACTCTAACTGGCAATGCTGATCCATCAAGTGATGAATTTAAG-A
* *
1645447 AAAA-GTTGAACAAGTTATTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * **
1645511 TATGAACTCTAACTGGCACTGCTGATCCACCGGGTGATGAATTTAAGA
66 TATGAACTCTAACTGGCAATGCTGATCCATCAAGTGATGAATTTAAGA
*
1645559 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
1645624 TATGAACTCTAACTGGCACTGCTGATCCA
66 TATGAACTCTAACTGGCAATGCTGATCCA
1645653 CCGAATGATG
Statistics
Matches: 374, Mismatches: 46, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
109 28 0.07
111 1 0.00
112 101 0.27
113 237 0.63
114 6 0.02
115 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.37
Consensus pattern (113 bp):
AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCTAACTGGCAATGCTGATCCATCAAGTGATGAATTTAAGA
Found at i:1646563 original size:114 final size:114
Alignment explanation
Indices: 1646358--1646697 Score: 518
Period size: 114 Copynumber: 3.0 Consensus size: 114
1646348 GATCATGCAG
* * * * * * * * * *
1646358 TTCATCTTTTAATTCCAATGATTGGTTCTGTGGTTCCTACCGAACCAGATCAAATGACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
* * *
1646423 AAACTTCCAGAAGATGCTATTAGGTCTTCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGAAAA
*
1646472 TTCATCTTTCAAATCTAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
* * * *
1646537 ACACTTCCAGAAGATTCTATTGGGTCTTCGTATTCCTATTATGAGAAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGAAAA
1646586 TTCATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1646651 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGAA
1646698 CGTAGTACTT
Statistics
Matches: 203, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 203 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGAAAA
Found at i:1647017 original size:19 final size:17
Alignment explanation
Indices: 1646989--1647037 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
1646979 AAAATAAAAG
*
1646989 AATAAGTTGAATTTTCGAA
1 AATAAATTGAATTTTC--A
*
1647008 AATAAATTGAA-TCTCA
1 AATAAATTGAATTTTCA
1647024 AATAAATTGAATTT
1 AATAAATTGAATTT
1647038 AGAGAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 12 0.46
17 1 0.04
18 3 0.12
19 10 0.38
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (17 bp):
AATAAATTGAATTTTCA
Found at i:1647413 original size:19 final size:19
Alignment explanation
Indices: 1647391--1647435 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
1647381 TTGACCTTCT
**
1647391 TTTTTCTCTTTTTTTTTCA
1 TTTTTCTCTTTCATTTTCA
*
1647410 TTTTTTTCTTTCATTTTCA
1 TTTTTCTCTTTCATTTTCA
1647429 TTTTTCT
1 TTTTTCT
1647436 TCAAGCATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTCTCTTTCATTTTCA
Found at i:1660194 original size:3 final size:3
Alignment explanation
Indices: 1660188--1660297 Score: 179
Period size: 3 Copynumber: 36.7 Consensus size: 3
1660178 TAATATTTAT
1660188 TAA TAA TAAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1660233 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1660281 TGA TAA T-A TAAA TAA TA
1 TAA TAA TAA T-AA TAA TA
1660298 TTTAAATGAA
Statistics
Matches: 101, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
2 4 0.04
3 92 0.91
4 5 0.05
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1662459 original size:2 final size:2
Alignment explanation
Indices: 1662454--1662525 Score: 60
Period size: 2 Copynumber: 36.5 Consensus size: 2
1662444 CAGTTTTTGA
* * * *
1662454 AT AT AT AT AT AT AT AT AT AT A- AT AT AGT TT TT AA AA AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
*
1662495 TT GA- 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 A
1662526 GTTTTTAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
1 3 0.05
2 56 0.93
3 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1662502 original size:45 final size:45
Alignment explanation
Indices: 1662439--1662600 Score: 223
Period size: 45 Copynumber: 3.7 Consensus size: 45
1662429 TTTTTTATAA
1662439 AAAAACAGTTTTTGAATATATATATATATATATATAATATAGTTTTT
1 AAAAACA--TTTTGAATATATATATATATATATATAATATAGTTTTT
*
1662486 AAAAATATTTTGAATATATATATATATATATATATATATAGTTTTT
1 AAAAACATTTTGAATATATATATATATATATATA-ATATAGTTTTT
1662532 AAAAACATTTTGAA-A-A-A-ATATATATA-AT-ATATAGTTTTT
1 AAAAACATTTTGAATATATATATATATATATATAATATAGTTTTT
*
1662571 -AAAACATTTTGAAAATATATATA-ATATATA
1 AAAAACATTTTGAATATATATATATATATATA
1662601 GTTTTGAAAA
Statistics
Matches: 107, Mismatches: 2, Indels: 17
0.85 0.02 0.13
Matches are distributed among these distances:
38 13 0.12
39 12 0.11
40 1 0.01
41 8 0.07
42 13 0.12
43 1 0.01
44 1 0.01
45 28 0.26
46 24 0.22
47 6 0.06
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (45 bp):
AAAAACATTTTGAATATATATATATATATATATAATATAGTTTTT
Found at i:1662508 original size:47 final size:45
Alignment explanation
Indices: 1662439--1662600 Score: 209
Period size: 47 Copynumber: 3.7 Consensus size: 45
1662429 TTTTTTATAA
1662439 AAAAACAGTTTTTG-AATATATATATATATATATATAATATAGTTTTT
1 AAAAACA--TTTTGAAATATATATATATATATATAT-ATATAGTTTTT
*
1662486 AAAAATATTTTGAATATATATATATATATATATATATATAGTTTTT
1 AAAAACATTTTGAA-ATATATATATATATATATATATATAGTTTTT
1662532 AAAAACATTTTG-AA-A-A-A-ATATATATA-ATATATAGTTTTT
1 AAAAACATTTTGAAATATATATATATATATATATATATAGTTTTT
1662571 -AAAACATTTTGAAA-ATATATATA-ATATATA
1 AAAAACATTTTGAAATATATATATATATATATA
1662601 GTTTTGAAAA
Statistics
Matches: 106, Mismatches: 2, Indels: 19
0.83 0.02 0.15
Matches are distributed among these distances:
38 11 0.10
39 16 0.15
40 10 0.09
41 7 0.07
42 5 0.05
43 1 0.01
44 1 0.01
45 6 0.06
46 23 0.22
47 26 0.25
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (45 bp):
AAAAACATTTTGAAATATATATATATATATATATATATAGTTTTT
Found at i:1662515 original size:36 final size:38
Alignment explanation
Indices: 1662462--1662666 Score: 187
Period size: 36 Copynumber: 5.4 Consensus size: 38
1662452 GAATATATAT
*
1662462 ATATATATATATAATATAGTTTTTAAAAATATTTTGAATATATATA
1 ATATATATA-AT-ATATAGTTTTTAAAAACATTTTG---A-A-A-A
1662508 TATATATATATATATATAGTTTTTAAAAACATTTTGAAAAA
1 -ATATATATA-ATATATAGTTTTTAAAAACATTTTG-AAAA
1662549 ATATATATAATATATAGTTTTT-AAAACATTTTG-AAA
1 ATATATATAATATATAGTTTTTAAAAACATTTTGAAAA
*
1662585 ATATATATAATATATAG-TTTTGAAAACA-TTT-AAAA
1 ATATATATAATATATAGTTTTTAAAAACATTTTGAAAA
* * *
1662620 A-ATA-AT-ATATA-A-TTTTTGAAAATATTTTAAAAA
1 ATATATATAATATATAGTTTTTAAAAACATTTTGAAAA
*
1662653 ATGTATATAATATA
1 ATATATATAATATA
1662667 ATTTTGAAGA
Statistics
Matches: 146, Mismatches: 4, Indels: 27
0.82 0.02 0.15
Matches are distributed among these distances:
31 11 0.08
32 8 0.05
33 7 0.05
34 5 0.03
35 13 0.09
36 31 0.21
38 11 0.08
39 13 0.09
40 9 0.06
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 22 0.15
47 12 0.08
ACGTcount: A:0.50, C:0.01, G:0.05, T:0.44
Consensus pattern (38 bp):
ATATATATAATATATAGTTTTTAAAAACATTTTGAAAA
Found at i:1662788 original size:6 final size:6
Alignment explanation
Indices: 1662777--1662806 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1662767 ATGATTTTTT
*
1662777 ATATTA ATATTA ATATTA ATATTA TTATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA
1662807 TTTATTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
ATATTA
Found at i:1662813 original size:7 final size:7
Alignment explanation
Indices: 1662796--1662854 Score: 66
Period size: 7 Copynumber: 8.1 Consensus size: 7
1662786 TTAATATTAA
1662796 TATTA-T
1 TATTATT
1662802 TATTATT
1 TATTATT
1662809 TATTATT
1 TATTATT
1662816 TATTATT
1 TATTATT
1662823 TATTTTATT
1 TA--TTATT
*
1662832 TGTTATT
1 TATTATT
*
1662839 TCTTATT
1 TATTATT
1662846 TATTTATT
1 TA-TTATT
1662854 T
1 T
1662855 TTCCTCCTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
6 5 0.11
7 29 0.63
8 6 0.13
9 6 0.13
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (7 bp):
TATTATT
Found at i:1662822 original size:23 final size:22
Alignment explanation
Indices: 1662796--1662854 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
1662786 TTAATATTAA
1662796 TATTATTATTATTTATTATTTAT
1 TATTATT-TTATTTATTATTTAT
* *
1662819 TATTTATTTTATTTGTTATTTCT
1 TA-TTATTTTATTTATTATTTAT
1662842 TATT-TATTTATTT
1 TATTAT-TTTATTT
1662855 TTCCTCCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 1 0.03
22 9 0.28
23 17 0.53
24 5 0.16
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (22 bp):
TATTATTTTATTTATTATTTAT
Found at i:1663662 original size:14 final size:14
Alignment explanation
Indices: 1663643--1663707 Score: 114
Period size: 14 Copynumber: 4.6 Consensus size: 14
1663633 GAACCGGTCT
1663643 GACCCGACCCGACC
1 GACCCGACCCGACC
1663657 GACCCGACCCGACCC
1 GACCCGACCCGA-CC
1663672 GA-CCGACCCGACC
1 GACCCGACCCGACC
1663685 GACCCGACCCGACC
1 GACCCGACCCGACC
1663699 GACCCGACC
1 GACCCGACC
1663708 GTTAACCCGA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
13 4 0.08
14 41 0.84
15 4 0.08
ACGTcount: A:0.22, C:0.57, G:0.22, T:0.00
Consensus pattern (14 bp):
GACCCGACCCGACC
Found at i:1663708 original size:9 final size:10
Alignment explanation
Indices: 1663643--1663707 Score: 102
Period size: 9 Copynumber: 6.9 Consensus size: 10
1663633 GAACCGGTCT
1663643 GACCCGACCC
1 GACCCGACCC
1663653 GA-CCGACCC
1 GACCCGACCC
1663662 GACCCGACCC
1 GACCCGACCC
1663672 GA-CCGACCC
1 GACCCGACCC
1663681 GA-CCGACCC
1 GACCCGACCC
1663690 GACCCGA-CC
1 GACCCGACCC
1663699 GACCCGACC
1 GACCCGACC
1663708 GTTAACCCGA
Statistics
Matches: 52, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
9 36 0.69
10 16 0.31
ACGTcount: A:0.22, C:0.57, G:0.22, T:0.00
Consensus pattern (10 bp):
GACCCGACCC
Found at i:1663724 original size:5 final size:5
Alignment explanation
Indices: 1663643--1663707 Score: 102
Period size: 5 Copynumber: 13.8 Consensus size: 5
1663633 GAACCGGTCT
1663643 GACCC GACCC GA-CC GACCC GACCC GACCC GA-CC GACCC GA-CC GACCC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC
1663690 GACCC GA-CC GACCC GACC
1 GACCC GACCC GACCC GACC
1663708 GTTAACCCGA
Statistics
Matches: 56, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
4 16 0.29
5 40 0.71
ACGTcount: A:0.22, C:0.57, G:0.22, T:0.00
Consensus pattern (5 bp):
GACCC
Found at i:1670850 original size:10 final size:10
Alignment explanation
Indices: 1670820--1670859 Score: 55
Period size: 9 Copynumber: 4.0 Consensus size: 10
1670810 GGAAAACCAG
1670820 TTTGACCGGT
1 TTTGACCGGT
*
1670830 TTTAAACCGGT
1 TTT-GACCGGT
1670841 TTTGACCGG-
1 TTTGACCGGT
1670850 TTTGACCGGT
1 TTTGACCGGT
1670860 CTGAACCGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 9 0.35
10 8 0.31
11 9 0.35
ACGTcount: A:0.15, C:0.20, G:0.28, T:0.38
Consensus pattern (10 bp):
TTTGACCGGT
Found at i:1670855 original size:9 final size:9
Alignment explanation
Indices: 1670819--1670876 Score: 53
Period size: 9 Copynumber: 6.0 Consensus size: 9
1670809 TGGAAAACCA
1670819 GTTTGACCG
1 GTTTGACCG
*
1670828 GTTTTAAACCG
1 G-TTT-GACCG
1670839 GTTTTGACCG
1 G-TTTGACCG
1670849 GTTTGACCG
1 GTTTGACCG
*
1670858 GTCTGAACCG
1 GTTTG-ACCG
*
1670868 GTCTGACCG
1 GTTTGACCG
1670877 ACCCGACTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
9 17 0.40
10 17 0.40
11 9 0.21
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (9 bp):
GTTTGACCG
Found at i:1670888 original size:9 final size:9
Alignment explanation
Indices: 1670872--1670902 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
1670862 GAACCGGTCT
1670872 GACCGACCC
1 GACCGACCC
*
1670881 GACTGACCC
1 GACCGACCC
1670890 GACCGACCC
1 GACCGACCC
1670899 GACC
1 GACC
1670903 CGACTGTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.23, C:0.52, G:0.23, T:0.03
Consensus pattern (9 bp):
GACCGACCC
Found at i:1670916 original size:17 final size:17
Alignment explanation
Indices: 1670894--1670931 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
1670884 TGACCCGACC
*
1670894 GACCCGACCCGACTGTT
1 GACCCGACCCGACCGTT
1670911 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
1670928 GACC
1 GACC
1670932 GTTGACCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.13
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:1670933 original size:7 final size:7
Alignment explanation
Indices: 1670921--1670958 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
1670911 GACCCGACCC
1670921 GACCGTT
1 GACCGTT
1670928 GACCGTT
1 GACCGTT
1670935 GACCGTT
1 GACCGTT
1670942 GACCG-T
1 GACCGTT
1670948 GACCGTT
1 GACCGTT
1670955 GACC
1 GACC
1670959 TCCTTTGACC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.16, C:0.32, G:0.29, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:1670940 original size:14 final size:13
Alignment explanation
Indices: 1670921--1670958 Score: 67
Period size: 13 Copynumber: 2.8 Consensus size: 13
1670911 GACCCGACCC
1670921 GACCGTTGACCGTT
1 GACCGTTGACCG-T
1670935 GACCGTTGACCGT
1 GACCGTTGACCGT
1670948 GACCGTTGACC
1 GACCGTTGACC
1670959 TCCTTTGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.16, C:0.32, G:0.29, T:0.24
Consensus pattern (13 bp):
GACCGTTGACCGT
Found at i:1673323 original size:6 final size:6
Alignment explanation
Indices: 1673274--1673306 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
1673264 ACCCTCTAAG
1673274 TTTTTA -TTTTA TTTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TTT
1673307 CATATTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.20
6 15 0.60
7 5 0.20
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:1673399 original size:12 final size:10
Alignment explanation
Indices: 1673373--1673447 Score: 60
Period size: 10 Copynumber: 6.8 Consensus size: 10
1673363 TTGATTTATC
1673373 TATTTTTTTT
1 TATTTTTTTT
1673383 TATTTTTTCTT
1 TATTTTTT-TT
1673394 TGATTTAGTTTTT
1 T-ATTT--TTTTT
*
1673407 AATTTATTTTT
1 TATTT-TTTTT
1673418 TATTTTTATTTT
1 TA-TTTT-TTTT
* *
1673430 TAATTTATTT
1 TATTTTTTTT
1673440 TATTTTTT
1 TATTTTTT
1673448 CCTTTGATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
10 17 0.33
11 13 0.25
12 17 0.33
13 2 0.04
14 3 0.06
ACGTcount: A:0.17, C:0.01, G:0.03, T:0.79
Consensus pattern (10 bp):
TATTTTTTTT
Found at i:1673422 original size:11 final size:11
Alignment explanation
Indices: 1673373--1673440 Score: 59
Period size: 11 Copynumber: 5.9 Consensus size: 11
1673363 TTGATTTATC
1673373 TATTT-TTTTT
1 TATTTATTTTT
1673383 TATTT-TTTCTT
1 TATTTATTT-TT
1673394 TGATTTAGTTTTT
1 T-ATTTA-TTTTT
*
1673407 AATTTATTTTT
1 TATTTATTTTT
1673418 TATTTTTATTTTT
1 TA--TTTATTTTT
*
1673431 AATTTATTTT
1 TATTTATTTT
1673441 ATTTTTTCCT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
10 8 0.16
11 17 0.35
12 9 0.18
13 12 0.24
14 3 0.06
ACGTcount: A:0.18, C:0.01, G:0.03, T:0.78
Consensus pattern (11 bp):
TATTTATTTTT
Found at i:1673457 original size:29 final size:30
Alignment explanation
Indices: 1673338--1673475 Score: 108
Period size: 29 Copynumber: 4.6 Consensus size: 30
1673328 CTTTTAAAAT
* *
1673338 TTAACTTTGTTTTAATTTTTTCCCGTTGATTTA
1 TTAA-TTTATTTT-ATTTTTT-CCTTTGATTTA
* *
1673371 TCTATTTTTTTTTATTTTTT-CTTTGATTTA
1 T-TAATTTATTTTATTTTTTCCTTTGATTTA
* ** *
1673401 GTT--TTTAATTTATTTTTTATTTTTATTT-
1 -TTAATTTATTTTATTTTTTCCTTTGATTTA
1673429 TTAATTTATTTTATTTTTTCCTTTGATTTA
1 TTAATTTATTTTATTTTTTCCTTTGATTTA
1673459 TT-A-TTATTATTATTTTT
1 TTAATTTATT-TTATTTTT
1673476 ATGTTTTTCT
Statistics
Matches: 87, Mismatches: 11, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
27 2 0.02
28 18 0.21
29 37 0.43
30 12 0.14
31 1 0.01
32 7 0.08
33 8 0.09
34 2 0.02
ACGTcount: A:0.18, C:0.06, G:0.04, T:0.72
Consensus pattern (30 bp):
TTAATTTATTTTATTTTTTCCTTTGATTTA
Found at i:1673477 original size:40 final size:39
Alignment explanation
Indices: 1673416--1673501 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 39
1673406 TAATTTATTT
* * * *
1673416 TTTATTTTTATTTTTAATTTAT-TTTATTTTTTCCTTTGA
1 TTTATTATTATTATTAATTTATGTTT-TTCTTCCCTTTGA
*
1673455 TTTATTATTATTATTATTTTTATGTTTTTCTTCCCTTTGA
1 TTTATTATTATTATTA-ATTTATGTTTTTCTTCCCTTTGA
1673495 TTTATTA
1 TTTATTA
1673502 AATATTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
39 14 0.35
40 23 0.57
41 3 0.08
ACGTcount: A:0.19, C:0.07, G:0.03, T:0.71
Consensus pattern (39 bp):
TTTATTATTATTATTAATTTATGTTTTTCTTCCCTTTGA
Found at i:1676172 original size:25 final size:25
Alignment explanation
Indices: 1676138--1676191 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
1676128 CGTAACGTCT
1676138 CAATGCACATAGTACACAATGTACG
1 CAATGCACATAGTACACAATGTACG
1676163 CAATGCACATAGTACACAATGTACG
1 CAATGCACATAGTACACAATGTACG
1676188 CAAT
1 CAAT
1676192 ATCATAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (25 bp):
CAATGCACATAGTACACAATGTACG
Found at i:1676912 original size:40 final size:40
Alignment explanation
Indices: 1676857--1676939 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
1676847 TCGGTTTCCC
1676857 ATTGTCGACTATCCCTCTTATCATCGTTTGAATCTCCTTG
1 ATTGTCGACTATCCCTCTTATCATCGTTTGAATCTCCTTG
1676897 ATTGTCGACTATCCCTCTTATCATCGTTTGAATCTCCTTG
1 ATTGTCGACTATCCCTCTTATCATCGTTTGAATCTCCTTG
1676937 ATT
1 ATT
1676940 CTATGAATCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.18, C:0.27, G:0.12, T:0.43
Consensus pattern (40 bp):
ATTGTCGACTATCCCTCTTATCATCGTTTGAATCTCCTTG
Found at i:1677150 original size:23 final size:22
Alignment explanation
Indices: 1677115--1677162 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 22
1677105 CCATTTTAGC
1677115 AGACTGGAGAAGGGGAGGGGGAG
1 AGACTGGAGAAGGGGAGGGGG-G
1677138 AGACTGG-GCAAGGGGAGGGGGG
1 AGACTGGAG-AAGGGGAGGGGGG
1677160 AGA
1 AGA
1677163 AAAGGGGGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.29, C:0.06, G:0.60, T:0.04
Consensus pattern (22 bp):
AGACTGGAGAAGGGGAGGGGGG
Found at i:1679374 original size:51 final size:51
Alignment explanation
Indices: 1679268--1679374 Score: 135
Period size: 51 Copynumber: 2.1 Consensus size: 51
1679258 CCTTTGCAGG
* ** * *
1679268 AAGGCGAGGCCCATGCACTGCGCCTTACGCTGATGTGGCACCATGTGTGGT
1 AAGGCGAGGCCCATGCACCGCGCCTTACGCTGACATGGCAACATGTGTGGC
* *
1679319 AAGGCGTGGCCCATGCACCGCGCCTTATGCTGACATGGCAACATGCTG-GGC
1 AAGGCGAGGCCCATGCACCGCGCCTTACGCTGACATGGCAACATG-TGTGGC
1679370 AAGGC
1 AAGGC
1679375 ACGGTGCATG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 46 0.96
52 2 0.04
ACGTcount: A:0.20, C:0.29, G:0.33, T:0.19
Consensus pattern (51 bp):
AAGGCGAGGCCCATGCACCGCGCCTTACGCTGACATGGCAACATGTGTGGC
Found at i:1679585 original size:10 final size:10
Alignment explanation
Indices: 1679570--1679612 Score: 68
Period size: 10 Copynumber: 4.3 Consensus size: 10
1679560 TTCATCACAC
1679570 CAAATCCTCT
1 CAAATCCTCT
1679580 CAAATCCTCT
1 CAAATCCTCT
* *
1679590 CAACTTCTCT
1 CAAATCCTCT
1679600 CAAATCCTCT
1 CAAATCCTCT
1679610 CAA
1 CAA
1679613 CTTAAGGTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.30, C:0.40, G:0.00, T:0.30
Consensus pattern (10 bp):
CAAATCCTCT
Found at i:1679601 original size:20 final size:20
Alignment explanation
Indices: 1679576--1679615 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1679566 ACACCAAATC
1679576 CTCTCAAATCCTCTCAACTT
1 CTCTCAAATCCTCTCAACTT
1679596 CTCTCAAATCCTCTCAACTT
1 CTCTCAAATCCTCTCAACTT
1679616 AAGGTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.40, G:0.00, T:0.35
Consensus pattern (20 bp):
CTCTCAAATCCTCTCAACTT
Found at i:1679691 original size:16 final size:17
Alignment explanation
Indices: 1679650--1679691 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
1679640 CTTTATTAGT
*
1679650 ATTTTATTTAATTATTTA
1 ATTTT-TTTAATTAGTTA
*
1679668 ATTATTTTAA-TAGTTA
1 ATTTTTTTAATTAGTTA
1679684 ATTTTTTT
1 ATTTTTTT
1679692 TGCAGTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 12 0.57
17 5 0.24
18 4 0.19
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
ATTTTTTTAATTAGTTA
Found at i:1687892 original size:15 final size:15
Alignment explanation
Indices: 1687861--1687894 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1687851 CTCAGATTTA
* *
1687861 TCTTCTTCCTTCGGT
1 TCTTCTTCCTGCAGT
1687876 TCTTCTTCCTGCAGT
1 TCTTCTTCCTGCAGT
1687891 TCTT
1 TCTT
1687895 TATCAGCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.03, C:0.32, G:0.12, T:0.53
Consensus pattern (15 bp):
TCTTCTTCCTGCAGT
Found at i:1693275 original size:91 final size:91
Alignment explanation
Indices: 1693113--1693511 Score: 568
Period size: 91 Copynumber: 4.4 Consensus size: 91
1693103 CCAAAGTTGA
* * * **
1693113 ACGAGTTATTCTTATTATGAACTC-CCTGCTGGAAATGTTGATGCAAGGTTGAACAAGTTCTTCT
1 ACGAGTTCTTCTCATTATGAACTCTCC-GCTGGAAATCTTGAACCAAGGTTGAACAAGTTCTTCT
*
1693177 CATTATGAACTTCTTCTCCCTCGTTGG
65 CATTATGAACTTCTTCTCCCTCATTGG
* * *
1693204 ATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACCAATGTTGAACAAGTTCTTCTC
1 ACGAGTTCTTCTCATTATGAACTCTCCGCTGGAAATCTTGAACCAAGGTTGAACAAGTTCTTCTC
* * *
1693269 ACTATGAACTTCTTCGCCCTTATTGG
66 ATTATGAACTTCTTCTCCCTCATTGG
* * * * *
1693295 ACGAGTTCTTCTCATTATGAACTCTTCGTTGGAAATGC-TGAGCTAAGGTTGAGCAAGTTCTTCT
1 ACGAGTTCTTCTCATTATGAACTCTCCGCTGGAAAT-CTTGAACCAAGGTTGAACAAGTTCTTCT
1693359 CATTATGAACTTCTTCTCCCTCATTGG
65 CATTATGAACTTCTTCTCCCTCATTGG
* * *
1693386 ATGAGTTCTTCTCATTATGAACTCTCCGCTGGAAAATCTTGAACCAAGGTTAAACAAGTTCTTTT
1 ACGAGTTCTTCTCATTATGAACTCTCCGCTGG-AAATCTTGAACCAAGGTTGAACAAGTTCTTCT
*
1693451 CATTATGAACTTCTTCTCCCTCGTTGG
65 CATTATGAACTTCTTCTCCCTCATTGG
1693478 ACGAGTTCTTCTCATTATGAACTCTCCGCTGGAA
1 ACGAGTTCTTCTCATTATGAACTCTCCGCTGGAA
1693512 TGTTGATTGG
Statistics
Matches: 271, Mismatches: 33, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
91 186 0.69
92 85 0.31
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.37
Consensus pattern (91 bp):
ACGAGTTCTTCTCATTATGAACTCTCCGCTGGAAATCTTGAACCAAGGTTGAACAAGTTCTTCTC
ATTATGAACTTCTTCTCCCTCATTGG
Found at i:1694019 original size:66 final size:67
Alignment explanation
Indices: 1693918--1694102 Score: 207
Period size: 66 Copynumber: 2.8 Consensus size: 67
1693908 CAAAGTTTTC
* * *
1693918 GTGTTTCAAGAGAAACTGTCTCCAGGGAAACAAAATTCAG-TTCAAAGGAAACGAT-CTCAAAGA
1 GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTC-GTTTCAAAGGAAAC-ATACTCAAAGA
1693981 -TCG
64 TTCG
* * * *
1693984 GTGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAATTTGTTTC-AAGAGAAACATATTCAAAGAT
1 GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAAG-GAAACATACTCAAAGAT
**
1694048 TTT
65 TCG
* * *
1694051 GTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTCGTTTCAAGGGAAAC
1 GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAAGGAAAC
1694103 TTTCTCAAGT
Statistics
Matches: 99, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
65 6 0.06
66 47 0.47
67 44 0.44
68 2 0.02
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (67 bp):
GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAAGGAAACATACTCAAAGATT
CG
Found at i:1694076 original size:67 final size:67
Alignment explanation
Indices: 1693849--1694102 Score: 187
Period size: 67 Copynumber: 3.7 Consensus size: 67
1693839 GACGAAGTTG
* * * * * *
1693849 GTTTTAAGAAAAACCATCTCAAGTGAAATAAAATTTCTTGTTTCAATG-GAAAACACAATCAAAG
1 GTTTCAAGAGAAACTATCTCAAGAGAAACAAAA--T-TTGTTTCAA-GAG-AAACATAATCAAAG
1693913 -TTTTCGT
61 ATTTT-GT
* * * * *
1693920 GTTTCAAGAGAAACTGTCTCCAGGGAAACAAAATTCAG-TTCAA-AGGAAACGAT-CTCAAAGA-
1 GTTTCAAGAGAAACTATCTCAAGAGAAACAAAATT-TGTTTCAAGA-GAAAC-ATAATCAAAGAT
**
1693981 TCGGT
63 TTTGT
* * * * *
1693986 GTTTCAAGGGAAACTGTCTCAAGAGAGATAAAATTTGTTTCAAGAGAAACATATTCAAAGATTTT
1 GTTTCAAGAGAAACTATCTCAAGAGAAACAAAATTTGTTTCAAGAGAAACATAATCAAAGATTTT
1694051 GT
66 GT
* * * *
1694053 GTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTCGTTTCAAGGGAAAC
1 GTTTCAAGAGAAACTATCTCAAGAGAAACAAAATTTGTTTCAAGAGAAAC
1694103 TTTCTCAAGT
Statistics
Matches: 147, Mismatches: 27, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
65 3 0.02
66 49 0.33
67 59 0.40
68 8 0.05
69 2 0.01
71 26 0.18
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (67 bp):
GTTTCAAGAGAAACTATCTCAAGAGAAACAAAATTTGTTTCAAGAGAAACATAATCAAAGATTTT
GT
Found at i:1694109 original size:103 final size:106
Alignment explanation
Indices: 1693985--1694457 Score: 366
Period size: 117 Copynumber: 4.3 Consensus size: 106
1693975 CAAAGATCGG
* *
1693985 TGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAATTTGTTTCAAGAGAAACATAT-TCAAAGATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGATAAAATTTGTTTCAAGGGAAACATATCTCAAAGA-T
* *
1694049 TTGTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-C-TC
65 TGGTGTTTCAAGAGAAACTACCTCAAGAGAGACAAAATCTTC
* * * *
1694089 -GTTTCAAGGGAAACTTTCTCAAGTGAGACAAAATTTGTTTAAAGGGAAACA-ATCTCAAAGATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGATAAAATTTGTTTCAAGGGAAACATATCTCAAAGATT
* *
1694152 GGTGTTTCAAGGGAAACTGCCTCAAGAGAGACAAAATCTTC
66 GGTGTTTCAAGAGAAACTACCTCAAGAGAGACAAAATCTTC
* * * *
1694193 TGTTTCGAGGCAAACTATCTAAAGCGAGATAAAATCTTCTGTTTCAAGGGAAAC-TATCTCAAGC
1 TGTTTCAAGGGAAACTATCTCAAGAGAGATAAAA--TT-TGTTTCAAGGGAAACATATCTCAA--
** * * ** * *
1694257 GAGATAAAATCTTTTGTTTCGAGAGAAACTATCTCAACCGAGATAAAATCTTG
61 -AG-----AT-TGGTGTTTCAAGAGAAACTACCTCAAGAGAGACAAAATCTTC
* ** *
1694310 TGTTTCGAGGGAAACTATCTCAACCGAGATAAAATCTTCTGTTTCGAGGGAAAC-TATCTCAAGC
1 TGTTTCAAGGGAAACTATCTCAAGAGAGATAAAA--TT-TGTTTCAAGGGAAACATATCTCAA--
** * * * *
1694374 GAGACAAAATCTTTTGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTT
61 -AG-----AT-TGGTGTTTCAAGAGAAACTACCTCAAGAGAGACAAAATCTTC
* *
1694427 TGTTTCAAAGGAAACTATCTCAAGCGAGATA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGATA
1694458 CAATCTTCTT
Statistics
Matches: 313, Mismatches: 39, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
102 36 0.12
103 54 0.17
104 2 0.01
105 27 0.09
107 2 0.01
108 21 0.07
111 2 0.01
116 2 0.01
117 167 0.53
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (106 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGATAAAATTTGTTTCAAGGGAAACATATCTCAAAGATT
GGTGTTTCAAGAGAAACTACCTCAAGAGAGACAAAATCTTC
Found at i:1694208 original size:39 final size:39
Alignment explanation
Indices: 1694154--1694466 Score: 437
Period size: 39 Copynumber: 8.0 Consensus size: 39
1694144 CAAAGATTGG
* ** * *
1694154 TGTTTCAAGGGAAACTGCCTCAAGAGAGACAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* *
1694193 TGTTTCGAGGCAAACTATCTAAAGCGAGATAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* *
1694232 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTT
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * *
1694271 TGTTTCGAGAGAAACTATCTCAACCGAGATAAAATCTTG
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
*
1694310 TGTTTCGAGGGAAACTATCTCAACCGAGATAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* *
1694349 TGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATCTTT
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * *
1694388 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTT
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * *
1694427 TGTTTCAAAGGAAACTATCTCAAGCGAGATACAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1694466 T
1 T
1694467 TTGAAAACAA
Statistics
Matches: 249, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 249 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (39 bp):
TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
Found at i:1694619 original size:75 final size:76
Alignment explanation
Indices: 1694470--1694630 Score: 229
Period size: 75 Copynumber: 2.1 Consensus size: 76
1694460 ATCTTCTTTG
*
1694470 AAAACAATCTTGAGTGAAATGAAATGTATTCATTTGAGTAAAAACTGTCTCAAGAGAGACAAATC
1 AAAACAATCTTGAGTGAAATGAAATGTATTCATTTGAGTAAAAACAGTCTCAAGAGAGACAAATC
*
1694535 TTGTTTTAAGA
66 TCGTTTTAAGA
* * * *
1694546 AAAACAATCTTGAGTTAAATGAAATGTCTTC-TTTCGAGT-AAAACAGTCTCAAGTGAGATAAAG
1 AAAACAATCTTGAGTGAAATGAAATGTATTCATTT-GAGTAAAAACAGTCTCAAGAGAGACAAA-
1694609 TC-CGTTTTAAGA
64 TCTCGTTTTAAGA
1694621 AAAACAATCT
1 AAAACAATCT
1694631 CCAATGAAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
75 42 0.55
76 35 0.45
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (76 bp):
AAAACAATCTTGAGTGAAATGAAATGTATTCATTTGAGTAAAAACAGTCTCAAGAGAGACAAATC
TCGTTTTAAGA
Found at i:1704434 original size:152 final size:152
Alignment explanation
Indices: 1704183--1704492 Score: 613
Period size: 152 Copynumber: 2.0 Consensus size: 152
1704173 CTGAGGCGTT
1704183 TGTT-TTTTTTTTGAAAAAGTTGATTTTTATAAAGAAGGGAGGCAAAGGGTTTTCGAAAAGCAAA
1 TGTTCTTTTTTTTGAAAAAGTTGATTTTTATAAAGAAGGGAGGCAAAGGGTTTTCGAAAAGCAAA
1704247 AAAAAAAAAAAAAATTGCCACCGATAAACGGCGGCGGCGAGGCGGCATGTGACCGTGATCTGGGT
66 AAAAAAAAAAAAAATTGCCACCGATAAACGGCGGCGGCGAGGCGGCATGTGACCGTGATCTGGGT
1704312 TTTTATGAACCAGGCGGCGGCG
131 TTTTATGAACCAGGCGGCGGCG
1704334 TGTTCTTTTTTTTGAAAAAGTTGATTTTTATAAAGAAGGGAGGCAAAGGGTTTTCGAAAAGCAAA
1 TGTTCTTTTTTTTGAAAAAGTTGATTTTTATAAAGAAGGGAGGCAAAGGGTTTTCGAAAAGCAAA
1704399 AAAAAAAAAAAAAATTGCCACCGATAAACGGCGGCGGCGAGGCGGCATGTGACCGTGATCTGGGT
66 AAAAAAAAAAAAAATTGCCACCGATAAACGGCGGCGGCGAGGCGGCATGTGACCGTGATCTGGGT
1704464 TTTTATGAACCAGGCGGCGGCG
131 TTTTATGAACCAGGCGGCGGCG
1704486 TGTTCTT
1 TGTTCTT
1704493 CAGTTCATAC
Statistics
Matches: 158, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
151 4 0.03
152 154 0.97
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.25
Consensus pattern (152 bp):
TGTTCTTTTTTTTGAAAAAGTTGATTTTTATAAAGAAGGGAGGCAAAGGGTTTTCGAAAAGCAAA
AAAAAAAAAAAAAATTGCCACCGATAAACGGCGGCGGCGAGGCGGCATGTGACCGTGATCTGGGT
TTTTATGAACCAGGCGGCGGCG
Found at i:1705136 original size:19 final size:18
Alignment explanation
Indices: 1705112--1705147 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1705102 ATTTATCCTC
1705112 ATTATTTTATTTTCTTTAT
1 ATTA-TTTATTTTCTTTAT
*
1705131 ATTATTTGTTTTCTTTA
1 ATTATTTATTTTCTTTA
1705148 CTCTAAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (18 bp):
ATTATTTATTTTCTTTAT
Found at i:1706082 original size:16 final size:16
Alignment explanation
Indices: 1706060--1706096 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
1706050 TTCTTGCCAT
1706060 TTATTTTTA-TTATTA
1 TTATTTTTATTTATTA
*
1706075 TTATTTTTATTTATTT
1 TTATTTTTATTTATTA
1706091 TTATTT
1 TTATTT
1706097 AACTGTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTATTTTTATTTATTA
Found at i:1706090 original size:10 final size:10
Alignment explanation
Indices: 1706065--1706097 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
1706055 GCCATTTATT
*
1706065 TTTATTATTA
1 TTTATTTTTA
1706075 -TTATTTTTA
1 TTTATTTTTA
1706084 TTTATTTTTA
1 TTTATTTTTA
1706094 TTTA
1 TTTA
1706098 ACTGTTTACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:1716531 original size:105 final size:105
Alignment explanation
Indices: 1716382--1717321 Score: 1379
Period size: 105 Copynumber: 9.0 Consensus size: 105
1716372 GCGCCACCCA
* * * * * *
1716382 AGACAACACAAGTTCAACTTCACGATGAAGGGACGGCTGGTTGTCAACAACAATTTTCCAATTTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTC
* *
1716447 GGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
1716487 AGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAAATTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTC
* *
1716552 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCT
66 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1716592 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTC
* *
1716657 AGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACTCA
66 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * *
1716697 AGACAATGCAAGTTCAACTTCACAACGAAGGGACCACTGGTTGTCAACAACAACTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTC
*
1716762 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * *
1716802 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCTAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCCAATTT
* * *
1716867 CAGAGCCAATTTCAACTTCACAGCGAAGTATATTGGTCTCT
65 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * *
1716908 AGACAACGCAAGTTCAACTTCACAACGAAGGGACCGTTGGTTGTCAACAACAACTTCCCAATCTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTC
* *
1716973 AGAGCCAA--T---C-TCACAGCGAGGGATATTGGACTCT
66 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
1717007 AGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGCTGTCAACAACAACTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTC
* *
1717072 AGAGACAATTTCAACTTCACAGCGAAAGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * *
1717112 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAACAATTTCCCAGTTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTC
*
1717177 AGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * * * *
1717217 AGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATATATAATTTCCCAGTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA-ACAACTTCCCAATTT
* * * *
1717282 CAAAACCAATTTCAACTTCACGGCGGAGGATATTGGACTC
65 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
1717322 AGAACAATAC
Statistics
Matches: 757, Mismatches: 70, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
99 88 0.12
100 1 0.00
101 1 0.00
103 1 0.00
104 1 0.00
105 522 0.69
106 143 0.19
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTC
AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
Found at i:1717206 original size:415 final size:417
Alignment explanation
Indices: 1716382--1717321 Score: 1438
Period size: 415 Copynumber: 2.2 Consensus size: 417
1716372 GCGCCACCCA
* * *
1716382 AGACAACACAAGTTCAACTTCACGATGAAGGGACGGCTGGTTGTCAA-CAACAATTTTCCAATTT
1 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA-TTTCCAATTT
** * * *
1716446 TGGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACG
65 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACA
*
1716511 ACGAAGGGACCGCTGGTTGTCAACAACAAATTCCCAATTTCAGAGCCAATTTCAACTTCACAACG
130 ACGAAGGGACCGCTGGTTGTCAACAACAAATTCCCAATCTCAGAGCCAA-TT--ACTTCACAACG
*
1716576 AAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
192 AAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGCTGTCAACA
* * * **
1716641 ACAACTTCCCAATTTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACTCAAGACAATGC
257 ACAACTTCCCAATTTCAGAGACAATTTCAACTTCACAGCGAAAGATATTGGACTCAAGACAACAC
1716706 AAGTTCAACTTCACAACGAAGGGACCACTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAAT
322 AAGTTCAACTTCACAACGAAGGGACCACTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAAT
1716771 TTCAACTTCACAACGAAGGATATTGGACTCC
387 TTCAACTTCACAACGAAGGATATTGGACTCC
1716802 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCTAATTT
1 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCC-AATTT
* * *
1716867 CAGAGCCAATTTCAACTTCACAGCGAAGTATATTGGTCTCTAGACAACGCAAGTTCAACTTCACA
65 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACA
* * * *
1716932 ACGAAGGGACCGTTGGTTGTCAACAACAACTTCCCAATCTCAGAGCCAA-T-C-TCACAGCGAGG
130 ACGAAGGGACCGCTGGTTGTCAACAACAAATTCCCAATCTCAGAGCCAATTACTTCACAACGAAG
*
1716994 GATATTGGACTCTAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGCTGTCAACAACA
195 GATATTGGACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGCTGTCAACAACA
*
1717059 ACTTCCCAATTTCAGAGACAATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACACAAG
260 ACTTCCCAATTTCAGAGACAATTTCAACTTCACAGCGAAAGATATTGGACTCAAGACAACACAAG
* ** * *
1717124 TTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAACAATTTCCCAGTTTCAGAGCCAATTTC
325 TTCAACTTCACAACGAAGGGACCACTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTC
*
1717189 AACTTCACATCGAAGGATATTGGACTCC
390 AACTTCACAACGAAGGATATTGGACTCC
** * * * *
1717217 AGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATATATAATTTCCCAGTTC
1 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTT-CCAATTT
* * * *
1717282 CAAAACCAATTTCAACTTCACGGCGGAGGATATTGGACTC
65 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
1717322 AGAACAATAC
Statistics
Matches: 475, Mismatches: 42, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
415 308 0.65
416 3 0.01
419 1 0.00
420 50 0.11
421 113 0.24
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (417 bp):
AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCAATTTC
AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAA
CGAAGGGACCGCTGGTTGTCAACAACAAATTCCCAATCTCAGAGCCAATTACTTCACAACGAAGG
ATATTGGACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGCTGTCAACAACAA
CTTCCCAATTTCAGAGACAATTTCAACTTCACAGCGAAAGATATTGGACTCAAGACAACACAAGT
TCAACTTCACAACGAAGGGACCACTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTCA
ACTTCACAACGAAGGATATTGGACTCC
Found at i:1719121 original size:19 final size:18
Alignment explanation
Indices: 1719099--1719134 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1719089 ATTTATCCTC
1719099 ATTATTTTATTTTCTTTAT
1 ATTA-TTTATTTTCTTTAT
*
1719118 ATTATTTGTTTTCTTTA
1 ATTATTTATTTTCTTTA
1719135 CTCTAACACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (18 bp):
ATTATTTATTTTCTTTAT
Found at i:1721588 original size:14 final size:15
Alignment explanation
Indices: 1721565--1721597 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1721555 ATTTGACATT
*
1721565 AAAATTAAATTAA-A
1 AAAATAAAATTAATA
1721579 AAAATAAAATTAATA
1 AAAATAAAATTAATA
1721594 AAAA
1 AAAA
1721598 GATGATGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAATAAAATTAATA
Found at i:1721606 original size:3 final size:3
Alignment explanation
Indices: 1721598--1721624 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1721588 TTAATAAAAA
1721598 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1721625 AATAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:1721707 original size:31 final size:30
Alignment explanation
Indices: 1721662--1721719 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
1721652 AATATTCAAA
*
1721662 ATATATAATATATATATTTACTTAAAAATT
1 ATATATAATATATATATATACTTAAAAATT
*
1721692 ATATATATATATATATATATATTTAAAA
1 ATATATA-ATATATATATATACTTAAAA
1721720 TAACATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (30 bp):
ATATATAATATATATATATACTTAAAAATT
Found at i:1734136 original size:183 final size:182
Alignment explanation
Indices: 1733828--1734176 Score: 626
Period size: 183 Copynumber: 1.9 Consensus size: 182
1733818 ATTAAATCCG
1733828 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGACTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGACTTTATGA
** *
1733893 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTACATTCAAACCATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
1733958 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGACG-ACCCTTCAGTGATTTGTCCCTC
* *
1734011 TAAAGCTGAGCTATTCCACTAAGTCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGACTTTATGA
*
1734076 ATAGATTACATTCAAACCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTACATTCAAACCATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
1734141 TTGTCAGGCCAAAGACTTTGTGATGAGATGACCCTT
131 TTGTCAGGCCAAAGACTTTGTGATGAGACGACCCTT
1734177 TAGTTAAACC
Statistics
Matches: 159, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
182 6 0.04
183 153 0.96
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (182 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGACTTTATGA
ATAGATTACATTCAAACCATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGACGACCCTTCAGTGATTTGTCCCTC
Done.