Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007776.1 Hibiscus syriacus cultivar Beakdansim tig00110057_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: 2207776
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 11
Found at i:1516026 original size:64 final size:64
Alignment explanation
Indices: 1515918--1516138 Score: 257
Period size: 64 Copynumber: 3.5 Consensus size: 64
1515908 TAATGAAGGT
* * ** * * *
1515918 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGTATTCGATGTTGT-ATTATTACTGGA
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTT-TCATTATTAATGGA
*
1515982 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTTTCATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTTTCATTATTAATGGA
* * **
1516046 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTACATTCGATGTATTTATT-TTAAAAGA
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT-TTCATTATTAATGGA
* * * * *
1516110 GTTCATCGATGCACTTCCTGTGCATCGAT
1 ATGCATCGATGCACTACTTATGCATCGAT
1516139 ACACCTTCAA
Statistics
Matches: 137, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
63 1 0.01
64 131 0.96
65 5 0.04
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTTTCATTATTAATGGA
Found at i:1521605 original size:27 final size:28
Alignment explanation
Indices: 1521575--1521630 Score: 105
Period size: 27 Copynumber: 2.0 Consensus size: 28
1521565 ACCACATAAA
1521575 AAATATGTGTAATGAT-TTTCAAGTTTT
1 AAATATGTGTAATGATGTTTCAAGTTTT
1521602 AAATATGTGTAATGATGTTTCAAGTTTT
1 AAATATGTGTAATGATGTTTCAAGTTTT
1521630 A
1 A
1521631 TTTGATAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 16 0.57
28 12 0.43
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (28 bp):
AAATATGTGTAATGATGTTTCAAGTTTT
Found at i:1523055 original size:18 final size:19
Alignment explanation
Indices: 1523034--1523079 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
1523024 CTAAAATTGA
1523034 TATCGATA-CTAAGACCAG
1 TATCGATACCTAAGACCAG
*
1523052 TATCGATACCCTAAGGCCAG
1 TATCGATA-CCTAAGACCAG
1523072 TATCGATA
1 TATCGATA
1523080 TTGATAGGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 8 0.32
20 17 0.68
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
TATCGATACCTAAGACCAG
Found at i:1524451 original size:24 final size:24
Alignment explanation
Indices: 1524420--1524470 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
1524410 ACCAAGTTTA
1524420 TTAAGATGGAGAAAATATCCAATT
1 TTAAGATGGAGAAAATATCCAATT
1524444 TTAAGATGGAGAAAATATCCAATT
1 TTAAGATGGAGAAAATATCCAATT
1524468 TTA
1 TTA
1524471 CAATATATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (24 bp):
TTAAGATGGAGAAAATATCCAATT
Found at i:1525453 original size:19 final size:19
Alignment explanation
Indices: 1525431--1525472 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1525421 ATCATACTAT
1525431 AAAAACAAAATAAAAATAA
1 AAAAACAAAATAAAAATAA
** *
1525450 AAAAATGAGATAAAAATAA
1 AAAAACAAAATAAAAATAA
1525469 AAAA
1 AAAA
1525473 TATATCGACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (19 bp):
AAAAACAAAATAAAAATAA
Found at i:1525631 original size:22 final size:23
Alignment explanation
Indices: 1525581--1525634 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
1525571 TTGGAAAAAA
*
1525581 AATT-ATATATAAAATTTAATAT
1 AATTAATATATAAAAGTTAATAT
* *
1525603 AA-AAATATTTAAAAGTTAAT-T
1 AATTAATATATAAAAGTTAATAT
1525624 AATTAATATAT
1 AATTAATATAT
1525635 TTCGAAAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
AATTAATATATAAAAGTTAATAT
Found at i:1526452 original size:23 final size:23
Alignment explanation
Indices: 1526377--1526443 Score: 116
Period size: 23 Copynumber: 2.9 Consensus size: 23
1526367 AGAATAATTA
1526377 TATCTTTGTGACATGTTTTTCTC
1 TATCTTTGTGACATGTTTTTCTC
*
1526400 TATCTTTGTGGCATGTTTTTCTC
1 TATCTTTGTGACATGTTTTTCTC
*
1526423 TACCTTTGTGACATGTTTTTC
1 TATCTTTGTGACATGTTTTTC
1526444 ATTTTCTTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.12, C:0.18, G:0.15, T:0.55
Consensus pattern (23 bp):
TATCTTTGTGACATGTTTTTCTC
Found at i:1531433 original size:12 final size:13
Alignment explanation
Indices: 1531411--1531443 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1531401 ATTCCTTCAA
1531411 AATATGCCTTTAT
1 AATATGCCTTTAT
*
1531424 -ATATGTCTTTAT
1 AATATGCCTTTAT
1531436 AATATGCC
1 AATATGCC
1531444 ATGGTTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 2
0.81 0.10 0.10
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.45
Consensus pattern (13 bp):
AATATGCCTTTAT
Found at i:1534194 original size:23 final size:23
Alignment explanation
Indices: 1534168--1534236 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
1534158 CACCACAGCT
*
1534168 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
1534191 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
1534214 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
1534237 TATAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1546458 original size:42 final size:42
Alignment explanation
Indices: 1546410--1546515 Score: 158
Period size: 42 Copynumber: 2.5 Consensus size: 42
1546400 TCCAAGTTCG
** *
1546410 CGTTGCGATAGTCGAAGTTCGCGTTGTGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTACGATTTATTACAAATT
** *
1546452 TTTTGCGATAGTCCAAGTTCGCGTTACGATTTATTACAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTACGATTTATTACAAATT
1546494 CGTTGCGATAGTCGAAGTTCGC
1 CGTTGCGATAGTCGAAGTTCGC
1546516 TGCGATAGTC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (42 bp):
CGTTGCGATAGTCGAAGTTCGCGTTACGATTTATTACAAATT
Found at i:1546519 original size:19 final size:19
Alignment explanation
Indices: 1546492--1546534 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
1546482 TTATTACAAA
*
1546492 TTCGTTGCGATAGTCGAAG
1 TTCGCTGCGATAGTCGAAG
1546511 TTCGCTGCGATAGTCGAAG
1 TTCGCTGCGATAGTCGAAG
1546530 TTCGC
1 TTCGC
1546535 ATTGCGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (19 bp):
TTCGCTGCGATAGTCGAAG
Found at i:1547323 original size:5 final size:5
Alignment explanation
Indices: 1547309--1547347 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
1547299 CCGCCGCCGC
1547309 CGTC- CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT
1547348 TGGGTCGGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.12
5 30 0.88
ACGTcount: A:0.00, C:0.41, G:0.21, T:0.38
Consensus pattern (5 bp):
CGTCT
Found at i:1547360 original size:6 final size:6
Alignment explanation
Indices: 1547350--1547412 Score: 108
Period size: 6 Copynumber: 10.5 Consensus size: 6
1547340 TCTCGTCTTG
* *
1547350 GGTCGG GGTCGG GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1547398 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
1547413 AATACGTGTC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.00, C:0.16, G:0.54, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:1547567 original size:42 final size:42
Alignment explanation
Indices: 1547505--1547869 Score: 549
Period size: 42 Copynumber: 8.7 Consensus size: 42
1547495 TGCGATTTTG
*
1547505 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
1547547 GACTATCGCAACGAACTTGGAATAAATTGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1547589 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* * * *
1547631 GACTATCGCAACTAATTTGGAATAAATCGCAACACAAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
1547673 GACTATCGCAACGAACTTGGAATAAATCGCAACGAGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
1547715 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* * * *
1547757 GACTATCGTAACGCGAACTTGGACT--TTCGCAACGCGAACTTG
1 GACTATCGCAA--CGAACTTGGAATAAATCGCAACGCGAACTTC
* *
1547799 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
1547841 GACTATCGCAACGAATTTGG-A-AAATCGCA
1 GACTATCGCAACGAACTTGGAATAAATCGCA
1547870 TTGCGATAGT
Statistics
Matches: 298, Mismatches: 21, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
40 18 0.06
41 1 0.00
42 268 0.90
44 11 0.04
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:1547867 original size:19 final size:19
Alignment explanation
Indices: 1547803--1547869 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 19
1547793 AACTTGGACT
1547803 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGG-A-AA
* **
1547824 ATCGCAACGCGAACTTGGACT
1 ATCGCAA--CGAATTTGGAAA
1547845 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
1547864 ATCGCA
1 ATCGCA
1547870 TTGCGATAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 15 0.39
21 14 0.37
22 1 0.03
23 8 0.21
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:1547894 original size:21 final size:21
Alignment explanation
Indices: 1547865--1547917 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1547855 ATTTGGAAAA
1547865 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
* * *
1547886 TCGCTTTGCGATAGTTGATGT
1 TCGCATTGCGATAGTCGAAGT
*
1547907 TCGCGTTGCGA
1 TCGCATTGCGA
1547918 ATCTGGAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.17, C:0.19, G:0.30, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:1548313 original size:20 final size:20
Alignment explanation
Indices: 1548267--1548314 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
1548257 AATATAGTTG
1548267 TATCGATATTGCTATAACAA
1 TATCGATATTGCTATAACAA
* *
1548287 TACCGATATTGTTA-AATCAA
1 TATCGATATTGCTATAA-CAA
1548307 TATCGATA
1 TATCGATA
1548315 CATATATCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (20 bp):
TATCGATATTGCTATAACAA
Found at i:1548461 original size:50 final size:49
Alignment explanation
Indices: 1548404--1548560 Score: 124
Period size: 50 Copynumber: 3.1 Consensus size: 49
1548394 TGCTAAAATG
1548404 GTACCAATACCATATATGATATCGATACTGAACCCCAAAATAATGAAGTA
1 GTACCAATACCATATATGATATCGATACTGAA-CCCAAAATAATGAAGTA
* * * * * * *
1548454 GTACCAATACTGC-TA-AAGAAGTACCGATATTG--TCAAAACATAATGCTAAAATG
1 GTACCAATAC--CATATATG-A-TATCGATACTGAACCCAAA-ATAATG---AAGTA
*
1548507 GTACCGATACCATATATGATATCGATACTGAAACCCAAAATAATGAAGTA
1 GTACCAATACCATATATGATATCGATACTG-AACCCAAAATAATGAAGTA
1548557 GTAC
1 GTAC
1548561 ACTGTCAAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 26
0.66 0.12 0.22
Matches are distributed among these distances:
49 4 0.05
50 25 0.32
51 13 0.16
52 13 0.16
53 20 0.25
54 4 0.05
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.24
Consensus pattern (49 bp):
GTACCAATACCATATATGATATCGATACTGAACCCAAAATAATGAAGTA
Found at i:1548488 original size:103 final size:103
Alignment explanation
Indices: 1548318--1548560 Score: 353
Period size: 103 Copynumber: 2.3 Consensus size: 103
1548308 ATCGATACAT
* * * * * *
1548318 ATATCGATACTGAAACCCTAAAATAATAAAGTAGTATCGATACTACTGAGGCAATACCGATACTG
1 ATATCGATACTG-AACCCCAAAATAATGAAGTAGTACCAATACTACTAAAGCAATACCGATACTG
*
1548383 TCAAAACAGATTGCTAAAATGGTACCAATACCATATATG
65 TCAAAACAGAATGCTAAAATGGTACCAATACCATATATG
* *
1548422 ATATCGATACTGAACCCCAAAATAATGAAGTAGTACCAATACTGCTAAAG-AAGTACCGATATTG
1 ATATCGATACTGAACCCCAAAATAATGAAGTAGTACCAATACTACTAAAGCAA-TACCGATACTG
* *
1548486 TCAAAACATAATGCTAAAATGGTACCGATACCATATATG
65 TCAAAACAGAATGCTAAAATGGTACCAATACCATATATG
*
1548525 ATATCGATACTGAAACCCAAAATAATGAAGTAGTAC
1 ATATCGATACTGAACCCCAAAATAATGAAGTAGTAC
1548561 ACTGTCAAAA
Statistics
Matches: 126, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
102 2 0.02
103 112 0.89
104 12 0.10
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.24
Consensus pattern (103 bp):
ATATCGATACTGAACCCCAAAATAATGAAGTAGTACCAATACTACTAAAGCAATACCGATACTGT
CAAAACAGAATGCTAAAATGGTACCAATACCATATATG
Found at i:1548580 original size:79 final size:79
Alignment explanation
Indices: 1548484--1548639 Score: 287
Period size: 79 Copynumber: 2.0 Consensus size: 79
1548474 GTACCGATAT
1548484 TGTCAAAACATAATGCTAAAATGGTACCGATACCATATATGATATCGATACTGAAACCCAAAATA
1 TGTCAAAACATAATGCTAAAATGGTACCGATACCATATATGATATCGATACTGAAACCCAAAATA
1548549 ATGAAGTAGTACAC
66 ATGAAGTAGTACAC
*
1548563 TGTCAAAACA-AATTGCTAAAATGGTACCGATACCATATATGGTATCGATACTGAAACCCAAAAT
1 TGTCAAAACATAA-TGCTAAAATGGTACCGATACCATATATGATATCGATACTGAAACCCAAAAT
1548627 AATGAAGTAGTAC
65 AATGAAGTAGTAC
1548640 CGATACTGCT
Statistics
Matches: 75, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
78 2 0.03
79 73 0.97
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (79 bp):
TGTCAAAACATAATGCTAAAATGGTACCGATACCATATATGATATCGATACTGAAACCCAAAATA
ATGAAGTAGTACAC
Found at i:1548684 original size:103 final size:103
Alignment explanation
Indices: 1548561--1548779 Score: 402
Period size: 103 Copynumber: 2.1 Consensus size: 103
1548551 GAAGTAGTAC
*
1548561 ACTGTCAAAACAAATTGCTAAAATGGTACCGATACCATATATGGTATCGATACTGAAACCCAAAA
1 ACTGTCAAAACAAATTGCTAAAATGGTACCGATACCATATATGATATCGATACTGAAACCCAAAA
* * *
1548626 TAATGAAGTAGTACCGATACTGCTGAGGTAGTACCGAT
66 TAATGAAGTAGTACCAATACTACTGAGGTAGTACCAAT
1548664 ACTGTCAAAACAAATTGCTAAAATGGTACCGATACCATATATGATATCGATACTGAAACCCAAAA
1 ACTGTCAAAACAAATTGCTAAAATGGTACCGATACCATATATGATATCGATACTGAAACCCAAAA
1548729 TAATGAAGTAGTACCAATACTACTGAGGTAGTACCAAT
66 TAATGAAGTAGTACCAATACTACTGAGGTAGTACCAAT
1548767 ACTGTCAAAACAA
1 ACTGTCAAAACAA
1548780 CGGTCAATCC
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 112 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (103 bp):
ACTGTCAAAACAAATTGCTAAAATGGTACCGATACCATATATGATATCGATACTGAAACCCAAAA
TAATGAAGTAGTACCAATACTACTGAGGTAGTACCAAT
Found at i:1548686 original size:182 final size:182
Alignment explanation
Indices: 1548379--1548742 Score: 631
Period size: 182 Copynumber: 2.0 Consensus size: 182
1548369 CAATACCGAT
* *
1548379 ACTGTCAAAACAGATTGCTAAAATGGTACCAATACCATATATGATATCGATACTGAACCCCAAAA
1 ACTGTCAAAACAAATTGCTAAAATGGTACCAATACCATATATGATATCGATACTGAAACCCAAAA
*
1548444 TAATGAAGTAGTACCAATACTGCTAAAGAAGTACCGATATTGTCAAAACATAATGCTAAAATGGT
66 TAATGAAGTAGTACCAATACTGCTAAAGAAGTACCGATACTGTCAAAACATAATGCTAAAATGGT
1548509 ACCGATACCATATATGATATCGATACTGAAACCCAAAATAATGAAGTAGTAC
131 ACCGATACCATATATGATATCGATACTGAAACCCAAAATAATGAAGTAGTAC
* *
1548561 ACTGTCAAAACAAATTGCTAAAATGGTACCGATACCATATATGGTATCGATACTGAAACCCAAAA
1 ACTGTCAAAACAAATTGCTAAAATGGTACCAATACCATATATGATATCGATACTGAAACCCAAAA
* * * *
1548626 TAATGAAGTAGTACCGATACTGCTGAGGTAGTACCGATACTGTCAAAACA-AATTGCTAAAATGG
66 TAATGAAGTAGTACCAATACTGCTAAAGAAGTACCGATACTGTCAAAACATAA-TGCTAAAATGG
1548690 TACCGATACCATATATGATATCGATACTGAAACCCAAAATAATGAAGTAGTAC
130 TACCGATACCATATATGATATCGATACTGAAACCCAAAATAATGAAGTAGTAC
1548743 CAATACTACT
Statistics
Matches: 172, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
181 2 0.01
182 170 0.99
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (182 bp):
ACTGTCAAAACAAATTGCTAAAATGGTACCAATACCATATATGATATCGATACTGAAACCCAAAA
TAATGAAGTAGTACCAATACTGCTAAAGAAGTACCGATACTGTCAAAACATAATGCTAAAATGGT
ACCGATACCATATATGATATCGATACTGAAACCCAAAATAATGAAGTAGTAC
Found at i:1549069 original size:14 final size:14
Alignment explanation
Indices: 1549050--1549086 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
1549040 TAAGCTAAAT
1549050 AATTTAGCCAGGCC
1 AATTTAGCCAGGCC
1549064 AATTTAGCCAGGCC
1 AATTTAGCCAGGCC
1549078 AATTTAGCC
1 AATTTAGCC
1549087 TTGCTTTGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (14 bp):
AATTTAGCCAGGCC
Found at i:1549930 original size:18 final size:19
Alignment explanation
Indices: 1549888--1549931 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
1549878 ATATTCAACT
* *
1549888 TTATTTATAATTTTTTACA
1 TTATTTATAATTTTTAAAA
1549907 TCTATTTATAA-TTTTAAAA
1 T-TATTTATAATTTTTAAAA
1549926 TTATTT
1 TTATTT
1549932 TATATGACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 8 0.36
20 9 0.41
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTTATAATTTTTAAAA
Found at i:1553535 original size:16 final size:16
Alignment explanation
Indices: 1553514--1553547 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1553504 GTGCATTTTT
1553514 CACTGAATAATATTAA
1 CACTGAATAATATTAA
1553530 CACTGAATAATATTAA
1 CACTGAATAATATTAA
1553546 CA
1 CA
1553548 TTTTATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (16 bp):
CACTGAATAATATTAA
Found at i:1558643 original size:42 final size:41
Alignment explanation
Indices: 1558417--1558912 Score: 460
Period size: 43 Copynumber: 11.6 Consensus size: 41
1558407 CCGCTAAAGT
* *
1558417 TAGCGGCGTTTGAGAACAAAAAACGCCGCAATAGGTCAAGATCTA
1 TAGCGGCGTTTTAGAAC---AAACGCCGCAAAAGGTC-AGATCTA
* * * *
1558462 TTGCGGCGCTTTTGGAACAAACGCCGCTAAAGGTCGATATCTA
1 TAGCGGCG-TTTTAGAACAAACGCCGCAAAAGGTC-AGATCTA
* * *
1558505 TAGCGGCGTTTTAGGAACAAACACCGCTAAAA-GTCGATATATA
1 TAGCGGCGTTTTA-GAACAAACGCCGC-AAAAGGTC-AGATCTA
* * *
1558548 TAGCGGCGTTTTCGGAACAAACGCCACAAAAGGTAGAGATCTA
1 TAGCGGCGTTTT-AGAACAAACGCCGCAAAAGGT-CAGATCTA
* *
1558591 TAGCGGCGTTTTCAGAACAAACGCCGCAAAATGTTAGATCTA
1 TAGCGGCGTTTT-AGAACAAACGCCGCAAAAGGTCAGATCTA
* *
1558633 TAGCGGCGTTTTTAGAACAAAACGCCACAAAAGGTC-GTTCTA
1 TAGCGGCG-TTTTAGAAC-AAACGCCGCAAAAGGTCAGATCTA
* * * * *
1558675 TAGTGGCGTTTTCAGAACAAACGCCACAACATGTCATATCTA
1 TAGCGGCGTTTT-AGAACAAACGCCGCAAAAGGTCAGATCTA
* * *
1558717 TAGCGGCGTATTTAGAACAAAATGCCGCAAAAGGT-TGTTCTA
1 TAGCGGCGT-TTTAGAAC-AAACGCCGCAAAAGGTCAGATCTA
* * *
1558759 TAGCGGCATTTTAGATACAAACGCCGCAAAAGGCCAGATCTG
1 TAGCGGCGTTTTAGA-ACAAACGCCGCAAAAGGTCAGATCTA
* * *
1558801 TAGCGGCATTTTTTGAACAAACGCCACAAAAGGTCAGAATCTA
1 TAGCGGC-GTTTTAGAACAAACGCCGCAAAAGGTCAG-ATCTA
* * *
1558844 TAGCGGCATTTTTTGAACAAACGTCGCAAAAGGTCA-ATTCTA
1 TAGCGGC-GTTTTAGAACAAACGCCGCAAAAGGTCAGA-TCTA
1558886 TAGCGGCGTTTTTAGAACAAACGCCGC
1 TAGCGGCG-TTTTAGAACAAACGCCGC
1558913 TAATCGAAAC
Statistics
Matches: 378, Mismatches: 55, Indels: 39
0.80 0.12 0.08
Matches are distributed among these distances:
41 40 0.11
42 133 0.35
43 188 0.50
44 3 0.01
45 7 0.02
46 7 0.02
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.23
Consensus pattern (41 bp):
TAGCGGCGTTTTAGAACAAACGCCGCAAAAGGTCAGATCTA
Found at i:1558695 original size:84 final size:82
Alignment explanation
Indices: 1558417--1558910 Score: 488
Period size: 84 Copynumber: 5.8 Consensus size: 82
1558407 CCGCTAAAGT
* * * * *
1558417 TAGCGGCGTTTGAGAACAAAAAACGCCGCAATAGGTCAAGATCTATTGCGGCGCTTTTGGAACAA
1 TAGCGGCGTTTTAGAAC---AAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTAGAACAA
* *
1558482 ACGCCGCTAAAGGTCGATATCTA
62 ACGCCACAAAAGGTCG-T-TCTA
* * * **
1558505 TAGCGGCGTTTTAGGAACAAACACCGCTAAAA-GTCGATATATATAGCGGCGTTTTCGGAACAAA
1 TAGCGGCGTTTTA-GAACAAACGCCGC-AAAAGGTC-AGATCTATAGCGGCGTTTTTAGAACAAA
* *
1558569 CGCCACAAAAGGTAGAGATCTA
63 CGCCACAAAAGGT--CGTTCTA
* *
1558591 TAGCGGCGTTTTCAGAACAAACGCCGCAAAATGTTAGATCTATAGCGGCGTTTTTAGAACAAAAC
1 TAGCGGCGTTTT-AGAACAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTAGAAC-AAAC
1558656 GCCACAAAAGGTCGTTCTA
64 GCCACAAAAGGTCGTTCTA
* * * * * * *
1558675 TAGTGGCGTTTTCAGAACAAACGCCACAACATGTCATATCTATAGCGGCGTATTTAGAACAAAAT
1 TAGCGGCGTTTT-AGAACAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTAGAAC-AAAC
* *
1558740 GCCGCAAAAGGTTGTTCTA
64 GCCACAAAAGGTCGTTCTA
* * * * *
1558759 TAGCGGCATTTTAGATACAAACGCCGCAAAAGGCCAGATCTGTAGCGGCATTTTTTGAACAAACG
1 TAGCGGCGTTTTAGA-ACAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTAGAACAAACG
*
1558824 CCACAAAAGGTCAGAATCTA
65 CCACAAAAGGTC-G-TTCTA
* * *
1558844 TAGCGGCATTTTTTGAACAAACGTCGCAAAAGGTCA-ATTCTATAGCGGCGTTTTTAGAACAAAC
1 TAGCGGC-GTTTTAGAACAAACGCCGCAAAAGGTCAGA-TCTATAGCGGCGTTTTTAGAACAAAC
1558908 GCC
64 GCC
1558911 GCTAATCGAA
Statistics
Matches: 342, Mismatches: 52, Indels: 27
0.81 0.12 0.06
Matches are distributed among these distances:
83 17 0.05
84 127 0.37
85 80 0.23
86 97 0.28
87 4 0.01
88 13 0.04
89 4 0.01
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (82 bp):
TAGCGGCGTTTTAGAACAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTAGAACAAACGC
CACAAAAGGTCGTTCTA
Found at i:1559437 original size:20 final size:20
Alignment explanation
Indices: 1559412--1559466 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
1559402 ATACTAAGCT
1559412 AAAATGAGAAAATTCATTTA
1 AAAATGAGAAAATTCATTTA
1559432 AAAATGATG-AAATTCATTTA
1 AAAATGA-GAAAATTCATTTA
*
1559452 AAAATGATAAAATTC
1 AAAATGAGAAAATTC
1559467 CAAACAAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (20 bp):
AAAATGAGAAAATTCATTTA
Found at i:1562184 original size:6 final size:6
Alignment explanation
Indices: 1562152--1562183 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
1562142 GCAAAGGGTG
1562152 AAATCA AAATCA AAATCA AAATCA AAAT-A AAA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAA
1562184 AGAACAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATCA
Found at i:1562495 original size:41 final size:41
Alignment explanation
Indices: 1562443--1562706 Score: 309
Period size: 41 Copynumber: 6.4 Consensus size: 41
1562433 TTATAAATAC
* * *
1562443 AAACACCACTAAAGTACTAGTGTATAGCAGCGTTTGTATAA
1 AAACGCCACTAAAGTACAAGTGTATAGCGGCGTTTGTATAA
*
1562484 AAACGCCACTAAAGTACAAGTGTATAGCGGTGTTTGTATAA
1 AAACGCCACTAAAGTACAAGTGTATAGCGGCGTTTGTATAA
* * * * * *
1562525 AAATGCCACTAAAGTACAAGTCTTTCGCGGCGTTTATAAACAA
1 AAACGCCACTAAAGTACAAGTGTATAGCGGCGTTTGT--ATAA
* *
1562568 AAACGCCACTAAAGTACAATTGTATAG-GGTGTTTGTATAA
1 AAACGCCACTAAAGTACAAGTGTATAGCGGCGTTTGTATAA
* *
1562608 AAATGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACAAGTGTATAGCGGCGTTTGTATAA
** * *
1562649 AAACGCCACTAAAGTACTACTCTGT-TA-CGGCGTTTGTCTAG
1 AAACGCCACTAAAGTAC-A-AGTGTATAGCGGCGTTTGTATAA
1562690 AAACGCCACTAAAGTAC
1 AAACGCCACTAAAGTAC
1562707 TACTCTGTTG
Statistics
Matches: 189, Mismatches: 29, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
40 27 0.14
41 125 0.66
42 10 0.05
43 27 0.14
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (41 bp):
AAACGCCACTAAAGTACAAGTGTATAGCGGCGTTTGTATAA
Found at i:1562657 original size:124 final size:125
Alignment explanation
Indices: 1562432--1562665 Score: 362
Period size: 124 Copynumber: 1.9 Consensus size: 125
1562422 ATTTTTGACT
* * *
1562432 TTTATAAATACAAACACCACTAAAGTACTAGTGTATAGCAGCGTTTGTATAAAAACGCCACTAAA
1 TTTATAAACAAAAACACCACTAAAGTACAAGTGTATAGCAGCGTTTGTATAAAAACGCCACTAAA
* * *
1562497 GTACAAGTGTATAGCGGTGTTTGTATAAAAATGCCACTAAAGTACAAGTCTTTCGCGGCG
66 GTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTTTCGCGGCG
* * * * *
1562557 TTTATAAACAAAAACGCCACTAAAGTACAATTGTATAG-GGTGTTTGTATAAAAATGCCACTAAA
1 TTTATAAACAAAAACACCACTAAAGTACAAGTGTATAGCAGCGTTTGTATAAAAACGCCACTAAA
1562621 GTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTAC
66 GTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTAC
1562666 TACTCTGTTA
Statistics
Matches: 98, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
124 65 0.66
125 33 0.34
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (125 bp):
TTTATAAACAAAAACACCACTAAAGTACAAGTGTATAGCAGCGTTTGTATAAAAACGCCACTAAA
GTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTTTCGCGGCG
Found at i:1562734 original size:124 final size:122
Alignment explanation
Indices: 1562443--1562742 Score: 333
Period size: 124 Copynumber: 2.4 Consensus size: 122
1562433 TTATAAATAC
* * * * *
1562443 AAACACCACTAAAGTACT-AGTGTATAGCAGCGTTTGTATAAAAACGCCACTAAAGTACAAGTGT
1 AAACGCCACTAAAGTACTAATTGT-T-GCGGCGTTTGTATAAAAATGCCACTAAAGTACAAGTCT
* * * *
1562507 ATAGCGGTGTTTGTATAAAAATGCCACTAAAGTACAAGTCTTTCGCGGCGTTTATAAACAA
64 ATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAACTCTTTCACGGCGTTTAT--ACAA
*
1562568 AAACGCCACTAAAGTAC-AATTGTATAG-GGTGTTTGTATAAAAATGCCACTAAAGTACAAGTCT
1 AAACGCCACTAAAGTACTAATTGT-T-GCGGCGTTTGTATAAAAATGCCACTAAAGTACAAGTCT
* * *
1562631 ATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTACTCTGTT-ACGGCGTTTGT-CTAG
64 ATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAACTCT-TTCACGGCGTTTATAC-AA
*
1562690 AAACGCCACTAAAGTACTACTCTGTTGCGGCGTTTGT-TGAAAAAATGCCACTA
1 AAACGCCACTAAAGTACTAAT-TGTTGCGGCGTTTGTAT--AAAAATGCCACTA
1562743 TTGATGAACC
Statistics
Matches: 152, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
121 1 0.01
122 20 0.13
123 11 0.07
124 94 0.62
125 26 0.17
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (122 bp):
AAACGCCACTAAAGTACTAATTGTTGCGGCGTTTGTATAAAAATGCCACTAAAGTACAAGTCTAT
AGCGGCGTTTGTATAAAAACGCCACTAAAGTACAACTCTTTCACGGCGTTTATACAA
Found at i:1567134 original size:15 final size:15
Alignment explanation
Indices: 1567114--1567160 Score: 94
Period size: 15 Copynumber: 3.1 Consensus size: 15
1567104 GTAGGACCAT
1567114 TACATCCCGAAGGAC
1 TACATCCCGAAGGAC
1567129 TACATCCCGAAGGAC
1 TACATCCCGAAGGAC
1567144 TACATCCCGAAGGAC
1 TACATCCCGAAGGAC
1567159 TA
1 TA
1567161 TTATACCCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.34, C:0.32, G:0.19, T:0.15
Consensus pattern (15 bp):
TACATCCCGAAGGAC
Found at i:1567322 original size:12 final size:12
Alignment explanation
Indices: 1567305--1567351 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
1567295 TATCATGTTC
* *
1567305 TCATATTACATG
1 TCATATCACATA
1567317 TCATATCACATA
1 TCATATCACATA
1567329 TCATATCACATA
1 TCATATCACATA
1567341 TCATATCACAT
1 TCATATCACAT
1567352 GAACATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.36
Consensus pattern (12 bp):
TCATATCACATA
Found at i:1567768 original size:64 final size:63
Alignment explanation
Indices: 1567660--1567836 Score: 196
Period size: 64 Copynumber: 2.8 Consensus size: 63
1567650 TAATGAAGGT
* * ** * * **
1567660 ATGCATCGATGCACTACTGATGCATCGGTGCATC-AAAGATATTCGATGTAGT-ATTATTGTTGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-CGATTG-CATTCGATGT-GTCACTATTAATGG
1567723 G
63 G
* *
1567724 ATGCATCGATGCACTCCTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-CGATTGCATTCGATGTGTCACTATTAATGGG
*
1567788 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCAATGT
1 ATGCATCGATGCACTACTTATGCATCGATGCACG-ATTGCATTCGATGT
1567837 CTTTATTTTA
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
63 3 0.03
64 92 0.95
65 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACGATTGCATTCGATGTGTCACTATTAATGGG
Found at i:1567857 original size:64 final size:63
Alignment explanation
Indices: 1567723--1567884 Score: 195
Period size: 64 Copynumber: 2.5 Consensus size: 63
1567713 TTATTGTTGG
* * *
1567723 GATGCATCGATGCACTCCTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAATGG
1 GATGCATCGATGCACTACTTATGCATCGATGCA-CGATTGCATTCAATGTTTCACTATTAATGA
* *
1567787 GATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCAATGTCTTTA-TTTTAAAAT
1 GATGCATCGATGCACTACTTATGCATCGATGCACG-ATTGCATTCAATGT-TTCACTATT--AAT
1567851 -A
62 GA
**
1567852 G-TGCATCGATGCACTACCAATGCATCGATGCAC
1 GATGCATCGATGCACTACTTATGCATCGATGCAC
1567885 ATTCATATAA
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
63 2 0.02
64 78 0.90
65 4 0.05
66 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (63 bp):
GATGCATCGATGCACTACTTATGCATCGATGCACGATTGCATTCAATGTTTCACTATTAATGA
Found at i:1572199 original size:236 final size:236
Alignment explanation
Indices: 1571786--1572261 Score: 916
Period size: 236 Copynumber: 2.0 Consensus size: 236
1571776 TACAAACTCA
*
1571786 TTTGGTACGTTGGAATGGACTATAAGACTGCTTTAATAAGTACCAATTTCCCGCCCCTTGACAGA
1 TTTGGTAAGTTGGAATGGACTATAAGACTGCTTTAATAAGTACCAATTTCCCGCCCCTTGACAGA
1571851 TTGCACACGGATGATTGGCTGATTCGAGTCAGCATCACTTCCTTTAGGAATCTGAAAGTGGTCTG
66 TTGCACACGGATGATTGGCTGATTCGAGTCAGCATCACTTCCTTTAGGAATCTGAAAGTGGTCTG
*
1571916 TCTATTTCTTCCCACAACGGAAGGGAATCCAAGATAACGTTCAGGATTATTCGCTTCTGGGACCC
131 TCTATTTCTTCCCACAACGGAAGGGAATCCAAGATAACGTTCAGGATTATTCGCTTCTGGGAACC
1571981 CAAAATGACTTGTCATGGAAGTGAGACAATCAACATGAGTG
196 CAAAATGACTTGTCATGGAAGTGAGACAATCAACATGAGTG
*
1572022 TTTGGTAAGTTGGAATGGACTATAAGACTGCTTTAATAAGTACCAATTTCCCGCCTCTTGACAGA
1 TTTGGTAAGTTGGAATGGACTATAAGACTGCTTTAATAAGTACCAATTTCCCGCCCCTTGACAGA
*
1572087 TTGCACACGGATGATTGGCTGATTCGAGTCAGGATCACTTCCTTTAGGAATCTGAAAGTGGTCTG
66 TTGCACACGGATGATTGGCTGATTCGAGTCAGCATCACTTCCTTTAGGAATCTGAAAGTGGTCTG
1572152 TCTATTTCTTCCCACAACGGAAGGGAATCCAAGATAACGTTCAGGATTATTCGCTTCTGGGAACC
131 TCTATTTCTTCCCACAACGGAAGGGAATCCAAGATAACGTTCAGGATTATTCGCTTCTGGGAACC
1572217 CAAAATGACTTGTCATGGAAGTGAGACAATCAACATGAGTG
196 CAAAATGACTTGTCATGGAAGTGAGACAATCAACATGAGTG
1572258 TTTG
1 TTTG
1572262 TTCTGAATAA
Statistics
Matches: 236, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
236 236 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (236 bp):
TTTGGTAAGTTGGAATGGACTATAAGACTGCTTTAATAAGTACCAATTTCCCGCCCCTTGACAGA
TTGCACACGGATGATTGGCTGATTCGAGTCAGCATCACTTCCTTTAGGAATCTGAAAGTGGTCTG
TCTATTTCTTCCCACAACGGAAGGGAATCCAAGATAACGTTCAGGATTATTCGCTTCTGGGAACC
CAAAATGACTTGTCATGGAAGTGAGACAATCAACATGAGTG
Found at i:1576914 original size:16 final size:16
Alignment explanation
Indices: 1576881--1576921 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
1576871 TGAAAAATTC
*
1576881 AAAAATAAAAATCGAT
1 AAAAATAAAAATCAAT
1576897 AAAAAATAAAAAT-AAT
1 -AAAAATAAAAATCAAT
1576913 AAAAATAAA
1 AAAAATAAA
1576922 TCAAAGAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 2 0.09
17 12 0.52
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (16 bp):
AAAAATAAAAATCAAT
Found at i:1588310 original size:2 final size:2
Alignment explanation
Indices: 1588303--1588339 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1588293 TCAATCTACA
1588303 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1588340 ATTCACGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1588519 original size:22 final size:22
Alignment explanation
Indices: 1588492--1588538 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
1588482 CTTCAATGAT
1588492 GCGCAATGTAAGTCATAAATGC
1 GCGCAATGTAAGTCATAAATGC
1588514 GCGCAATGTAAGTCATAAATGC
1 GCGCAATGTAAGTCATAAATGC
1588536 GCG
1 GCG
1588539 TCATAAATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
GCGCAATGTAAGTCATAAATGC
Found at i:1594165 original size:18 final size:18
Alignment explanation
Indices: 1594129--1594167 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1594119 ACCTAATGAA
** *
1594129 AATAAAATACTAACTCTT
1 AATAAAATAAAAACACTT
1594147 AATAAAATAAAAACACTT
1 AATAAAATAAAAACACTT
1594165 AAT
1 AAT
1594168 TCCTAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (18 bp):
AATAAAATAAAAACACTT
Found at i:1596618 original size:16 final size:16
Alignment explanation
Indices: 1596597--1596627 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1596587 GTGCCATTGC
1596597 TGACCATGCACGTAGT
1 TGACCATGCACGTAGT
1596613 TGACCATGCACGTAG
1 TGACCATGCACGTAG
1596628 CTATGCAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (16 bp):
TGACCATGCACGTAGT
Found at i:1607248 original size:21 final size:21
Alignment explanation
Indices: 1607189--1607242 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
1607179 TGAGCTAGTG
*
1607189 GTATCGGTACCCATTCAAAAA
1 GTATCGATACCCATTCAAAAA
*
1607210 GTATCGATACCCATTCAATAA
1 GTATCGATACCCATTCAAAAA
1607231 GTATCGATACCC
1 GTATCGATACCC
1607243 TCTCAAACGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (21 bp):
GTATCGATACCCATTCAAAAA
Found at i:1608010 original size:23 final size:23
Alignment explanation
Indices: 1607977--1608036 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
1607967 CATCTTATAT
*
1607977 GGCACTACGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
* * *
1608000 GTCACTTCGGTGCAATTTTACGT
1 GGCACTTCGGTGCAATTCTACGC
*
1608023 GGCACTTTGGTGCA
1 GGCACTTCGGTGCA
1608037 TTTATACAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.30
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:1609112 original size:21 final size:20
Alignment explanation
Indices: 1609082--1609237 Score: 96
Period size: 21 Copynumber: 7.1 Consensus size: 20
1609072 TCACAACTCA
1609082 ATTTCCAAATTCGCGTTGCG
1 ATTTCCAAATTCGCGTTGCG
* *
1609102 ATTTACTAAATTCGTGTTGCG
1 ATTT-CCAAATTCGCGTTGCG
* *
1609123 ATAGTCCGAATTCGCGTTGCG
1 AT-TTCCAAATTCGCGTTGCG
*
1609144 ATTTTGCGATAGTCCAAATTCGCGTTTCG
1 A---T----T--TCCAAATTCGCGTTGCG
* *
1609173 ATAGTCCAAATTCGCATTGCG
1 AT-TTCCAAATTCGCGTTGCG
* *
1609194 ATAGTCCTAATTCGCGTTGCG
1 AT-TTCCAAATTCGCGTTGCG
*
1609215 ATTTTCTAAATTCGCGTTGCG
1 A-TTTCCAAATTCGCGTTGCG
1609236 AT
1 AT
1609238 AGTCCAAAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
20 5 0.05
21 81 0.75
22 2 0.02
23 1 0.01
24 1 0.01
26 1 0.01
27 1 0.01
29 16 0.15
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (20 bp):
ATTTCCAAATTCGCGTTGCG
Found at i:1609163 original size:29 final size:29
Alignment explanation
Indices: 1609118--1609174 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
1609108 TAAATTCGTG
*
1609118 TTGCGATAGTCCGAATTCGCGTTGCGATT
1 TTGCGATAGTCCAAATTCGCGTTGCGATT
*
1609147 TTGCGATAGTCCAAATTCGCGTTTCGAT
1 TTGCGATAGTCCAAATTCGCGTTGCGAT
1609175 AGTCCAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (29 bp):
TTGCGATAGTCCAAATTCGCGTTGCGATT
Found at i:1609206 original size:42 final size:42
Alignment explanation
Indices: 1609147--1609245 Score: 144
Period size: 42 Copynumber: 2.4 Consensus size: 42
1609137 CGTTGCGATT
*
1609147 TTGCGATAGTCCAAATTCGCGTTTCGATAGTCCAAATTCGCA
1 TTGCGATAGTCCAAATTCGCGTTGCGATAGTCCAAATTCGCA
* ** * *
1609189 TTGCGATAGTCCTAATTCGCGTTGCGATTTTCTAAATTCGCG
1 TTGCGATAGTCCAAATTCGCGTTGCGATAGTCCAAATTCGCA
1609231 TTGCGATAGTCCAAA
1 TTGCGATAGTCCAAA
1609246 ATTTTACGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (42 bp):
TTGCGATAGTCCAAATTCGCGTTGCGATAGTCCAAATTCGCA
Found at i:1609206 original size:71 final size:71
Alignment explanation
Indices: 1609085--1609219 Score: 200
Period size: 71 Copynumber: 1.9 Consensus size: 71
1609075 CAACTCAATT
* * **
1609085 TCCAAATTCGCGTTGCGATTTACTAAATTCGTGTTGCGATAGTCCGAATTCGCGTTGCGATTTTG
1 TCCAAATTCGCGTTGCGATGTACCAAATTCGCATTGCGATAGTCCGAATTCGCGTTGCGATTTTG
1609150 CGATAG
66 CGATAG
* *
1609156 TCCAAATTCGCGTTTCGATAGT-CCAAATTCGCATTGCGATAGTCCTAATTCGCGTTGCGATTTT
1 TCCAAATTCGCGTTGCGAT-GTACCAAATTCGCATTGCGATAGTCCGAATTCGCGTTGCGATTTT
1609220 CTAAATTCGC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
71 56 0.98
72 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (71 bp):
TCCAAATTCGCGTTGCGATGTACCAAATTCGCATTGCGATAGTCCGAATTCGCGTTGCGATTTTG
CGATAG
Found at i:1609620 original size:25 final size:25
Alignment explanation
Indices: 1609578--1609645 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
1609568 TTCCAATGCT
1609578 AAGTT-GAA-ACATTTAACATTTGG
1 AAGTTGGAACACATTTAACATTTGG
1609601 AAGTTGGAACACATTTAACATTTGG
1 AAGTTGGAACACATTTAACATTTGG
1609626 AAGTTGGAACACATTTAACA
1 AAGTTGGAACACATTTAACA
1609646 CATTTAACAC
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
23 5 0.12
24 3 0.07
25 35 0.81
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.31
Consensus pattern (25 bp):
AAGTTGGAACACATTTAACATTTGG
Found at i:1610332 original size:21 final size:21
Alignment explanation
Indices: 1610286--1610357 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
1610276 ATAACATAAA
* * *
1610286 AATTCGGACTATCACAACGCG
1 AATTTGGAATATCGCAACGCG
* *
1610307 AATTTGGATTATCGCAATGCG
1 AATTTGGAATATCGCAACGCG
* *
1610328 AATTTAGAAAATCGCAACGCG
1 AATTTGGAATATCGCAACGCG
1610349 AATTTGGAA
1 AATTTGGAA
1610358 ACTGAGTTGT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (21 bp):
AATTTGGAATATCGCAACGCG
Found at i:1610358 original size:21 final size:21
Alignment explanation
Indices: 1610300--1610358 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
1610290 CGGACTATCA
**
1610300 CAACGCGAATTTGGATTATCG
1 CAACGCGAATTTGGAAAATCG
* *
1610321 CAATGCGAATTTAGAAAATCG
1 CAACGCGAATTTGGAAAATCG
1610342 CAACGCGAATTTGGAAA
1 CAACGCGAATTTGGAAA
1610359 CTGAGTTGTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (21 bp):
CAACGCGAATTTGGAAAATCG
Found at i:1616717 original size:60 final size:61
Alignment explanation
Indices: 1616644--1616769 Score: 154
Period size: 60 Copynumber: 2.1 Consensus size: 61
1616634 AATTTTGAGT
* * *
1616644 AAAG-TACACAAATGGTT-CTCTAATTACATG-GTGTTATTTTGTTGAATC-CTTTAATTATTA
1 AAAGTTACACAAATGATTCCT-TAATTA-ATGTGTGTTACTTTGTTGAATCTC-TTAACTATTA
*
1616704 AAAGTTACA-AAATGATTCCTTAATTATTGTGTGTTACTTTGTTGAATCTCTTAACTATTA
1 AAAGTTACACAAATGATTCCTTAATTAATGTGTGTTACTTTGTTGAATCTCTTAACTATTA
1616764 AAAGTT
1 AAAGTT
1616770 TGACGGTCAT
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
59 2 0.03
60 49 0.84
61 7 0.12
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.44
Consensus pattern (61 bp):
AAAGTTACACAAATGATTCCTTAATTAATGTGTGTTACTTTGTTGAATCTCTTAACTATTA
Found at i:1620445 original size:37 final size:36
Alignment explanation
Indices: 1620378--1620489 Score: 136
Period size: 37 Copynumber: 3.0 Consensus size: 36
1620368 TTTGTAAACG
**
1620378 GTTTTTAAAAACTATATATTATAT-TTTTTTCTAAAAT
1 GTTTTT-AAAACTATATATTATATACATTTTC-AAAAT
*
1620415 GTTTTTAAAACTATATGTTATATACATTTTCAAAAT
1 GTTTTTAAAACTATATATTATATACATTTTCAAAAT
*
1620451 ATTTTTAGAAACTATATATTATATACGTATTTTCAAAAT
1 GTTTTTA-AAACTATATATTATATAC--ATTTTCAAAAT
1620490 AAGTGTTTAC
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
36 27 0.41
37 28 0.42
39 11 0.17
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.49
Consensus pattern (36 bp):
GTTTTTAAAACTATATATTATATACATTTTCAAAAT
Found at i:1620663 original size:9 final size:8
Alignment explanation
Indices: 1620637--1620661 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1620627 TATTTTTATT
1620637 ATTAAAAA
1 ATTAAAAA
1620645 ATTAAAAA
1 ATTAAAAA
1620653 ATTAAAAA
1 ATTAAAAA
1620661 A
1 A
1620662 ATAATGGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
ATTAAAAA
Found at i:1620880 original size:2 final size:2
Alignment explanation
Indices: 1620873--1620898 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1620863 TTATTCATTC
1620873 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
1620899 GATTATGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1624973 original size:8 final size:8
Alignment explanation
Indices: 1624960--1625000 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
1624950 CTCATTTTCA
1624960 GAGAATTT
1 GAGAATTT
1624968 GAGAATTT
1 GAGAATTT
*
1624976 -AGAGTTT
1 GAGAATTT
*
1624983 GGGAATTT
1 GAGAATTT
1624991 GAGAATTT
1 GAGAATTT
1624999 GA
1 GA
1625001 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:1625311 original size:128 final size:128
Alignment explanation
Indices: 1625083--1625687 Score: 1084
Period size: 128 Copynumber: 4.7 Consensus size: 128
1625073 TATTCACATT
*
1625083 AAGGCGCGTTCTCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
1 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
1625148 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
66 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
*
1625211 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCTTATT
1 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
* * *
1625276 ATGTCACTCATGTCCCTCTGGGACACTATTCATATCAGTACCTATTATTTCTTAGGAGACTTG
66 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
* **
1625339 AAGGCGCGTTCCCGGTGGCGCGCCTTTTATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
1 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
**
1625404 ATGTCACTCATGTCCCTTAGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
66 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
1625467 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
1 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
* * * *
1625532 ATGTCACTCATATCCCTCGGGGACACTATTTATATCAGTACTTATTATTTCTCAAGGGACTTG
66 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
1625595 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
1 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
1625660 ATGTCACTCATGTCCCTCGGGGACACTA
66 ATGTCACTCATGTCCCTCGGGGACACTA
1625688 GATGGATTGT
Statistics
Matches: 454, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 454 1.00
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (128 bp):
AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
Found at i:1626122 original size:34 final size:34
Alignment explanation
Indices: 1626083--1626189 Score: 151
Period size: 34 Copynumber: 3.1 Consensus size: 34
1626073 TAAGTTGAAA
* *
1626083 TTTAATGTTAAATTTCGAATACTATAATTTATAT
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
* *
1626117 TTTAATTTTAAATTTCGAATAATATTATTTTTAT
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
* * *
1626151 TTTTATTTTAAATTTCAAATAATATAATTTGTAT
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
1626185 TTTAA
1 TTTAA
1626190 AAACATTTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 64 1.00
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (34 bp):
TTTAATTTTAAATTTCGAATAATATAATTTATAT
Found at i:1626798 original size:21 final size:21
Alignment explanation
Indices: 1626710--1626803 Score: 127
Period size: 21 Copynumber: 4.5 Consensus size: 21
1626700 TATGGTATAA
*
1626710 AACCCTACGGGCTAGGCATGT
1 AACCCTACGGGCTAGGAATGT
*
1626731 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-ACGGGCTAGGAATGT
* *
1626752 AACCCTGCGGGCTCGGAATGT
1 AACCCTACGGGCTAGGAATGT
*
1626773 AACCCTACGGGCTCGGAATGT
1 AACCCTACGGGCTAGGAATGT
1626794 AACCCTACGG
1 AACCCTACGG
1626804 AGATGGCATA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
20 3 0.04
21 61 0.91
22 3 0.04
ACGTcount: A:0.23, C:0.28, G:0.31, T:0.18
Consensus pattern (21 bp):
AACCCTACGGGCTAGGAATGT
Found at i:1626833 original size:21 final size:21
Alignment explanation
Indices: 1626807--1626854 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
1626797 CCTACGGAGA
* *
1626807 TGGCATATGAACTGGTGGGCT
1 TGGCATATGAAATGGAGGGCT
1626828 TGGCATATGAAATGGAGGGCT
1 TGGCATATGAAATGGAGGGCT
*
1626849 GGGCAT
1 TGGCAT
1626855 GTATCCCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATGAAATGGAGGGCT
Found at i:1628659 original size:35 final size:35
Alignment explanation
Indices: 1628580--1628691 Score: 101
Period size: 35 Copynumber: 3.2 Consensus size: 35
1628570 TAATAATTCT
* *
1628580 AAATAAATAATAATTATATAAATATCATTTTAATAA
1 AAATAAATAATATTTATATAAATATCA-TTAAATAA
1628616 AAA-AAATAATATTTATATAAATAT-A-TAAATATA
1 AAATAAATAATATTTATATAAATATCATTAAATA-A
* *
1628649 AAATATAATAACTATTTA-A-AAAAAT-ACTAACATAA
1 AAATA-AATAA-TATTTATATAAATATCATTAA-ATAA
1628684 AAATAAAT
1 AAATAAAT
1628692 TTCTTACCAG
Statistics
Matches: 67, Mismatches: 3, Indels: 14
0.80 0.04 0.17
Matches are distributed among these distances:
32 5 0.07
33 4 0.06
34 11 0.16
35 35 0.52
36 12 0.18
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (35 bp):
AAATAAATAATATTTATATAAATATCATTAAATAA
Found at i:1629921 original size:227 final size:224
Alignment explanation
Indices: 1629524--1629989 Score: 660
Period size: 227 Copynumber: 2.1 Consensus size: 224
1629514 AATTCATATA
*
1629524 TTCGGGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGAGTCAGTTTTTTAAGTGTGATATTC
1 TTCGGGTCGGGTCAGGTGAAACTTTATTTTGGTCGGGTCGAGTCAGTTTTTTAAGTGTGATATTC
* * *
1629589 GGGTCAGGTCGAGTTTGGGTTTAGGGTGAAAAATACCCGACCCGAAAATATATATAATTTTACCT
66 GGGTCA-G-CGAGTTCGGGTTTAGAGTGAAAAATACCCGACCCGAAAAAATATATAATTTTACCT
* * *
1629654 TATATATTTAGGAATAATTACAATAATACCCCTCTATATATA-AT-TTTTTTTCAATTAAGT-C-
129 TATATATTTAGGAATAATTACAATAATACCCCTCTATATATATATATATATAT--ATT---TCCA
1629715 ACTGTTTTTATTGAATAAAAATAATTTTTTTATTAT
189 ACTGTTTTTATTGAATAAAAATAATTTTTTTATTAT
* *
1629751 TTCGGGTCGGGTCAGGTGAAACTTTATTTTGGTCGGGTTG-GTCTGTTTTTTTTAAGTGTGATAT
1 TTCGGGTCGGGTCAGGTGAAACTTTATTTTGGTCGGGTCGAGTCAG--TTTTTTAAGTGTGATAT
1629815 TCGGGTC-G-G-GTTCGGGTTTAGAGTGAAAAATACCCGACCCGACCCAAAAAATATATAATTTT
64 TCGGGTCAGCGAGTTCGGGTTTAGAGTGAAAAATACCCGACCCG----AAAAAATATATAATTTT
*
1629877 ACCTTATATATTTAGGAATAATTACAATAATACCCCTTTATATATATATATATATATATTTCCAA
125 ACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATATATATATATATATTTCCAA
*
1629942 TTGTTTTTATTGAATAAAAATAATTTTTTTATTAT
190 CTGTTTTTATTGAATAAAAATAATTTTTTTATTAT
1629977 TTCGGGTCGGGTC
1 TTCGGGTCGGGTC
1629990 GGGTCTCGGA
Statistics
Matches: 218, Mismatches: 11, Indels: 21
0.87 0.04 0.08
Matches are distributed among these distances:
223 30 0.14
224 2 0.01
225 1 0.00
226 53 0.24
227 102 0.47
228 26 0.12
229 4 0.02
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (224 bp):
TTCGGGTCGGGTCAGGTGAAACTTTATTTTGGTCGGGTCGAGTCAGTTTTTTAAGTGTGATATTC
GGGTCAGCGAGTTCGGGTTTAGAGTGAAAAATACCCGACCCGAAAAAATATATAATTTTACCTTA
TATATTTAGGAATAATTACAATAATACCCCTCTATATATATATATATATATATTTCCAACTGTTT
TTATTGAATAAAAATAATTTTTTTATTAT
Found at i:1635139 original size:19 final size:20
Alignment explanation
Indices: 1635102--1635139 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
1635092 AAAAAAATTA
1635102 AAATAAAGGATAAATTGAAG
1 AAATAAAGGATAAATTGAAG
1635122 AAAT-AAGGA-AAATATGAA
1 AAATAAAGGATAAAT-TGAA
1635140 ATATTAAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.63, C:0.00, G:0.18, T:0.18
Consensus pattern (20 bp):
AAATAAAGGATAAATTGAAG
Found at i:1635376 original size:156 final size:153
Alignment explanation
Indices: 1635067--1635436 Score: 478
Period size: 156 Copynumber: 2.4 Consensus size: 153
1635057 TATTGTGGTA
* *
1635067 TATGAGCATGTGGTTCAAATTTAGTAAAAA--AATTAAAATAAAGGATAAATTGAAGAAATAAGG
1 TATGAGCATGTGGTTCAAATTTAGTAAAAAGGACTTAAAATAAAGGATGAATTGAAGAAATAAGG
* * ** ** *
1635130 AAAATATGAAATATTAAGGGACTAAATTGGAAAATAATTTTTTTATCAAAAATAGGAATTGAAAG
66 AAAATATGAAAAATTAAGGGACTAAATTGAAAAATAAAATTAATATCAAAAAGAGGAATTGAAAG
*
1635195 TACATATGTATTCTAAGATTGTT
131 TACATATATATTCTAAGATTGTT
1635218 TATGAGCATGTGGTTCAAATTTAGTAAAAGACGGACTTAAAATAAAGGATGAATTGAAGAAATAA
1 TATGAGCATGTGGTTCAAATTTAGTAAAA-A-GGACTTAAAATAAAGGATGAATTGAAGAAATAA
1635283 -GAAAATATGAAAAATTAAGGGACTAAATTGAAAAATAAAAAATTAATATCAAAAAGAGGAATTG
64 GGAAAATATGAAAAATTAAGGGACTAAATTGAAAAAT--AAAATTAATATCAAAAAGAGGAATTG
* *
1635347 AAATTACATATATATTCTACGA-TGATT
127 AAAGTACATATATATTCTAAGATTG-TT
* ** * * * * *
1635374 TATGAGCTTGTGGGACTAATTTGGTAAAAAGAGACTTAAAATGAAGGAGGAATTGAAGGAATA
1 TATGAGCATGTGGTTCAAATTTAGTAAAAAG-GACTTAAAATAAAGGATGAATTGAAGAAATA
1635437 TTGAAATCAG
Statistics
Matches: 191, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
151 29 0.15
152 1 0.01
154 35 0.18
155 60 0.31
156 66 0.35
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.29
Consensus pattern (153 bp):
TATGAGCATGTGGTTCAAATTTAGTAAAAAGGACTTAAAATAAAGGATGAATTGAAGAAATAAGG
AAAATATGAAAAATTAAGGGACTAAATTGAAAAATAAAATTAATATCAAAAAGAGGAATTGAAAG
TACATATATATTCTAAGATTGTT
Found at i:1639572 original size:13 final size:14
Alignment explanation
Indices: 1639547--1639584 Score: 53
Period size: 12 Copynumber: 2.8 Consensus size: 14
1639537 TTATATAATT
1639547 TAATTTTTT-TTAA
1 TAATTTTTTATTAA
1639560 T-ATTTTTTATTAA
1 TAATTTTTTATTAA
1639573 TAATTTATTTAT
1 TAATTT-TTTAT
1639585 GTTCCTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.32
13 6 0.27
14 4 0.18
15 5 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TAATTTTTTATTAA
Found at i:1642165 original size:2 final size:2
Alignment explanation
Indices: 1642160--1642195 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1642150 CACACACAGG
*
1642160 GA GA GA GA GA GA GA GA GA GA GA TA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1642196 CGAAAGAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (2 bp):
GA
Found at i:1642609 original size:15 final size:15
Alignment explanation
Indices: 1642610--1642654 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
1642600 AATAATTTAT
*
1642610 ATTTATTATAAAACA
1 ATTTATTATAAAATA
1642625 ATTTATTATAAAATA
1 ATTTATTATAAAATA
*
1642640 AATTATTATAAAATA
1 ATTTATTATAAAATA
1642655 TGGATTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
ATTTATTATAAAATA
Found at i:1642614 original size:21 final size:21
Alignment explanation
Indices: 1642588--1642630 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1642578 TTAATAAGGT
* *
1642588 TATTTATTTTAAAATAATTTA
1 TATTTATTATAAAACAATTTA
1642609 TATTTATTATAAAACAATTTA
1 TATTTATTATAAAACAATTTA
1642630 T
1 T
1642631 TATAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTTATTATAAAACAATTTA
Found at i:1642673 original size:22 final size:22
Alignment explanation
Indices: 1642642--1642742 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
1642632 ATAAAATAAA
*
1642642 TTATTATAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
** * *
1642664 TTATTTTAAAATGATTTATTTTAA
1 TTATTTTAAAAT-ATGGA-TTGAT
* * * *
1642688 ATAATTTATTAGTATGGATTGAT
1 TTATTTTA-AAATATGGATTGAT
1642711 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
1642733 TTATTTTAAA
1 TTATTTTAAA
1642743 TAATTTATTA
Statistics
Matches: 59, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
22 33 0.56
23 12 0.20
24 12 0.20
25 2 0.03
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (22 bp):
TTATTTTAAAATATGGATTGAT
Found at i:1642680 original size:15 final size:14
Alignment explanation
Indices: 1642660--1642697 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
1642650 AAATATGGAT
1642660 TGATTTATTTTAAAA
1 TGATTTATTTT-AAA
1642675 TGATTTATTTTAAA
1 TGATTTATTTTAAA
*
1642689 TAATTTATT
1 TGATTTATT
1642698 AGTATGGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (14 bp):
TGATTTATTTTAAA
Found at i:1642714 original size:32 final size:32
Alignment explanation
Indices: 1642675--1642774 Score: 121
Period size: 32 Copynumber: 3.4 Consensus size: 32
1642665 TATTTTAAAA
1642675 TGATTTATTTTAAATAATTTATTAGTATGGAT
1 TGATTTATTTTAAATAATTTATTAGTATGGAT
1642707 TGATTTA-TTT---TAA---A--A-TATGGAT
1 TGATTTATTTTAAATAATTTATTAGTATGGAT
*
1642729 TGATTTATTTTAAATAATTTATTAGTATGTAT
1 TGATTTATTTTAAATAATTTATTAGTATGGAT
1642761 TGATTTATTTTAAA
1 TGATTTATTTTAAA
1642775 ATATGGATTG
Statistics
Matches: 57, Mismatches: 1, Indels: 20
0.73 0.01 0.26
Matches are distributed among these distances:
22 14 0.25
23 4 0.07
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
31 4 0.07
32 27 0.47
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (32 bp):
TGATTTATTTTAAATAATTTATTAGTATGGAT
Found at i:1642740 original size:54 final size:54
Alignment explanation
Indices: 1642675--1644887 Score: 1042
Period size: 54 Copynumber: 40.4 Consensus size: 54
1642665 TATTTTAAAA
1642675 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
*
1642729 TGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
* * * * ***
1642783 TGATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGTAGTTGTATGGAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGAT
* *
1642831 TGATTTATTTTAAATAATTTATTAGTAAGGATTAATTTATTTTAAAATATGGAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
* * **
1642885 TAATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATAATTTAT
1 TGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGAT
** * ** * * * **
1642933 TAGTATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTTT-AAATAATTTAT
1 T-G-ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGAT
** * ** * * *
1642987 TAGTATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATATATTAGTATGGA
1 T-G-ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTT---T-A-A-A--A-TATGGA
1643050 T
54 T
* * * ***
1643051 TGATTTATTTT-AA-AA--TA-TAG-ATTGATTTA-TTATTGTAGTTGTATGGAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGAT
1643099 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
**
1643153 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAGTAGTTGTATGGAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA--A--AATATGGAT
*** * ** * * *
1643211 TGATTTATTTTAAA-ATATGGGTT-GATAT--ATTTTAAATAATTTATTAGTATGGAT
1 TGATTTATTTTAAATA-ATTTATTAG-TATGGA-TTGATTTATTTTA-AAATATGGAT
*
1643265 TGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
**
1643319 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATAATTTAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGAT
** * ** * * * *** *
1643373 TAGTATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTATTGTAGTTGTATGGTT
1 T-G-ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGAT
*
1643431 TGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTT-AAATA---AT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
* * * * * * ***
1643481 TTA-TTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGAT
1 TGATTTA-TTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATGGAT
*
1643543 TGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
* **
1643597 TGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATAATTTAT
1 TGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGAT
** * ** * * * * ***
1643645 TAGTATGGA-TTGATTTATTTTA-AAATGTGGATTGATTTATTATTGTAGTTGTATGGAT
1 T-G-ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGAT
1643703 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
1643757 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
*
1643811 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
*
1643865 TGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATA---AT
1 TGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGAT
* * * * * * * *
1643909 TTA-TTAGTATAGATTGATTTATTTTAAAATATGGATTGACTTATTTTAAATAATTTATTAGTAT
1 TGATTTATTTTA-AATAATTTA--TT--AGTATGGATTGATTTATTTT-AA-AA--TA-T-GGAT
* * ** * * *
1643973 GGATTGA-TTTATTTTA-GTAGTT-GTATGGATTGATTTATTTTAAAATATGGGT
1 TGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGAT
1644025 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATA---AT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
* * * * * *
1644075 TTA-TTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTAT
1 TGATTTATTTTA-AATAATTTA--TT--AGTATGGATTGATTTA-TTT---TAA---A--A-TAT
1644139 GGAT
51 GGAT
*
1644143 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
*
1644197 TGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATA---AT
1 TGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGAT
* * * * * * * *
1644241 TTA-TTAGTATAGATTGATTTATTTTAAAATATGGATTGACTTATTTTAAATAATTTATTAGTAT
1 TGATTTATTTTA-AATAATTTA--TT--AGTATGGATTGATTTATTTT-AA-AA--TA-T-GGAT
* * ** * * * *
1644305 GGATTGA-TTTATTTTA-GTAGTT-GTATGAATTGATTTATTTTAAAATATGGGT
1 TGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGAT
1644357 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATA---AT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
* * * * * *
1644407 TTA-TTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTAT
1 TGATTTATTTTA-AATAATTTA--TT--AGTATGGATTGATTTA-TTT---TAA---A--A-TAT
1644471 GGAT
51 GGAT
1644475 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
* *
1644529 TGATTTA--TT--AT--TGTAGTT-GTATGGTTTGATTTATTTTAAATAATTTATTAGTATGTAT
1 TGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G---G-AT
* *
1644587 TGATTTATTTTAAATGATTTATTAGTATGGATTGATTTATTTTAAAATATAGAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
*
1644641 TGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATA---AT
1 TGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGAT
* * * * * * * ***
1644685 TTATTAGTATGGATTAATTTATTT-TAAAATATAGATTGATTTATTATCGTAGTTGTATGGAT
1 TGATT--TAT--TTTAAATAATTTAT-TAGTATGGATTGATTTATT-T--TA-AAATATGGAT
* *
1644747 TGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTATTATTGTAGTTGTATGGAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA--A----A---ATATGGAT
*
1644810 TGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
1644864 TGATTTATTTTAAATAATTTATTA
1 TGATTTATTTTAAATAATTTATTA
1644888 TTGTAGTTGT
Statistics
Matches: 1668, Mismatches: 262, Indels: 458
0.70 0.11 0.19
Matches are distributed among these distances:
43 6 0.00
44 14 0.01
45 2 0.00
46 2 0.00
47 30 0.02
48 183 0.11
49 35 0.02
50 67 0.04
51 6 0.00
52 43 0.03
53 44 0.03
54 665 0.40
55 64 0.04
56 33 0.02
57 54 0.03
58 157 0.09
59 17 0.01
60 15 0.01
61 7 0.00
62 34 0.02
63 72 0.04
64 71 0.04
65 9 0.01
66 4 0.00
68 22 0.01
69 12 0.01
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (54 bp):
TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
Found at i:1642770 original size:22 final size:22
Alignment explanation
Indices: 1642745--1642813 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
1642735 ATTTTAAATA
* *
1642745 ATTTATTAGTATGTATTGATTT
1 ATTTATTAATATGGATTGATTT
*
1642767 ATTT-TAAAATATGGATTGATTT
1 ATTTAT-TAATATGGATTGATTT
*
1642789 ATTT-TAAAATATGGATTGATTT
1 ATTTAT-TAATATGGATTGATTT
1642811 ATT
1 ATT
1642814 ATTGTAGTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
21 1 0.02
22 42 0.98
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (22 bp):
ATTTATTAATATGGATTGATTT
Found at i:1642912 original size:80 final size:80
Alignment explanation
Indices: 1642675--1643364 Score: 446
Period size: 80 Copynumber: 8.6 Consensus size: 80
1642665 TATTTTAAAA
1642675 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT
* *
1642740 AAATAATTTA-TTAGTATGTAT
64 --AT--TGTAGTT-GTATGGAT
1642761 TGATTTA-TTT---TAA---A--A-TATGGATTGATTTATTTTAAAATATGGATTGATTTATTAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTAT
1642816 TGTAGTTGTATGGAT
66 TGTAGTTGTATGGAT
* * *
1642831 TGATTTATTTTAAATAATTTATTAGTAAGGATTAATTTATTTTAAAATATGGATTAATTTATTAT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTAT
1642896 TGTAGTTGTATGGAT
66 TGTAGTTGTATGGAT
1642911 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT
*
1642976 AAATAATTTA-TTAGTATGGAT
64 --AT--TGTAGTT-GTATGGAT
**
1642997 TGATTTA-TTT---TAA---A--A-TATGGATTGATTTATTTTAAATAATAT--ATTAGTATGGA
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AATATGGATT-G-ATTTA
* **
1643050 TTGATT-TA-TTTTA-AAAT
62 TT-ATTGTAGTTGTATGGAT
* * * *
1643067 ATAGATTGA-TTT--ATTATTGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATG
1 -T-GATTTATTTTAAATAATT-TA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATT
* * ***
1643128 GATTGATTTATTTTA-AAATATGGAT
56 GATTTA-TTATTGTAGTTGTATGGAT
**
1643153 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAGTAGTTGTATGGATTGATTTA
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA--A--AATATGGATTGATTTA
*** *
1643218 -T-TT-TA-AAATATGGGT
62 TTATTGTAGTTGTATGGAT
* * *
1643233 TGATATATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATT
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATT
* * ***
1643298 GATTTATTTTA-AAATATGGAT
60 TA-TTATTGTAGTTGTATGGAT
1643319 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1643365 TAATTTATTA
Statistics
Matches: 506, Mismatches: 40, Indels: 118
0.76 0.06 0.18
Matches are distributed among these distances:
70 19 0.04
71 8 0.02
72 14 0.03
73 3 0.01
74 5 0.01
75 2 0.00
76 59 0.12
77 7 0.01
78 9 0.02
79 4 0.01
80 189 0.37
81 4 0.01
82 19 0.04
83 1 0.00
84 24 0.05
85 27 0.05
86 105 0.21
87 6 0.01
88 1 0.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (80 bp):
TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTAT
TGTAGTTGTATGGAT
Found at i:1642929 original size:40 final size:40
Alignment explanation
Indices: 1642807--1642934 Score: 119
Period size: 40 Copynumber: 3.2 Consensus size: 40
1642797 ATATGGATTG
1642807 ATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATA
1 ATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATA
*
1642847 ATTTATTA--GTA-----A-GGATTAATTTATTTTAAAATATGGATTA
1 ATTTATTATTGTAGTTGTATGGATTGATTTATTTT---A-A---A-TA
1642887 ATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATA
1 ATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATA
1642927 ATTTATTA
1 ATTTATTA
1642935 GTATGGATTG
Statistics
Matches: 70, Mismatches: 2, Indels: 32
0.67 0.02 0.31
Matches are distributed among these distances:
32 14 0.20
33 1 0.01
35 1 0.01
36 1 0.01
38 3 0.04
39 1 0.01
40 28 0.40
41 1 0.01
42 3 0.04
44 1 0.01
45 1 0.01
47 1 0.01
48 14 0.20
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (40 bp):
ATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATA
Found at i:1642961 original size:22 final size:22
Alignment explanation
Indices: 1642936--1642978 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1642926 AATTTATTAG
1642936 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1642958 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1642979 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1642964 original size:134 final size:134
Alignment explanation
Indices: 1642824--1644790 Score: 759
Period size: 134 Copynumber: 14.4 Consensus size: 134
1642814 ATTGTAGTTG
* *
1642824 TATGGATTGATTTATTTTAAATAATTTATTAGTAAGGATTAATTTATTTTAAAATATGGATTAAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAAT
*
1642889 TTA-TT-AT-TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA
66 TTATTTAATATTTA-TTAGTATGGATTGATTTATTTT-AATAA--TATTAGTATGGATTGATTTA
1642950 TTTTAAAA
127 TTTTAAAA
*
1642958 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAAT
* * *
1643023 TTATTTTAAATAATATATTAGTATGGATTGATTTATTTTAA-AATA-TAG-ATTGATTTA-TTAT
66 TTA-TTT-AAT-ATTTATTAGTATGGATTGATTTATTTTAATAATATTAGTATGGATTGATTTAT
* ***
1643084 TGTAGTTG
128 TTTA-AAA
*
1643092 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAAT
* *
1643157 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAGT-A-GTT-GTATGGATTGATTTAT
66 TTA-TTT-AAT-ATTTATTAGTATGGATTGATTTATTTTAATAATATTAGTATGGATTGATTTAT
1643219 TTTAAAA
128 TTTAAAA
* * *
1643226 TATGGGTTGATATATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTAT-TAG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TATGGA-
* * *
1643290 TATAGATTGATTT-AT-TTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATT
61 T-TA-ATTTATTTAATATTTATTAGTATGGATTGATTTATTTT-AATAA--TATTAGTATGGATT
1643352 GATTTATTTT-AAA
121 GATTTATTTTAAAA
** ** * ** * * * ***
1643365 TAATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTATTGTAGTTGTATG
1 T-ATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATG
* * * *
1643428 GTTTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAATAATTTATTAGTATGA
59 GATTAATTTA-TTT-AAT-ATTTATTAGTATGGATTGATTTATTTT-AATAA--TATTAGTATGG
1643493 ATTGATTTATTTTAAAA
118 ATTGATTTATTTTAAAA
* **
1643510 TATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATTA
* * * *
1643567 GTATGGATTAATTT-AT-TTTA-AAATATGGATTGATTTATTATT-GT-A-GTT-GTATGGATTG
64 --AT---TT-ATTTAATATTTATTAGTATGGATTGATTTATT-TTAATAATATTAGTATGGATTG
1643625 ATTTATTTT-AAA
122 ATTTATTTTAAAA
** ** * ** * * * * ***
1643637 TAATTTATTAGTATGGA-TTGATTTATTTTA-AAATGTGGATTGATTTATTATTGTAGTTGTATG
1 T-ATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATG
*
1643700 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTT--TAA-A--A-TATGGATT
59 GATTAATTTA-TTT-AAT-ATTTATTAGTATGGATTGATTTATTTTAATAATATTAGTATGGATT
1643758 GATTTATTTT-AAA
121 GATTTATTTTAAAA
** ** * ** * * * **
1643771 TAATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTTT-AAATAATTTAT
1 T-ATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGAT
* * * * *
1643833 TAGTATGGATTGATTT-AT-TTTA-AAATATAGATTGATTTATTATT-GT-A-GTT-GTATGGAT
62 TA--AT---TT-ATTTAATATTTATTAGTATGGATTGATTTATT-TTAATAATATTAGTATGGAT
1643891 TGATTTATTTT-AAA
120 TGATTTATTTTAAAA
* * * * * * * **
1643905 TA---ATTTA-TTAGTATAGATTGATTTATTTTAAAATATGGATTGACTTATTTT-AAATAATTT
1 TATGGATTGATTTATTTTA-AATAATTTA--TT--AGTATGGATTGATTTATTTTAAAAT-ATGG
* **
1643965 ATTAGTATGGATTGATTT-AT-TTTAGTAGTTGTATGGATTGATTTATTTTAA-AATATGGGT-T
60 ATTA--AT---TT-ATTTAATATTTA-T--TAGTATGGATTGATTTATTTTAATAATATTAGTAT
* * *
1644026 -GATTTATTTTAAATAATTTATTAG
116 GGATTGA-TTT--AT--TTTA-AAA
* *
1644050 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAAT
1644115 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATT
66 TTA-TTT-AAT-ATTTATTAGTATGGATTGATTTATTTT-AATAA--TATTAGTATGGATTGATT
1644180 TATTTTAAAA
125 TATTTTAAAA
* * *
1644190 TATAGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTAT-TA
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TATGGA
* * * *
1644247 GTATAGATTGATTT-AT-TTTA-AAATATGGATTGACTTATTTTAAATAATTTATTAGTATGGAT
61 -T-TA-ATTTATTTAATATTTATTAGTATGGATTGATTTATTTT-AATAA--TATTAGTATGGAT
**
1644309 TGATTTATTTTAGTAGTTG
120 TGATTTATTTTA--A--AA
* ** * * *
1644328 TATGAATTGATTTATTTT-AA-AA--TATGGGT-T-GATTTATTTTAAATAATTTATTAGTATGG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA-TTT--AT--TTTA-AAATATGG
* * * * *
1644387 ATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAA-AATA-T-GGATTGATTT
60 ATTAATTTA-TTT-AAT-ATTTATTAGTATGGATTGATTTATTTTAATAATATTAGTATGGATTG
* *
1644449 ATTTTAAATAATTTATTAG
122 A-TTT--AT--TTTA-AAA
*
1644468 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAAT
* * *
1644533 TTA-TT-AT-TGTAGTT-GTATGGTTTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTA
66 TTATTTAATATTTA-TTAGTATGGATTGATTTATTTT-AATAA--TATTAGTATGGATTGATTTA
1644594 TTTTAAATGATTTATTA
127 TTTT--A--A---A--A
* * * *** *
1644611 GTATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTTA-TTATTGTAGTTGTATGGATTG
1 -TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTA
* * *
1644669 ATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAA-AATA-TAG-ATTGATTTA-TT
64 ATTTA-TTT-AAT-ATTTATTAGTATGGATTGATTTATTTTAATAATATTAGTATGGATTGATTT
** ***
1644730 ATCGTAGTTG
126 ATTTTA-AAA
*
1644740 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
1644791 TTATTGTAGT
Statistics
Matches: 1433, Mismatches: 204, Indels: 391
0.71 0.10 0.19
Matches are distributed among these distances:
127 5 0.00
128 44 0.03
129 12 0.01
130 27 0.02
131 7 0.00
132 11 0.01
133 24 0.02
134 526 0.37
135 60 0.04
136 28 0.02
137 35 0.02
138 134 0.09
139 62 0.04
140 167 0.12
141 39 0.03
142 27 0.02
143 36 0.03
144 141 0.10
145 19 0.01
146 12 0.01
148 11 0.01
149 6 0.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (134 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAAT
TTATTTAATATTTATTAGTATGGATTGATTTATTTTAATAATATTAGTATGGATTGATTTATTTT
AAAA
Found at i:1642994 original size:112 final size:109
Alignment explanation
Indices: 1642878--1644823 Score: 1055
Period size: 112 Copynumber: 17.7 Consensus size: 109
1642868 TATTTTAAAA
*
1642878 TATGGATTAATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
1 TATGGATTGATTTATTATT-TA-TTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
1642943 TGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
64 TGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TAG
*** *
1642990 TATGGATTGATTTA-T-TTTAAAATATGGATTGATTTATTTTAAATAATATATTAGTATGGATTG
1 TATGGATTGATTTATTATTTATTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* * *
1643053 ATTTATTTTAAAATATAGATTGATTTATTATT--GTAGTTGTAT-G
66 ATTTATTTTAAAATATGGATTGATTTATT-TTAAATAATT-TATAG
* * * * ** *
1643096 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA-ATATGGATT-G-ATT
1 TATGGATTGA-TTT--ATTATTTATT-GTATGGATTGATTTATTTTAAATA-ATTTATTAGTATG
* * ** * * * * *
1643158 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AGT-A-GT-T-G
61 GA-TTGATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATAG
*** * *
1643204 TATGGATTGATTTA-T-TTTAAAATATGGGTTGATATATTTTAAATAATTTATTAGTATGGATTG
1 TATGGATTGATTTATTATTTATTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1643267 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT-AA-AA--TAT-G
66 ATTTATTTT-AA-AA--TA-T-G----GATTGATTTATTTTAAATAATTTATAG
* * * *
1643316 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGG
1 TATGGATTGA-TTT--ATTATTTATT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGG
* * *
1643381 ATTGATTTATTTTAAAATATGGATTGATTTATTATT--GTAGTTGTATGG
62 ATTGATTTATTTTAAAATATGGATTGATTTATT-TTAAATAATT-TATAG
* * * * *
1643429 T-TTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAATAATTTATTAGTATGA
1 TATGGATTGA-TTT--ATTATTTATT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGG
* *
1643493 ATTGATTTATTTTAAAATATGGATTGATTTATTATT--GTAGTTGTAT-G
62 ATTGATTTATTTTAAAATATGGATTGATTTATT-TTAAATAATT-TATAG
* * * * * * *
1643540 GATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTT-AA-AA--TA-T-GGATTG
1 TATGGATTGA-TTT--ATTATTTATT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGG
* * ***
1643599 ATTTA-TTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
62 ATTGATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTA-TAG
* * *
1643648 TATGGATTGATTTATT-TTAAAATG--TGGATTGATTTA--TT--AT--TGTAGTT-GTATGGAT
1 TATGGATTGATTTATTATT-TATTGTATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGAT
1643703 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TAT-G
64 TGATTTA-TTT---TAA---A--A-TATGGATTGATTTATTTTAAATAATTTATAG
* * * * ** *
1643754 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA-ATATGGATT-G-ATT
1 TATGGATTGA-TTT--ATTATTTATT-GTATGGATTGATTTATTTTAAATA-ATTTATTAGTATG
* * ** * * *
1643816 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTT--A-AA---ATA-
61 GA-TTGATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATAG
*
1643860 TA--GATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATAGAT
1 TATGGATTGATTTATTATT-TA-TTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
*
1643923 TGATTTATTTTAAAATATGGATTGACTTATTTTAAATAATTTATTAG
64 TGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TAG
**
1643970 TATGGATTGATTTATT-TTAGTAGTTGTATGGATTGATTTATTTT-AA-AA--TATGGGT-T-GA
1 TATGGATTGATTTATTATT--TA-TTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGA
* * *
1644028 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAG
63 TTGA-TTT--AT--TTTA-AAATATGGATTGATTTATTTTAAATAATTTA-TAG
* ***
1644082 TATAGATTGATTTA-T-TTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 TATGGATTGATTTATTATTTATTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
** ** * ** * * *
1644145 ATTTATTTT-AAATAATTTATTAGTATGGA-TTGATTTATTTTAAAA
66 ATTTATTTTAAAAT-ATGGATT-G-ATTTATTTTAAATAATTTATAG
* *
1644190 TATAGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATAGAT
1 TATGGATTGATTTATTATT-TA-TTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
*
1644255 TGATTTATTTTAAAATATGGATTGACTTATTTTAAATAATTTATTAG
64 TGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TAG
* **
1644302 TATGGATTGATTTATT-TTAGTAGTTGTATGAATTGATTTATTTT-AA-AA--TATGGGT-T-GA
1 TATGGATTGATTTATTATT--TA-TTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGA
* * *
1644360 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAG
63 TTGA-TTT--AT--TTTA-AAATATGGATTGATTTATTTTAAATAATTTA-TAG
* ***
1644414 TATAGATTGATTTA-T-TTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 TATGGATTGATTTATTATTTATTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
** ** * ** * * *
1644477 ATTTATTTT-AAATAATTTATTAGTATGGA-TTGATTTATTTTAAAA
66 ATTTATTTTAAAAT-ATGGATT-G-ATTTATTTTAAATAATTTATAG
* *
1644522 TATGGATTGATTTATTATTGTAGTTGTATGGTTTGATTTATTTTAAATAATTTATTAGTATGTAT
1 TATGGATTGATTTATTATT-TA-TTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
** ** * ** * * *
1644587 TGATTTATTTT-AAATGATTTATTAGTATGGA-TTGATTTATTTTAAAA
64 TGATTTATTTTAAAAT-ATGGATT-G-ATTTATTTTAAATAATTTATAG
*
1644634 TATAGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
1 TATGGATTGATTTATTATT-TA-TTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
* * * ** *
1644699 TAATTTATTTTAAAATATAGATTGATTTATTAT-CGTAGTTGTAT-G
64 TGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATT-TATAG
* * * * * *
1644744 GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT--ATTATTGTAGTT-GTAT
1 TATGGATTGA-TTT--ATTATTTATT-GTATGGATTGATTTATTTTAAATAATT-TA-TTAGTAT
1644806 GGATTGATTTATTTTAAA
60 GGATTGATTTATTTTAAA
1644824 TAATTTATTA
Statistics
Matches: 1473, Mismatches: 215, Indels: 293
0.74 0.11 0.15
Matches are distributed among these distances:
99 1 0.00
100 4 0.00
101 5 0.00
102 91 0.06
103 33 0.02
104 19 0.01
105 16 0.01
106 56 0.04
107 42 0.03
108 207 0.14
109 55 0.04
110 53 0.04
111 97 0.07
112 678 0.46
113 28 0.02
114 14 0.01
115 1 0.00
116 8 0.01
117 14 0.01
118 51 0.03
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (109 bp):
TATGGATTGATTTATTATTTATTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATAG
Found at i:1643015 original size:22 final size:22
Alignment explanation
Indices: 1642990--1643032 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1642980 AATTTATTAG
1642990 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1643012 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1643033 TAATATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1643149 original size:22 final size:22
Alignment explanation
Indices: 1643124--1643166 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1643114 AATTTATTAG
1643124 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1643146 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1643167 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1643229 original size:22 final size:22
Alignment explanation
Indices: 1643204--1643246 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1643194 TTAGTAGTTG
*
1643204 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATATATTTTAAAA
*
1643226 TATGGGTTGATATATTTTAAA
1 TATGGATTGATATATTTTAAA
1643247 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (22 bp):
TATGGATTGATATATTTTAAAA
Found at i:1643476 original size:80 final size:82
Alignment explanation
Indices: 1643012--1644790 Score: 778
Period size: 80 Copynumber: 21.6 Consensus size: 82
1643002 TATTTTAAAA
* *
1643012 TATGGATTGATTTATTTTAAATAATATATTAGTATGGATTGATTTATTTTAAAATATAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
1643077 TTATT-AT-TGTAGTT-G
66 TTATTAATATTTA-TTAG
1643092 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1643157 TTATTTTAAATAATTTATTAG
66 TTA--TT-AAT-ATTTATTAG
* * *
1643178 TATGGATTGATTTATTTT-AGT-A---GTT-GTATGGATTGATTTATTTTAAAATATGGGTTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
1643237 ATATTTTAAATAATTTATTAG
66 -T-TATT-AAT-ATTTATTAG
*
1643258 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1643323 TTATTTTAAATAATTTATTAG
66 TTA--TT-AAT-ATTTATTAG
1643344 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
1643409 TTATT-AT-TGTAGTT-G
66 TTATTAATATTTA-TTAG
* * *
1643424 TATGGTTTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTT-AAATA---ATTTAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* *
1643485 TAGTATGAATTGATTTATTTTAAAA
66 T--TATTAA-T-ATTTA--TT--AG
* **
1643510 TATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-
** * *
1643567 GTATGGATTAATTTATTT-TAAAA
63 G-ATTTATTAA--TATTTAT-TAG
*
1643590 TATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G
* * * * * *
1643648 TATGGATTGATTTAT-TTTA-AAA
59 GATTGATTTATTAATATTTATTAG
* *
1643670 TGTGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G
* * * * * *
1643728 TATGGATTGATTTAT-TTTA-AAA
59 GATTGATTTATTAATATTTATTAG
1643750 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1643815 TTATTTTAAATAATTTATTAG
66 TTA--TT-AAT-ATTTATTAG
* * * ***
1643836 TATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTTA-TTATTGTAGTTGTATGGATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTGA
1643894 TTTATTTTAAATAATTTATTAG
65 TTTA--TT-AAT-ATTTATTAG
* * * ** * * *
1643916 TATAGATTGATTTATTTTAAAATATGGATTGACTTA-TTTTAAATAATTTA--TT--AGTATGGA
1 TATGGATTGATTTATTTT-AAATA---ATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGA
* *
1643976 TTGATTTATT-TTA-GTAGTT-G
61 TTGATTTATTAATATTTA-TTAG
** * * *
1643996 TATGGATTGATTTATTTT-AA-AA--TATGGGT-T-GATTTATTTTAAATAATTTATTAGTATGG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA-TTT--AT--TTTA-AAATATGG
1644055 ATTGATTTATTTTAAATAATTTATTAG
60 ATTGATTTA--TT-AAT-ATTTATTAG
* ** ** * ** * * *
1644082 TATAGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATT
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATT
1644144 GATTTATTTTAAATAATTTATTAG
63 GATTTA--TT-AAT-ATTTATTAG
* * * ***
1644168 TATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTTA-TTATTGTAGTTGTATGGATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTGA
1644226 TTTATTTTAAATAATTTATTAG
65 TTTA--TT-AAT-ATTTATTAG
* * * ** * * *
1644248 TATAGATTGATTTATTTTAAAATATGGATTGACTTA-TTTTAAATAATTTA--TT--AGTATGGA
1 TATGGATTGATTTATTTT-AAATA---ATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGA
* *
1644308 TTGATTTATT-TTA-GTAGTT-G
61 TTGATTTATTAATATTTA-TTAG
* ** * * *
1644328 TATGAATTGATTTATTTT-AA-AA--TATGGGT-T-GATTTATTTTAAATAATTTATTAGTATGG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA-TTT--AT--TTTA-AAATATGG
1644387 ATTGATTTATTTTAAATAATTTATTAG
60 ATTGATTTA--TT-AAT-ATTTATTAG
* ** ** * ** * * *
1644414 TATAGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATT
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATT
1644476 GATTTATTTTAAATAATTTATTAG
63 GATTTA--TT-AAT-ATTTATTAG
* * * * *** *
1644500 TATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGTAGTTGTATGGTTTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTGA
1644558 TTTATTTTAAATAATTTATTAG
65 TTTA--TT-AAT-ATTTATTAG
* * *
1644580 TATGTATTGATTTATTTTAAATGATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
1644645 TTATT-AT-TGTAGTT-G
66 TTATTAATATTTA-TTAG
* *
1644660 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
**
1644725 TTATT-AT-CGTAGTT-G
66 TTATTAATATTTA-TTAG
*
1644740 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
1644791 TTATTGTAGT
Statistics
Matches: 1417, Mismatches: 137, Indels: 290
0.77 0.07 0.16
Matches are distributed among these distances:
70 6 0.00
71 10 0.01
72 4 0.00
73 2 0.00
74 2 0.00
76 6 0.00
77 6 0.00
78 7 0.00
79 13 0.01
80 727 0.51
81 39 0.03
82 45 0.03
83 8 0.01
84 45 0.03
85 35 0.02
86 401 0.28
87 13 0.01
88 6 0.00
89 6 0.00
90 22 0.02
91 14 0.01
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (82 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTAATATTTATTAG
Found at i:1643502 original size:18 final size:18
Alignment explanation
Indices: 1643447--1643503 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
1643437 ATTTTAAATA
*
1643447 ATTTATTAGTATGTATTG
1 ATTTATTAGTATGAATTG
* *
1643465 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
1643479 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
1643497 ATTTATT
1 ATTTATT
1643504 TTAAAATATG
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 9 0.30
15 1 0.03
16 2 0.07
17 1 0.03
18 17 0.57
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:1643753 original size:22 final size:22
Alignment explanation
Indices: 1643728--1643770 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1643718 AATTTATTAG
1643728 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1643750 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1643771 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1643807 original size:22 final size:22
Alignment explanation
Indices: 1643782--1643824 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1643772 AATTTATTAG
1643782 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1643804 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1643825 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1644021 original size:22 final size:22
Alignment explanation
Indices: 1643996--1644038 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1643986 TTAGTAGTTG
1643996 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
1644018 TATGGGTTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1644039 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1644353 original size:22 final size:22
Alignment explanation
Indices: 1644328--1644370 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1644318 TTAGTAGTTG
1644328 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
**
1644350 TATGGGTTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
1644371 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:1644590 original size:32 final size:32
Alignment explanation
Indices: 1644547--1644632 Score: 145
Period size: 32 Copynumber: 2.7 Consensus size: 32
1644537 TATTGTAGTT
*
1644547 GTATGGTTTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
1644579 GTATGTATTGATTTATTTTAAATGATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
1644611 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
1644633 ATATAGATTG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:1644594 original size:18 final size:18
Alignment explanation
Indices: 1644571--1644627 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
1644561 ATTTTAAATA
*
1644571 ATTTATTAGTATGTATTG
1 ATTTATTAGTATGAATTG
*
1644589 ATTTATT--T-T-AAATG
1 ATTTATTAGTATGAATTG
*
1644603 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGAATTG
1644621 ATTTATT
1 ATTTATT
1644628 TTAAAATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 10 0.32
15 1 0.03
16 2 0.06
17 1 0.03
18 17 0.55
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:1644628 original size:22 final size:23
Alignment explanation
Indices: 1644603--1644676 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 23
1644593 ATTTTAAATG
1644603 ATTTAT-TAGTATGGATTGATTT
1 ATTTATATAGTATGGATTGATTT
* * *
1644625 ATTT-TAAAATATAGATTGATTT
1 ATTTATATAGTATGGATTGATTT
* *
1644647 ATTATTGTAGTTGTATGGATTGATTT
1 A-T-TTATA-TAGTATGGATTGATTT
1644673 ATTT
1 ATTT
1644677 TAAATAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
21 1 0.03
22 18 0.45
23 1 0.03
24 4 0.10
25 3 0.08
26 13 0.32
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (23 bp):
ATTTATATAGTATGGATTGATTT
Found at i:1644785 original size:32 final size:32
Alignment explanation
Indices: 1644739--1644855 Score: 168
Period size: 32 Copynumber: 3.7 Consensus size: 32
1644729 TATCGTAGTT
1644739 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
1644771 GTATAGATTGATTTATTTT--ATTATTGTAGTT-
1 GTATGGATTGATTTATTTTAAATAATT-TA-TTA
1644802 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
1644834 GTATGAATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
1644856 ATATGGATTG
Statistics
Matches: 75, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
30 5 0.07
31 22 0.29
32 43 0.57
33 5 0.07
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:1644860 original size:22 final size:22
Alignment explanation
Indices: 1644835--1644877 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1644825 AATTTATTAG
1644835 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
1644857 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
1644878 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:1644937 original size:31 final size:31
Alignment explanation
Indices: 1644902--1644960 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1644892 AGTTGTATGG
* *
1644902 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
1644933 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
1644961 TTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:1647322 original size:64 final size:65
Alignment explanation
Indices: 1647240--1647395 Score: 219
Period size: 65 Copynumber: 2.4 Consensus size: 65
1647230 ACACCCTAAT
* *
1647240 TCGAATGCATTTTGTGTACCGATGCACAG-CCATGCATCGATGCACTCTT-GATTTTATTGAAAC
1 TCGAATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCTTGGATCTT-TTGAAAC
1647303 A
65 A
* *
1647304 TTGAATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCTTGGCTCTTTTGAAACA
1 TCGAATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCTTGGATCTTTTGAAACA
* *
1647369 TCGAATGTA-ATTAGTGTACCGATGCAC
1 TCGAATGCATTTTA-TGTACCGATGCAC
1647396 CCCAAGTGTA
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
64 30 0.37
65 48 0.59
66 4 0.05
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (65 bp):
TCGAATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCTTGGATCTTTTGAAACA
Found at i:1653210 original size:44 final size:44
Alignment explanation
Indices: 1653160--1653265 Score: 160
Period size: 44 Copynumber: 2.4 Consensus size: 44
1653150 TTTTGTGCAC
1653160 TATGCATCGATACACTATAAAAGTGTACCGATGCA-TCTCTTGAA
1 TATGCATCGATACACTATAAAAGTGTACCGATGCATTCT-TTGAA
* *
1653204 TATGCATCGATACACTATGAAGGTGTACCGATGCATTCTTTGAA
1 TATGCATCGATACACTATAAAAGTGTACCGATGCATTCTTTGAA
* *
1653248 TGTCCATCGATACACTAT
1 TATGCATCGATACACTAT
1653266 GCAGTGCATC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
44 54 0.95
45 3 0.05
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (44 bp):
TATGCATCGATACACTATAAAAGTGTACCGATGCATTCTTTGAA
Found at i:1653784 original size:13 final size:13
Alignment explanation
Indices: 1653759--1653802 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
1653749 AAAATTACAT
1653759 ATTGTTGTTCAAAC
1 ATTGTT-TTCAAAC
*
1653773 ATTGTTTTCAAAA
1 ATTGTTTTCAAAC
**
1653786 ATAATTTTCAAAC
1 ATTGTTTTCAAAC
1653799 ATTG
1 ATTG
1653803 CCCATTAGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (13 bp):
ATTGTTTTCAAAC
Found at i:1656071 original size:65 final size:65
Alignment explanation
Indices: 1655920--1656075 Score: 167
Period size: 65 Copynumber: 2.4 Consensus size: 65
1655910 ACACCCTAAT
* * * * *
1655920 TCGAATGCA-TTTTGTGTACCGATACACAGCCATGCATCGATGCACTCCTGATTTTATTGAAACA
1 TCGAATGCACATTAGTGTACCGATGCACAACCATGCATCGATGCACTCCTGATCTTATTGAAACA
* * * *
1655984 TCGAATGCACTTTA-TGTTCCGATGCACATACCATGCATCGATGCACTCCTGGCTCTT-TTGAAC
1 TCGAATGCACATTAGTGTACCGATGCACA-ACCATGCATCGATGCACTCCT-GATCTTATTGAAA
*
1656047 CG
64 CA
*
1656049 TCGAATGTA-ATTAGTGTACCGATGCAC
1 TCGAATGCACATTAGTGTACCGATGCAC
1656076 CCCAAGTGTA
Statistics
Matches: 77, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
64 24 0.31
65 49 0.64
66 4 0.05
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (65 bp):
TCGAATGCACATTAGTGTACCGATGCACAACCATGCATCGATGCACTCCTGATCTTATTGAAACA
Found at i:1657886 original size:2 final size:2
Alignment explanation
Indices: 1657879--1657911 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1657869 AAATACATAC
1657879 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1657912 ATGGGTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1660030 original size:13 final size:13
Alignment explanation
Indices: 1660012--1660036 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1660002 ATTTATTATA
1660012 AAAATTCTTTAAC
1 AAAATTCTTTAAC
1660025 AAAATTCTTTAA
1 AAAATTCTTTAA
1660037 ATGTAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATTCTTTAAC
Found at i:1660132 original size:23 final size:23
Alignment explanation
Indices: 1660092--1660168 Score: 145
Period size: 23 Copynumber: 3.3 Consensus size: 23
1660082 CAATGGTTAA
1660092 ATGTAAATTAATATAGTTTAATTT
1 ATGTAAATT-ATATAGTTTAATTT
1660116 ATGTAAATTATATAGTTTAATTT
1 ATGTAAATTATATAGTTTAATTT
1660139 ATGTAAATTATATAGTTTAATTT
1 ATGTAAATTATATAGTTTAATTT
1660162 ATGTAAA
1 ATGTAAA
1660169 GAAAAACTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 44 0.83
24 9 0.17
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (23 bp):
ATGTAAATTATATAGTTTAATTT
Found at i:1661282 original size:66 final size:66
Alignment explanation
Indices: 1661176--1661323 Score: 296
Period size: 66 Copynumber: 2.2 Consensus size: 66
1661166 CTCCGGCTCA
1661176 AAACCATACAACCAATTACGGGTTGTTACAAAAATATCAATATTTTTTGGTAATAGTGAAGCTCT
1 AAACCATACAACCAATTACGGGTTGTTACAAAAATATCAATATTTTTTGGTAATAGTGAAGCTCT
1661241 T
66 T
1661242 AAACCATACAACCAATTACGGGTTGTTACAAAAATATCAATATTTTTTGGTAATAGTGAAGCTCT
1 AAACCATACAACCAATTACGGGTTGTTACAAAAATATCAATATTTTTTGGTAATAGTGAAGCTCT
1661307 T
66 T
1661308 AAACCATACAACCAAT
1 AAACCATACAACCAAT
1661324 CATTATCCTC
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 82 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (66 bp):
AAACCATACAACCAATTACGGGTTGTTACAAAAATATCAATATTTTTTGGTAATAGTGAAGCTCT
T
Found at i:1662171 original size:73 final size:72
Alignment explanation
Indices: 1662052--1662196 Score: 236
Period size: 73 Copynumber: 2.0 Consensus size: 72
1662042 TAACAGAGGA
* *
1662052 AACGAATAAACAGTAGCTACAGAGGAGGGTATGTTTACCTCTTTCAGAATGTTCTTCATTCTGAT
1 AACGAATAAACAGTAGCTACAGAGGAGAGTATATTTACCTCTTTCAGAAT-TTCTTCATTCTGAT
1662117 TTATTGGG
65 TTATTGGG
* *
1662125 AACGAATAAACATTAGCTATAGAGGAGAGTATATTTACCTCTTTCAGAATTTCTTCATTCTGATT
1 AACGAATAAACAGTAGCTACAGAGGAGAGTATATTTACCTCTTTCAGAATTTCTTCATTCTGATT
*
1662190 TGTTGGG
66 TATTGGG
1662197 TTTTCTCCTA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
72 21 0.31
73 46 0.69
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (72 bp):
AACGAATAAACAGTAGCTACAGAGGAGAGTATATTTACCTCTTTCAGAATTTCTTCATTCTGATT
TATTGGG
Found at i:1662439 original size:12 final size:12
Alignment explanation
Indices: 1662408--1662451 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
1662398 GTTTTTTTAT
1662408 GTTCGGGTTCAG
1 GTTCGGGTTCAG
* *
1662420 ATTC-GGTTCGG
1 GTTCGGGTTCAG
*
1662431 GTTCGGGTTCAA
1 GTTCGGGTTCAG
1662443 GTTCGGGTT
1 GTTCGGGTT
1662452 TGGGTTTGAG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.09, C:0.16, G:0.39, T:0.36
Consensus pattern (12 bp):
GTTCGGGTTCAG
Found at i:1662447 original size:23 final size:24
Alignment explanation
Indices: 1662408--1662457 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
1662398 GTTTTTTTAT
1662408 GTTCGGGTTCAGATTC-GGTTCGG
1 GTTCGGGTTCAGATTCGGGTTCGG
*
1662431 GTTCGGGTTCA-AGTTCGGGTTTGG
1 GTTCGGGTTCAGA-TTCGGGTTCGG
1662455 GTT
1 GTT
1662458 TGAGTTTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 1 0.04
23 14 0.58
24 9 0.38
ACGTcount: A:0.08, C:0.14, G:0.40, T:0.38
Consensus pattern (24 bp):
GTTCGGGTTCAGATTCGGGTTCGG
Found at i:1662463 original size:18 final size:18
Alignment explanation
Indices: 1662425--1662482 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
1662415 TTCAGATTCG
* **
1662425 GTTCGGGTTCGGGTTCAA
1 GTTCGGGTTTGGGTTTGA
1662443 GTTCGGGTTTGGGTTTGA
1 GTTCGGGTTTGGGTTTGA
**
1662461 GTTTAGGTTTGGGATTTGA
1 GTTCGGGTTTGGG-TTTGA
1662480 GTT
1 GTT
1662483 TGGGGTTGAG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 26 0.76
19 8 0.24
ACGTcount: A:0.10, C:0.07, G:0.40, T:0.43
Consensus pattern (18 bp):
GTTCGGGTTTGGGTTTGA
Found at i:1662480 original size:19 final size:18
Alignment explanation
Indices: 1662448--1662483 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
1662438 TTCAAGTTCG
1662448 GGTTTGGGTTTGAGTTTA
1 GGTTTGGGTTTGAGTTTA
1662466 GGTTTGGGATTTGAGTTT
1 GGTTTGGG-TTTGAGTTT
1662484 GGGGTTGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.11, C:0.00, G:0.39, T:0.50
Consensus pattern (18 bp):
GGTTTGGGTTTGAGTTTA
Found at i:1663257 original size:20 final size:19
Alignment explanation
Indices: 1663210--1663260 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 19
1663200 CTATTTATAA
1663210 TTAATATTAATATATAATTT
1 TTAATA-TAATATATAATTT
1663230 TT-AT-TAATAT-TAACTTAT
1 TTAATATAATATATAA-TT-T
1663248 TTAATATAATATA
1 TTAATATAATATA
1663261 GTTTATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
16 3 0.12
17 8 0.31
18 3 0.12
19 4 0.15
20 8 0.31
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAATATAATATATAATTT
Found at i:1663259 original size:43 final size:42
Alignment explanation
Indices: 1663180--1663285 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 42
1663170 TTTCATCCCC
*
1663180 ATATAATTTATATTAATA--AACTATTTATAATTAATATTAAT
1 ATATAATTTTTATTAATATTAACTATTTATAATTAATA-TAAT
*
1663221 ATATAATTTTTATTAATATTAACT-TATT-TAATATAATATAGT
1 ATATAATTTTTATTAATATTAACTAT-TTATAAT-TAATATAAT
* *
1663263 TTATAATTTGTAATTAATATTAA
1 ATATAATTT-TTATTAATATTAA
1663286 TATAAAATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
41 17 0.30
42 16 0.29
43 23 0.41
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (42 bp):
ATATAATTTTTATTAATATTAACTATTTATAATTAATATAAT
Found at i:1663312 original size:31 final size:31
Alignment explanation
Indices: 1663274--1663351 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
1663264 TATAATTTGT
1663274 AATTAATATTAATATAAAATATAGTCT-ATAA
1 AATTAATATTAATATAAAATATAGT-TAATAA
* *
1663305 AATTAATATTAATATAAACTATAGTTAATAT
1 AATTAATATTAATATAAAATATAGTTAATAA
*
1663336 AATTTATATTAATATA
1 AATTAATATTAATATA
1663352 GTATATGGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 1 0.02
31 42 0.98
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (31 bp):
AATTAATATTAATATAAAATATAGTTAATAA
Found at i:1663326 original size:24 final size:25
Alignment explanation
Indices: 1663281--1663327 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
1663271 TGTAATTAAT
**
1663281 ATTAATATAAAATATAGTCTATAAA
1 ATTAATATAAAATATAAACTATAAA
*
1663306 ATTAATAT-TAATATAAACTATA
1 ATTAATATAAAATATAAACTATA
1663328 GTTAATATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTAATATAAAATATAAACTATAAA
Found at i:1663334 original size:16 final size:15
Alignment explanation
Indices: 1663208--1663351 Score: 71
Period size: 16 Copynumber: 9.0 Consensus size: 15
1663198 AACTATTTAT
1663208 AATTAATATTAATATA
1 AATT-ATATTAATATA
*
1663224 TAATTTTTATTAATATTA
1 -AA-TTATATTAATA-TA
*
1663242 ACTTAT-TTAATAT-
1 AATTATATTAATATA
* * *
1663255 AATATAGTTTATAATTTGT
1 AAT-TA-TAT-TAATAT-A
1663274 AATTAATATTAATATA
1 AATT-ATATTAATATA
*
1663290 AAATATAGTCT-ATA-A
1 AATTATA-T-TAATATA
1663305 AATTAATATTAATATA
1 AATT-ATATTAATATA
*
1663321 AACTATAGTTAATATA
1 AATTATA-TTAATATA
*
1663337 ATTTATATTAATATA
1 AATTATATTAATATA
1663352 GTATATGGTT
Statistics
Matches: 99, Mismatches: 13, Indels: 32
0.69 0.09 0.22
Matches are distributed among these distances:
13 2 0.02
14 4 0.04
15 29 0.29
16 31 0.31
17 22 0.22
18 7 0.07
19 4 0.04
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (15 bp):
AATTATATTAATATA
Found at i:1663409 original size:36 final size:35
Alignment explanation
Indices: 1663205--1663409 Score: 88
Period size: 31 Copynumber: 6.1 Consensus size: 35
1663195 ATAAACTATT
1663205 TATAATTAATATTAATATATA-A-T-T-TTTATTAA
1 TATAATTAATATTAATATATATACTATATTT-TTAA
* *
1663237 TATTAACTT-AT-TTAATATA-ATA-TA-GTTTATAA
1 TA-TAA-TTAATATTAATATATATACTATATTTTTAA
* * * *
1663269 TTTGTAATTAATATTAATATA-A-AATATA-GTCT-A
1 --TATAATTAATATTAATATATATACTATATTTTTAA
* *
1663302 TAAAATTAATATTAATATA-A-ACTATA--GTTAA
1 TATAATTAATATTAATATATATACTATATTTTTAA
* ** *
1663333 TATAATTTATATTAATATAGTATA-T-GGTTTATAGA
1 TATAATTAATATTAATATA-TATACTATATTTTTA-A
1663368 CTATAATTAATATTAATACTATATACTATATTTTTAA
1 -TATAATTAATATTAATA-TATATACTATATTTTTAA
1663405 TATAA
1 TATAA
1663410 ACTATAGTTA
Statistics
Matches: 131, Mismatches: 20, Indels: 40
0.69 0.10 0.21
Matches are distributed among these distances:
30 1 0.01
31 42 0.32
32 17 0.13
33 17 0.13
34 19 0.15
35 1 0.01
36 25 0.19
37 4 0.03
38 5 0.04
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (35 bp):
TATAATTAATATTAATATATATACTATATTTTTAA
Found at i:1663470 original size:87 final size:88
Alignment explanation
Indices: 1663313--1663473 Score: 202
Period size: 87 Copynumber: 1.8 Consensus size: 88
1663303 AAAATTAATA
* * * * *
1663313 TTAATATAAACTATAGTTAATATAATTTATATTAATATAGTATATGGTTTATAGACTATAATTAA
1 TTAATATAAACTATAGTTAATATAATTAATATTAATATAGAATATAGTTTATAAACTATAACTAA
*
1663378 TATTAATACTATATACTATATTT
66 CATTAATACTATATACTATATTT
* * *
1663401 TTAATATAAACTATAGTTAATAT-GTTAATATTAATGTA-AACTATAGTTTATAAACTATCTACT
1 TTAATATAAACTATAGTTAATATAATTAATATTAATATAGAA-TATAGTTTATAAACTAT-AACT
1663464 -ACATTAATAC
64 AACATTAATAC
1663474 AAATTATAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
86 1 0.02
87 36 0.58
88 25 0.40
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (88 bp):
TTAATATAAACTATAGTTAATATAATTAATATTAATATAGAATATAGTTTATAAACTATAACTAA
CATTAATACTATATACTATATTT
Found at i:1663487 original size:36 final size:36
Alignment explanation
Indices: 1663442--1663517 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
1663432 TAATGTAAAC
* *
1663442 TATAGTTTATAAACTATCTACTACATTAATACAAAT
1 TATAATTTATAAACTATATACTACATTAATACAAAT
* * *
1663478 TATAATTTATAAACTATATATTATATTAATATAAAT
1 TATAATTTATAAACTATATACTACATTAATACAAAT
1663514 TATA
1 TATA
1663518 GTTAAGATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.43
Consensus pattern (36 bp):
TATAATTTATAAACTATATACTACATTAATACAAAT
Found at i:1663515 original size:15 final size:15
Alignment explanation
Indices: 1663492--1663549 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
1663482 ATTTATAAAC
*
1663492 TATATATTATATTAA
1 TATAAATTATATTAA
1663507 TATAAATTATAGTTAA
1 TATAAATTATA-TTAA
* *
1663523 GAT-AATTAACATTAA
1 TATAAATT-ATATTAA
*
1663538 TATAAACTATAT
1 TATAAATTATAT
1663550 AGTACATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
15 23 0.68
16 11 0.32
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (15 bp):
TATAAATTATATTAA
Found at i:1663610 original size:57 final size:54
Alignment explanation
Indices: 1663484--1663636 Score: 166
Period size: 57 Copynumber: 2.8 Consensus size: 54
1663474 AAATTATAAT
* * * *
1663484 TTATAAACTATATATTATATTAATATAAATTATAGTTA-AGATAATTAACATTA
1 TTATAAACTATATAGTACATTAATATAAACTATAGTTATAAATAATTAACATTA
* * *
1663537 ATATAAACTATATAGTACATTAATATAAACTATAGCTTATAAATTATTTAC-TATA
1 TTATAAACTATATAGTACATTAATATAAACTATAG-TTATAAATAATTAACAT-TA
* *
1663592 GGTTATAAACTATATAGTACACTAATATAAACTATTGTTTATAAA
1 --TTATAAACTATATAGTACATTAATATAAACTATAG-TTATAAA
1663637 CTATAGGTTA
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
53 31 0.37
54 4 0.05
55 10 0.12
57 39 0.46
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (54 bp):
TTATAAACTATATAGTACATTAATATAAACTATAGTTATAAATAATTAACATTA
Found at i:1663713 original size:15 final size:14
Alignment explanation
Indices: 1663689--1663722 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
1663679 GTATATATAC
1663689 ATATACTATAGGTT
1 ATATACTATAGGTT
*
1663703 ATATACATATAGTTT
1 ATATAC-TATAGGTT
1663718 ATATA
1 ATATA
1663723 TACTATACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (14 bp):
ATATACTATAGGTT
Found at i:1663782 original size:57 final size:58
Alignment explanation
Indices: 1663636--1663787 Score: 186
Period size: 57 Copynumber: 2.6 Consensus size: 58
1663626 TTGTTTATAA
*
1663636 ACTATAGGTTACATATATAGTTTATGTA-ACATATAAATAGATTGTATATATACATAT
1 ACTATAGGTTACATATATAGTTTATGTATACATATAAATAGATTGTATACATACATAT
* * * *
1663693 ACTATAGGTTATATACATATAGTTTATATATAC-TATACATAG-TT-TATACATACATGT
1 ACTATAGGTTACAT--ATATAGTTTATGTATACATATAAATAGATTGTATACATACATAT
*
1663750 ACTATAAGTTACATATATAGTTTACATGTATACATATA
1 ACTATAGGTTACATATATAGTTT--ATGTATACATATA
1663788 TTATAGGTTA
Statistics
Matches: 81, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
55 9 0.11
57 43 0.53
58 6 0.07
59 21 0.26
60 2 0.02
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (58 bp):
ACTATAGGTTACATATATAGTTTATGTATACATATAAATAGATTGTATACATACATAT
Found at i:1664022 original size:17 final size:17
Alignment explanation
Indices: 1664000--1664065 Score: 64
Period size: 17 Copynumber: 3.8 Consensus size: 17
1663990 TAATTTACTT
1664000 TATATAGTTTATATATA
1 TATATAGTTTATATATA
*
1664017 TATATA-TATAGGTTATATA
1 TATATAGTTTA---TATATA
1664036 TATATAG-TTATATACTA
1 TATATAGTTTATATA-TA
*
1664053 TACATAGTTTATA
1 TATATAGTTTATA
1664066 CATACATGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
16 7 0.17
17 14 0.35
18 5 0.12
19 14 0.35
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (17 bp):
TATATAGTTTATATATA
Found at i:1664047 original size:21 final size:21
Alignment explanation
Indices: 1664000--1664041 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1663990 TAATTTACTT
*
1664000 TATATAGTTTATATATATATA
1 TATATAGGTTATATATATATA
1664021 TATATAGGTTATATATATATA
1 TATATAGGTTATATATATATA
1664042 GTTATATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
TATATAGGTTATATATATATA
Done.