Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 166 of 206
Found at i:50354507 original size:102 final size:101
Alignment explanation
Indices: 50354423--50354629 Score: 312
Period size: 102 Copynumber: 2.0 Consensus size: 101
50354413 ATAATTATTA
*
50354423 TTAAATATAATTTATTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTC-T-TA-GA
1 TTAAAT-TAA-TTATTAAAAA-ATATAATTTAATAAAATTATTAATATTAAATATTCTTATATGA
50354485 ATTTACTAAAATCATAATATATAATACTATAAAATATAAT
63 ATTTACTAAAATCATAATATATAATA-TATAAAATATAAT
***
50354525 TTAAATTAATTATTTTTAAATATAATTTAATAAAATTATTAATATTAAATATTCTTATATGAATT
1 TTAAATTAATTATTAAAAAATATAATTTAATAAAATTATTAATATTAAATATTCTTATATGAATT
50354590 TACTAAAATCATAATATATAATACTATAAAATATAAT
66 TACTAAAATCATAATATATAATA-TATAAAATATAAT
50354627 TTA
1 TTA
50354630 TAATCTACTT
Statistics
Matches: 98, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
99 34 0.35
100 8 0.08
101 5 0.05
102 51 0.52
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (101 bp):
TTAAATTAATTATTAAAAAATATAATTTAATAAAATTATTAATATTAAATATTCTTATATGAATT
TACTAAAATCATAATATATAATATATAAAATATAAT
Found at i:50354556 original size:99 final size:102
Alignment explanation
Indices: 50354445--50354629 Score: 340
Period size: 102 Copynumber: 1.8 Consensus size: 102
50354435 TATTAAAAAT
*
50354445 ATATAATTTAATAAAATTCTTAATATTAAATATTC-T-TA-GAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTATTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
50354507 AATACTATAAAATATAATTTAAATTAATTATTTTTAA
66 AATACTATAAAATATAATTTAAATTAATTATTTTTAA
50354544 ATATAATTTAATAAAATTATTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTATTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
50354609 AATACTATAAAATATAATTTA
66 AATACTATAAAATATAATTTA
50354630 TAATCTACTT
Statistics
Matches: 82, Mismatches: 1, Indels: 3
0.95 0.01 0.03
Matches are distributed among these distances:
99 34 0.41
100 1 0.01
101 2 0.02
102 45 0.55
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (102 bp):
ATATAATTTAATAAAATTATTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTATAAAATATAATTTAAATTAATTATTTTTAA
Found at i:50356071 original size:49 final size:49
Alignment explanation
Indices: 50356015--50356118 Score: 199
Period size: 49 Copynumber: 2.1 Consensus size: 49
50356005 AGAAAAAAAC
*
50356015 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGCTCAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
50356064 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
50356113 AAATTA
1 AAATTA
50356119 TAACACATGA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 54 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
Found at i:50359747 original size:22 final size:22
Alignment explanation
Indices: 50359718--50359765 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
50359708 ACTAAATAAG
50359718 AAAA-CGATGGAAGAAGAAGTA
1 AAAATCGATGGAAGAAGAAGTA
50359739 AAAATCGATGGAAGAAGAAGTA
1 AAAATCGATGGAAGAAGAAGTA
*
50359761 GAAAT
1 AAAAT
50359766 TACCTCTGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.56, C:0.04, G:0.27, T:0.12
Consensus pattern (22 bp):
AAAATCGATGGAAGAAGAAGTA
Found at i:50364474 original size:6 final size:6
Alignment explanation
Indices: 50364465--50364493 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
50364455 CTTCAATCTA
50364465 TCATCC TCATCC TCATCC TCATCC TCATC
1 TCATCC TCATCC TCATCC TCATCC TCATC
50364494 TTCGATCTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.48, G:0.00, T:0.34
Consensus pattern (6 bp):
TCATCC
Found at i:50365426 original size:18 final size:17
Alignment explanation
Indices: 50365389--50365427 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
50365379 TCGTCTACCC
* *
50365389 ATTAGTTTTTAATATTA
1 ATTAGTTTTTAAAATAA
50365406 ATTAGTTTTTAAAACTAA
1 ATTAGTTTTTAAAA-TAA
50365424 ATTA
1 ATTA
50365428 TTAGTCATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (17 bp):
ATTAGTTTTTAAAATAA
Found at i:50369955 original size:18 final size:19
Alignment explanation
Indices: 50369933--50369972 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
50369923 CGGTATTTCA
*
50369933 AAAAATATCGATACTTAAT
1 AAAAGTATCGATACTTAAT
50369952 AAAATGGTATCGATACTTAAT
1 AAAA--GTATCGATACTTAAT
50369973 GAGTTTGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
21 14 0.78
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (19 bp):
AAAAGTATCGATACTTAAT
Found at i:50370202 original size:22 final size:24
Alignment explanation
Indices: 50370177--50370220 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
50370167 ATTTTGTTCA
*
50370177 ATTTTAACTT-TTAT-TCAAAAAT
1 ATTTCAACTTGTTATATCAAAAAT
*
50370199 ATTTCAATTTGTTATATCAAAA
1 ATTTCAACTTGTTATATCAAAA
50370221 CATTTTATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
23 4 0.22
24 6 0.33
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTTCAACTTGTTATATCAAAAAT
Found at i:50372809 original size:21 final size:21
Alignment explanation
Indices: 50372775--50372832 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
50372765 TTAATAAAAC
*
50372775 TAAAA-TTAATAAAACATAT-T
1 TAAAATTTTATAAAA-ATATAT
*
50372795 TAAAATTTTATAAAAATGTAT
1 TAAAATTTTATAAAAATATAT
*
50372816 TAAAATTCTATAAAAAT
1 TAAAATTTTATAAAAAT
50372833 CATAAAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.24
21 25 0.76
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (21 bp):
TAAAATTTTATAAAAATATAT
Found at i:50372847 original size:29 final size:30
Alignment explanation
Indices: 50372804--50372869 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 30
50372794 TTAAAATTTT
50372804 ATAAAAATGTATTAAAATTCT-ATA-AAAATC
1 ATAAAAATGTATT-AAATT-TGATATAAAATC
*
50372834 ATAAAAAT-TATTAAATTTGATATAAAATT
1 ATAAAAATGTATTAAATTTGATATAAAATC
50372863 ATAAAAA
1 ATAAAAA
50372870 AAATCTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
27 1 0.03
28 8 0.24
29 16 0.48
30 8 0.24
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (30 bp):
ATAAAAATGTATTAAATTTGATATAAAATC
Found at i:50373012 original size:59 final size:59
Alignment explanation
Indices: 50372920--50373042 Score: 246
Period size: 59 Copynumber: 2.1 Consensus size: 59
50372910 ACTGATTAGA
50372920 TTGAAATCAACAAGGGTATTAGTCCAAAGAAAGCCATTAAATCGGTTGACCTAGGATGG
1 TTGAAATCAACAAGGGTATTAGTCCAAAGAAAGCCATTAAATCGGTTGACCTAGGATGG
50372979 TTGAAATCAACAAGGGTATTAGTCCAAAGAAAGCCATTAAATCGGTTGACCTAGGATGG
1 TTGAAATCAACAAGGGTATTAGTCCAAAGAAAGCCATTAAATCGGTTGACCTAGGATGG
50373038 TTGAA
1 TTGAA
50373043 CCGATTCTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (59 bp):
TTGAAATCAACAAGGGTATTAGTCCAAAGAAAGCCATTAAATCGGTTGACCTAGGATGG
Found at i:50373438 original size:9 final size:8
Alignment explanation
Indices: 50373426--50373518 Score: 69
Period size: 9 Copynumber: 10.5 Consensus size: 8
50373416 TTTAAATAAG
50373426 TTTTATTAA
1 TTTT-TTAA
*
50373435 TTTTGTAA
1 TTTTTTAA
50373443 TTTTTATAA
1 TTTTT-TAA
*
50373452 TTTATTAGA
1 TTTTTTA-A
50373461 TTTTTTATA
1 TTTTTTA-A
*
50373470 TTTTATAA
1 TTTTTTAA
*
50373478 TATTTATAA
1 T-TTTTTAA
50373487 GTTTTTTAA
1 -TTTTTTAA
50373496 TATTTTATAA
1 T-TTTT-TAA
50373506 TTTTTATAA
1 TTTTT-TAA
50373515 TTTT
1 TTTT
50373519 AGTAAGTTTA
Statistics
Matches: 71, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
8 12 0.17
9 54 0.76
10 5 0.07
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (8 bp):
TTTTTTAA
Found at i:50373466 original size:28 final size:26
Alignment explanation
Indices: 50373421--50373518 Score: 87
Period size: 28 Copynumber: 3.7 Consensus size: 26
50373411 AATATTTTAA
*
50373421 ATAAGTTTTATTAA-TTTTGTAATTTTT
1 ATAA-TTTTA-TAAGTTTTTTAATTTTT
*
50373448 ATAA-TTTATTAGATTTTTT-ATATTTT
1 ATAATTTTATAAG-TTTTTTAAT-TTTT
50373474 ATAATATTTATAAGTTTTTTAATATTTT
1 ATAAT-TTTATAAGTTTTTTAAT-TTTT
50373502 ATAATTTTTATAA-TTTT
1 ATAA-TTTTATAAGTTTT
50373519 AGTAAGTTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
24 2 0.03
25 6 0.10
26 13 0.21
27 14 0.23
28 25 0.41
29 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (26 bp):
ATAATTTTATAAGTTTTTTAATTTTT
Found at i:50373467 original size:19 final size:18
Alignment explanation
Indices: 50373426--50373518 Score: 68
Period size: 19 Copynumber: 5.1 Consensus size: 18
50373416 TTTAAATAAG
50373426 TTTTATTAATTT-TGTAA-T
1 TTTTA-TAATTTAT-TAATT
50373444 TTTTATAATTTATTAGATT
1 TTTTATAATTTATTA-ATT
*
50373463 TTTTATATTTTA-TAA-T
1 TTTTATAATTTATTAATT
* * *
50373479 ATTTATAAGTTTTTTAATA
1 TTTTATAA-TTTATTAATT
*
50373498 TTTTATAATTTTTATAATT
1 TTTTATAATTTAT-TAATT
50373517 TT
1 TT
50373519 AGTAAGTTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
16 7 0.11
17 12 0.20
18 17 0.28
19 25 0.41
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTATAATTTATTAATT
Found at i:50373905 original size:21 final size:19
Alignment explanation
Indices: 50373881--50373919 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
50373871 ATGAGTACAC
50373881 ATTTAATATATCTTGACTTTT
1 ATTTAATATAT-TT-ACTTTT
*
50373902 ATTTATTATATTTACTTT
1 ATTTAATATATTTACTTT
50373920 AATTAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (19 bp):
ATTTAATATATTTACTTTT
Found at i:50376598 original size:15 final size:15
Alignment explanation
Indices: 50376578--50376621 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 15
50376568 TCATTGACAG
50376578 CAACAGCAACAACAA
1 CAACAGCAACAACAA
50376593 CAACAGTAGCAACAACAA
1 CAAC---AGCAACAACAA
*
50376611 TAACAGCAACA
1 CAACAGCAACA
50376622 GCAAATGCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
15 11 0.44
18 14 0.56
ACGTcount: A:0.57, C:0.30, G:0.09, T:0.05
Consensus pattern (15 bp):
CAACAGCAACAACAA
Found at i:50376605 original size:18 final size:18
Alignment explanation
Indices: 50376582--50376616 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
50376572 TGACAGCAAC
50376582 AGCAACAACAACAACAGT
1 AGCAACAACAACAACAGT
*
50376600 AGCAACAACAATAACAG
1 AGCAACAACAACAACAG
50376617 CAACAGCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.26, G:0.11, T:0.06
Consensus pattern (18 bp):
AGCAACAACAACAACAGT
Found at i:50380627 original size:25 final size:25
Alignment explanation
Indices: 50380599--50380752 Score: 81
Period size: 25 Copynumber: 6.3 Consensus size: 25
50380589 CTTATAAGCA
*
50380599 TCCCGTTAATTGGCTCTCACGAGCT
1 TCCCGTTAATTGGCTCTCATGAGCT
* * *
50380624 TCCCAATTAA-TGGTTCTCCA-AAGCT
1 TCCC-GTTAATTGGCTCT-CATGAGCT
* * *
50380649 TCTCGAT-ATTGGCTCGCATGAGCT
1 TCCCGTTAATTGGCTCTCATGAGCT
* *
50380673 TCCC--AAATTTGGCTCTCTTGAGCT
1 TCCCGTTAA-TTGGCTCTCATGAGCT
*
50380697 TCTCGTT-A-TGGCTCGT-ATGAGCT
1 TCCCGTTAATTGGCTC-TCATGAGCT
* ** * *
50380720 TCTCAATAATTGGCTCGCAAGAGCT
1 TCCCGTTAATTGGCTCTCATGAGCT
50380745 TCCCGTTA
1 TCCCGTTA
50380753 TACAACTTAA
Statistics
Matches: 94, Mismatches: 23, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
23 21 0.22
24 32 0.34
25 35 0.37
26 6 0.06
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.34
Consensus pattern (25 bp):
TCCCGTTAATTGGCTCTCATGAGCT
Found at i:50380674 original size:24 final size:24
Alignment explanation
Indices: 50380645--50380746 Score: 100
Period size: 24 Copynumber: 4.2 Consensus size: 24
50380635 GGTTCTCCAA
50380645 AGCTTCTCGATATTGGCTCGCATG
1 AGCTTCTCGATATTGGCTCGCATG
* * * *
50380669 AGCTTC-CCAAATTTGGCTCTCTTG
1 AGCTTCTCGATA-TTGGCTCGCATG
* *
50380693 AGCTTCTCGTTA-TGGCTCGTATG
1 AGCTTCTCGATATTGGCTCGCATG
* *
50380716 AGCTTCTCAATAATTGGCTCGCAAG
1 AGCTTCTCGAT-ATTGGCTCGCATG
50380741 AGCTTC
1 AGCTTC
50380747 CCGTTATACA
Statistics
Matches: 60, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
23 20 0.33
24 23 0.38
25 17 0.28
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (24 bp):
AGCTTCTCGATATTGGCTCGCATG
Found at i:50380733 original size:48 final size:47
Alignment explanation
Indices: 50380645--50380753 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 47
50380635 GGTTCTCCAA
* * * **
50380645 AGCTTCTCGATATTGGCTCGCATGAGCTTCCCAAATTTGGCTCTCTTG
1 AGCTTCTCGTTA-TGGCTCGCATGAGCTTCCCAAAATTGGCTCGCAAG
* *
50380693 AGCTTCTCGTTATGGCTCGTATGAGCTTCTCAATAATTGGCTCGCAAG
1 AGCTTCTCGTTATGGCTCGCATGAGCTTCCCAA-AATTGGCTCGCAAG
*
50380741 AGCTTCCCGTTAT
1 AGCTTCTCGTTAT
50380754 ACAACTTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 19 0.37
48 33 0.63
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (47 bp):
AGCTTCTCGTTATGGCTCGCATGAGCTTCCCAAAATTGGCTCGCAAG
Found at i:50383948 original size:131 final size:131
Alignment explanation
Indices: 50383790--50384051 Score: 506
Period size: 131 Copynumber: 2.0 Consensus size: 131
50383780 AAAACCTTGT
* *
50383790 GTTGTTGCTTTACTTGTTGAATTCACAAAGGGATGAATTTAGTGGTGAGAGTATTGAGTTTTCAA
1 GTTGTTGCTTTACTTGTTAAATTCACAAAGGGATGAATTTAGTGGTGAGAGTATCGAGTTTTCAA
50383855 AGTACAAATGTGAGGGAAATTATCATGGGGTGTGATTGAGTAGGTTCATTTTGTGCAATTGTGAA
66 AGTACAAATGTGAGGGAAATTATCATGGGGTGTGATTGAGTAGGTTCATTTTGTGCAATTGTGAA
50383920 G
131 G
50383921 GTTGTTGCTTTACTTGTTAAATTCACAAAGGGATGAATTTAGTGGTGAGAGTATCGAGTTTTCAA
1 GTTGTTGCTTTACTTGTTAAATTCACAAAGGGATGAATTTAGTGGTGAGAGTATCGAGTTTTCAA
50383986 AGTACAAATGTGAGGGAAATTATCATGGGGTGTGATTGAGTAGGTTCATTTTGTGCAATTGTGAA
66 AGTACAAATGTGAGGGAAATTATCATGGGGTGTGATTGAGTAGGTTCATTTTGTGCAATTGTGAA
50384051 G
131 G
50384052 AGAGTAGATA
Statistics
Matches: 129, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 129 1.00
ACGTcount: A:0.28, C:0.07, G:0.29, T:0.36
Consensus pattern (131 bp):
GTTGTTGCTTTACTTGTTAAATTCACAAAGGGATGAATTTAGTGGTGAGAGTATCGAGTTTTCAA
AGTACAAATGTGAGGGAAATTATCATGGGGTGTGATTGAGTAGGTTCATTTTGTGCAATTGTGAA
G
Found at i:50393104 original size:17 final size:17
Alignment explanation
Indices: 50393082--50393115 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
50393072 CAAAGGTTCA
50393082 TTCATCTGTAGGATGCC
1 TTCATCTGTAGGATGCC
50393099 TTCATCTGTAGGATGCC
1 TTCATCTGTAGGATGCC
50393116 AAGAAAGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (17 bp):
TTCATCTGTAGGATGCC
Found at i:50393876 original size:2 final size:2
Alignment explanation
Indices: 50393864--50393899 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
50393854 GGTATAGAAA
50393864 AT AT A- 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
50393900 AAAGTAAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:50405466 original size:22 final size:22
Alignment explanation
Indices: 50405437--50405496 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
50405427 GAAAAGGTTT
*
50405437 TCTTTTTTCCTTTTTCGATTGT
1 TCTTTTTTCCTTTTTCGATTGC
* * *
50405459 TTTTTTTTTCTTTTCCGATTGC
1 TCTTTTTTCCTTTTTCGATTGC
*
50405481 TCTTCTTTCCTTTTTC
1 TCTTTTTTCCTTTTTC
50405497 TGTTTTGCTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.03, C:0.22, G:0.07, T:0.68
Consensus pattern (22 bp):
TCTTTTTTCCTTTTTCGATTGC
Found at i:50406385 original size:25 final size:26
Alignment explanation
Indices: 50406357--50406406 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
50406347 TTTAACTTGA
50406357 TTTATAGAT-TATTATTTTAAGTTTT
1 TTTATAGATATATTATTTTAAGTTTT
* *
50406382 TTTATATATCATTTTATTTTAAGTT
1 TTTATAGAT-ATATTATTTTAAGTT
50406407 ATTTCACATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
27 13 0.62
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (26 bp):
TTTATAGATATATTATTTTAAGTTTT
Found at i:50408296 original size:35 final size:34
Alignment explanation
Indices: 50408248--50408324 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 34
50408238 TATTTAGAAC
* *
50408248 ATAAAAGTGTATTTATAAATAATATACA-ATAAAAA
1 ATAAAAATATATTTATAAA-AAT-TACATATAAAAA
* * *
50408283 ATAAAAATATATTTATTAAAGTTTCATATAAAAA
1 ATAAAAATATATTTATAAAAATTACATATAAAAA
50408317 ATAAAAAT
1 ATAAAAAT
50408325 TGCTTTTGTC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
33 3 0.08
34 17 0.47
35 16 0.44
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.34
Consensus pattern (34 bp):
ATAAAAATATATTTATAAAAATTACATATAAAAA
Found at i:50410643 original size:28 final size:28
Alignment explanation
Indices: 50410595--50410661 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
50410585 GAACAAAATA
50410595 AAATAAAAACTAAACTAAAGAAAAACTT
1 AAATAAAAACTAAACTAAAGAAAAACTT
* * * *
50410623 -AATGAAAAACTAAATTGAAGATAAAGTT
1 AAAT-AAAAACTAAACTAAAGAAAAACTT
50410651 AAATAAAAACT
1 AAATAAAAACT
50410662 TGAATAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 3 0.09
28 27 0.82
29 3 0.09
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.21
Consensus pattern (28 bp):
AAATAAAAACTAAACTAAAGAAAAACTT
Found at i:50416245 original size:39 final size:40
Alignment explanation
Indices: 50416202--50416286 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
50416192 AAGGAAAAAG
* * * *
50416202 TATAATATTTACAAT-CTCATTTTTTTCACAAGGCTAAGA
1 TATAACATTTACAATCCTCATCTTTTTCACAAGACTAACA
*
50416241 TATAACATTTACAATCCTTATCTTTTTCACAAGACTAACA
1 TATAACATTTACAATCCTCATCTTTTTCACAAGACTAACA
50416281 TATAAC
1 TATAAC
50416287 CATCCCCTAG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 14 0.35
40 26 0.65
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.39
Consensus pattern (40 bp):
TATAACATTTACAATCCTCATCTTTTTCACAAGACTAACA
Found at i:50416328 original size:30 final size:30
Alignment explanation
Indices: 50416292--50416350 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
50416282 ATAACCATCC
* * *
50416292 CCTAGTTTTTATGGGTTAACTAGAACTCTT
1 CCTAGTTTTTATGGCTCAACTAAAACTCTT
*
50416322 CCTAGTTTTTGTGGCTCAACTAAAACTCT
1 CCTAGTTTTTATGGCTCAACTAAAACTCT
50416351 CCCAATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (30 bp):
CCTAGTTTTTATGGCTCAACTAAAACTCTT
Found at i:50421077 original size:35 final size:35
Alignment explanation
Indices: 50421031--50421098 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
50421021 AAAGATTAAC
*
50421031 TTTTCGATTTGGCGAGTATCCTGTTACCAAAGCGG
1 TTTTCGATTTGGCGAGTATCCTCTTACCAAAGCGG
50421066 TTTTCGATTTGGCGAGTATCCTCTTACCAAAGC
1 TTTTCGATTTGGCGAGTATCCTCTTACCAAAGC
50421099 AGTCCATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (35 bp):
TTTTCGATTTGGCGAGTATCCTCTTACCAAAGCGG
Found at i:50435561 original size:29 final size:29
Alignment explanation
Indices: 50435474--50435553 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
50435464 GTAATTTGTA
* *
50435474 TCGGTGTTCATGTTGTATTAGGCACTATGTT
1 TCGGTGTT-ATATT-TATTAGGCACTATGTG
**
50435505 TCGGTGTTATATTTATCGGGCACTATGTG
1 TCGGTGTTATATTTATTAGGCACTATGTG
50435534 TCGGTGTTATATTTATTAGG
1 TCGGTGTTATATTTATTAGG
50435554 TACCATGTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 31 0.72
30 4 0.09
31 8 0.19
ACGTcount: A:0.17, C:0.11, G:0.26, T:0.45
Consensus pattern (29 bp):
TCGGTGTTATATTTATTAGGCACTATGTG
Found at i:50464490 original size:36 final size:35
Alignment explanation
Indices: 50464419--50464490 Score: 81
Period size: 36 Copynumber: 2.0 Consensus size: 35
50464409 AGCACAATAT
* * * *
50464419 ATGGCATGATAACATATCCGCTTATTTACTGTCAC
1 ATGGCATGAAAACATACCCGCATATTCACTGTCAC
* *
50464454 ATGGCATGAAAAACATACCCTCATATTCACTTTCAC
1 ATGGCATG-AAAACATACCCGCATATTCACTGTCAC
50464490 A
1 A
50464491 ATGGTCATCA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
35 8 0.27
36 22 0.73
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
ATGGCATGAAAACATACCCGCATATTCACTGTCAC
Found at i:50487313 original size:27 final size:27
Alignment explanation
Indices: 50487279--50487387 Score: 112
Period size: 27 Copynumber: 4.0 Consensus size: 27
50487269 CACGACAATT
*
50487279 AAGAATAGCCTTTGTGGAAAAATCTGA
1 AAGAATAGCCTTTGTGGAAAACTCTGA
** *
50487306 AAGAATAGCCTTTGTGGCGAACTTTGA
1 AAGAATAGCCTTTGTGGAAAACTCTGA
* * ** *
50487333 AAGAATAGTCTTTATGGCGAACTCTAA
1 AAGAATAGCCTTTGTGGAAAACTCTGA
*
50487360 AAGAGAT-GCCTTTGTGGAAAATTCTGA
1 AAGA-ATAGCCTTTGTGGAAAACTCTGA
50487387 A
1 A
50487388 TGGATTGTCT
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
27 65 0.97
28 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (27 bp):
AAGAATAGCCTTTGTGGAAAACTCTGA
Found at i:50494506 original size:11 final size:11
Alignment explanation
Indices: 50494490--50494519 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
50494480 ATGTCAAATT
50494490 ATCAAGAATAA
1 ATCAAGAATAA
50494501 ATCAAGAATAA
1 ATCAAGAATAA
50494512 ATCAAGAA
1 ATCAAGAA
50494520 AAAAATAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.63, C:0.10, G:0.10, T:0.17
Consensus pattern (11 bp):
ATCAAGAATAA
Found at i:50500042 original size:19 final size:19
Alignment explanation
Indices: 50500018--50500083 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 19
50500008 ATATTTGTTT
50500018 TAAAAAATAAATAAATAAA
1 TAAAAAATAAATAAATAAA
*
50500037 TAAAAACAACAAATATATATAAA
1 T-AAAA-AATAAATA-A-ATAAA
* * *
50500060 TAAAAACTAATTAAAAAAA
1 TAAAAAATAAATAAATAAA
50500079 TAAAA
1 TAAAA
50500084 GAAATAATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
19 10 0.26
20 5 0.13
21 12 0.32
22 5 0.13
23 6 0.16
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (19 bp):
TAAAAAATAAATAAATAAA
Found at i:50500081 original size:23 final size:21
Alignment explanation
Indices: 50500019--50500082 Score: 58
Period size: 23 Copynumber: 2.9 Consensus size: 21
50500009 TATTTGTTTT
*
50500019 AAAA-AATAAATAAATAAATA
1 AAAACAATAAAAAAATAAATA
* *
50500039 AAAACAACAAATATATATAAATA
1 AAAACAATAAA-A-AAATAAATA
50500062 AAAACTAATTAAAAAAATAAA
1 AAAAC-AA-TAAAAAAATAAA
50500083 AGAAATAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
20 4 0.12
21 5 0.15
23 19 0.56
24 3 0.09
25 3 0.09
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAACAATAAAAAAATAAATA
Found at i:50500740 original size:21 final size:21
Alignment explanation
Indices: 50500714--50500789 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
50500704 AATCATATCT
50500714 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
50500735 TCTAAGATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
*
50500756 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
*
50500775 TCTATGATTGTATAT
1 TCTAAGATTGTATAT
50500790 CCTCGAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.35
21 32 0.65
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:50500749 original size:19 final size:19
Alignment explanation
Indices: 50500727--50500790 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
50500717 AAGATTGTAT
50500727 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
50500746 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
* *
50500767 ATATCATATCTATGATTGT
1 ATATCATATCTAAGATTGC
50500786 ATATC
1 ATATC
50500791 CTCGAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
19 22 0.54
21 19 0.46
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:50501158 original size:44 final size:44
Alignment explanation
Indices: 50501110--50501822 Score: 250
Period size: 44 Copynumber: 16.2 Consensus size: 44
50501100 TATCTTGGAA
** *
50501110 AGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** ** * * * *
50501154 AGATAAGATCTACAATCTTCAGCCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * *
50501198 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCTGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* * *
50501242 AGATAAGATTTGCCGTCTTCGATCTTCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * * * *
50501286 AGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * *
50501330 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCTGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
** **
50501374 AGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** ** * * * *
50501418 AGATAAGATCTACAATCTTCAGCCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * *
50501462 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCTGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* * * *
50501506 AGATAAGATTTGCCGTCTTCGATCTTCTCTACTACTGCTTAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * * *
50501550 AGATAAGATCTACAATCTTTAACCTACTCCGCTACTGCTTAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * *
50501594 AGACAAGACTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCTGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
50501638 AGATAAGATTTGCTGTCTTCAATCTTCTCCACTACTGGTTAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * * * * *
50501682 AGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACTCAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
** ** * * * * *
50501726 AGGCAAGGCTTGGTGGCTTAAATCTACTTCCTACTA-T-CTT-GGAA
1 AGATAAGATTTGCTGTCTTCAATCTGC-TCC-ACTACTGCTTAGG-G
* * * * *
50501770 AGATAAGATTTGCCGTCCTCGATCTACTCTACTACTGCTTAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
50501814 AGATAAGAT
1 AGATAAGAT
50501823 CTACGATCCT
Statistics
Matches: 457, Mismatches: 182, Indels: 60
0.65 0.26 0.09
Matches are distributed among these distances:
42 27 0.06
43 21 0.05
44 368 0.81
45 22 0.05
46 19 0.04
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:50501221 original size:132 final size:132
Alignment explanation
Indices: 50501070--50501868 Score: 1337
Period size: 132 Copynumber: 6.1 Consensus size: 132
50501060 TCAGGAGGAT
* * *
50501070 AAGGCTTGGTGGTTTAAATCTGCTTCTCACTATCTTGGAAAGATAAGATTTGCCATCTTCGATCT
1 AAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCT
* *
50501135 GCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCGCTGCTGCTCAGGGAG
66 TCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAG
50501200 AC
131 AC
50501202 AAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCT
1 AAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCT
50501267 TCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAG
66 TCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAG
50501332 AC
131 AC
* *
50501334 AAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCT
1 AAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCT
* *
50501399 GCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCGCTGCTGCTCAGGGAG
66 TCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAG
50501464 AC
131 AC
50501466 AAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCT
1 AAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCT
* * * *
50501531 TCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTTAACCTACTCCGCTACTGCTTAGGGAG
66 TCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAG
50501596 AC
131 AC
* * *
50501598 AAGACTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCTGTCTTCAATCT
1 AAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCT
* *
50501663 TCTCCACTACTGGTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACTCAGGGAG
66 TCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAG
*
50501728 GC
131 AC
* * *
50501730 AAGGCTTGGTGGCTTAAATCTACTTCCTACTATCTTGGAAAGATAAGATTTGCCGTCCTCGATCT
1 AAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCT
* * * * * * *
50501795 ACTCTACTACTGCTTAGGGAGATAAGATCTACGATCCTCAACCTACTCTGCTGTTACTCAGGGAG
66 TCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAG
50501860 AC
131 AC
50501862 AAGGCTT
1 AAGGCTT
50501869 AGTGTTTGAC
Statistics
Matches: 626, Mismatches: 41, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 626 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (132 bp):
AAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCT
TCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAG
AC
Found at i:50503147 original size:7 final size:7
Alignment explanation
Indices: 50503137--50503178 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
50503127 TCCATTTTAC
50503137 TTTTTCA
1 TTTTTCA
50503144 TTTTTCA
1 TTTTTCA
50503151 TTTTTCA
1 TTTTTCA
50503158 TTTTTTCA
1 -TTTTTCA
*
50503166 TTTCGTCA
1 TTT-TTCA
50503174 TTTTT
1 TTTTT
50503179 TTTTGACTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 18 0.58
8 13 0.42
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.71
Consensus pattern (7 bp):
TTTTTCA
Found at i:50503147 original size:13 final size:14
Alignment explanation
Indices: 50503129--50503161 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
50503119 TTAGCCTCTC
50503129 CATTTTAC-TTTTT
1 CATTTTACATTTTT
*
50503142 CATTTTTCATTTTT
1 CATTTTACATTTTT
50503156 CATTTT
1 CATTTT
50503162 TTCATTTCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (14 bp):
CATTTTACATTTTT
Found at i:50503155 original size:8 final size:8
Alignment explanation
Indices: 50503137--50503179 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
50503127 TCCATTTTAC
50503137 TTTTTCA-
1 TTTTTCAT
50503144 TTTTTCA-
1 TTTTTCAT
50503151 TTTTTCAT
1 TTTTTCAT
50503159 TTTTTCAT
1 TTTTTCAT
**
50503167 TTCGTCAT
1 TTTTTCAT
50503175 TTTTT
1 TTTTT
50503180 TTTGACTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
7 14 0.45
8 17 0.55
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.72
Consensus pattern (8 bp):
TTTTTCAT
Found at i:50503162 original size:15 final size:15
Alignment explanation
Indices: 50503137--50503179 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
50503127 TCCATTTTAC
50503137 TTTTTCA-TTTTTCA
1 TTTTTCATTTTTTCA
50503151 TTTTTCATTTTTTCA
1 TTTTTCATTTTTTCA
*
50503166 TTTCGTCATTTTTT
1 TTT-TTCATTTTTT
50503180 TTTGACTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 7 0.27
15 10 0.38
16 9 0.35
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.72
Consensus pattern (15 bp):
TTTTTCATTTTTTCA
Found at i:50508425 original size:4 final size:4
Alignment explanation
Indices: 50508412--50508479 Score: 52
Period size: 4 Copynumber: 17.0 Consensus size: 4
50508402 ATATTTGTTT
* *
50508412 TAAA -AAA TAAA TAAA TAAA TAAA TAAA AACAA CAAA TATATA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA-AA TAAA TA-A-A TAAA TAAA
* *
50508462 -AAC TAAT TAAA -AAA TAAA
1 TAAA TAAA TAAA TAAA TAAA
50508480 AGAAATAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
3 8 0.15
4 36 0.69
5 5 0.10
6 3 0.06
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (4 bp):
TAAA
Found at i:50509076 original size:24 final size:22
Alignment explanation
Indices: 50509029--50509078 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 22
50509019 TACAAATTAA
50509029 ATCTTTAAGATTACAAAATCAT
1 ATCTTTAAGATTACAAAATCAT
* *
50509051 ATCTTCTAAGATTGCATATATCAT
1 ATCTT-TAAGATTACA-AAATCAT
50509075 ATCT
1 ATCT
50509079 AAGATTGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.21
23 9 0.38
24 10 0.42
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.40
Consensus pattern (22 bp):
ATCTTTAAGATTACAAAATCAT
Found at i:50511676 original size:16 final size:16
Alignment explanation
Indices: 50511655--50511685 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50511645 TAAAATTTTG
50511655 AATTTTGAATTTTCAA
1 AATTTTGAATTTTCAA
50511671 AATTTTGAATTTTCA
1 AATTTTGAATTTTCA
50511686 TTTCATTGAT
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:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (16 bp):
AATTTTGAATTTTCAA
Found at i:50520809 original size:14 final size:14
Alignment explanation
Indices: 50520786--50520816 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
50520776 AAACAAAATT
50520786 TAAAAGAAAATAAA
1 TAAAAGAAAATAAA
*
50520800 TAAAATAAAATAAA
1 TAAAAGAAAATAAA
50520814 TAA
1 TAA
50520817 TGGAACGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (14 bp):
TAAAAGAAAATAAA
Found at i:50522397 original size:44 final size:44
Alignment explanation
Indices: 50522349--50522939 Score: 654
Period size: 44 Copynumber: 13.7 Consensus size: 44
50522339 TTCGATCTGC
* *
50522349 TCCACTACTGCTT-AGGGAGACAGGA-TCTACAATCTTCAACCTAT
1 TCCACTACTG-TTCAGGGAGATAGGACT-TACAATCTTCCACCTAT
* * *
50522393 TCCACTGCTGTCCAGGGATATAGGACTTACAATCTTCCACCTAT
1 TCCACTACTGTTCAGGGAGATAGGACTTACAATCTTCCACCTAT
* **
50522437 TCCACTGCTGTTCAGGGAGATAGGACTTACAGCCTTCCACCTAT
1 TCCACTACTGTTCAGGGAGATAGGACTTACAATCTTCCACCTAT
* *
50522481 TCCACTACTGTTCAGGGAGATAGGACTTATAATCTTCCACCTAC
1 TCCACTACTGTTCAGGGAGATAGGACTTACAATCTTCCACCTAT
** * * *
50522525 TCCACTGTTGTTCAGGGTGATAGGACTTAGAA-CAATCCACCTAT
1 TCCACTACTGTTCAGGGAGATAGGACTTACAATC-TTCCACCTAT
* * * * * * *
50522569 TCCACTGCTGTTCAGAGAGATAGAACTTATAGTTTTCCACTTAT
1 TCCACTACTGTTCAGGGAGATAGGACTTACAATCTTCCACCTAT
** *
50522613 TCCACTGTTGTTCAGAGAGATAGGACTTACAATCTTCCACCTAT
1 TCCACTACTGTTCAGGGAGATAGGACTTACAATCTTCCACCTAT
* **
50522657 TCCATTGTTGTTCAGGGAGATAGGACTTACAA-CATTCCACCTAT
1 TCCACTACTGTTCAGGGAGATAGGACTTACAATC-TTCCACCTAT
*
50522701 TCCACTACTATTCA-GG-G--A-GA--TAC---CTTCCACCTAT
1 TCCACTACTGTTCAGGGAGATAGGACTTACAATCTTCCACCTAT
* * * *
50522735 TCTACTGCTGTTTAGGGAGATAGGACTTACAATCTTCCATCTAT
1 TCCACTACTGTTCAGGGAGATAGGACTTACAATCTTCCACCTAT
* *
50522779 TCCACT-GTAGTTCAGGGAGATAGGACTTGCAATCTTCCACCTAT
1 TCCACTACT-GTTCAGGGAGATAGGACTTACAATCTTCCACCTAT
* * * *
50522823 TCCACTGCTGTCCAGGGAGATAGGACTTATAGTCTTCCACCTAT
1 TCCACTACTGTTCAGGGAGATAGGACTTACAATCTTCCACCTAT
*
50522867 TCCACTACTGCTCAGGGAGATAGGACTTACAATCTTCCACCTAT
1 TCCACTACTGTTCAGGGAGATAGGACTTACAATCTTCCACCTAT
* *
50522911 TCCACTGCTGTTCAGGGAGATATGACTTA
1 TCCACTACTGTTCAGGGAGATAGGACTTA
50522940 TAGTTTTACC
Statistics
Matches: 466, Mismatches: 64, Indels: 34
0.83 0.11 0.06
Matches are distributed among these distances:
34 20 0.04
35 3 0.01
36 1 0.00
37 3 0.01
38 1 0.00
39 4 0.01
40 1 0.00
41 3 0.01
42 1 0.00
43 6 0.01
44 421 0.90
45 2 0.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (44 bp):
TCCACTACTGTTCAGGGAGATAGGACTTACAATCTTCCACCTAT
Found at i:50522589 original size:132 final size:132
Alignment explanation
Indices: 50522349--50522939 Score: 751
Period size: 132 Copynumber: 4.6 Consensus size: 132
50522339 TTCGATCTGC
* * * * *
50522349 TCCACTACTGCTT-AGGGAGACAGGA-TCTACAATCTTCAACCTATTCCACTGCTGTCCAGGGAT
1 TCCACTACTG-TTCAGGGAGATAGGACT-TACAATCTTCCACCTATTCCACTGTTGTTCAGGGAG
*
50522412 ATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGATAGGACTTACAGCCTTCCAC
64 ATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGATAGGACTTATAGCCTTCCAC
50522477 CTAT
129 CTAT
* * *
50522481 TCCACTACTGTTCAGGGAGATAGGACTTATAATCTTCCACCTACTCCACTGTTGTTCAGGGTGAT
1 TCCACTACTGTTCAGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGTTGTTCAGGGAGAT
* * * * ** *
50522546 AGGACTTAGAA-CAATCCACCTATTCCACTGCTGTTCAGAGAGATAGAACTTATAGTTTTCCACT
66 AGGACTTACAATC-TTCCACCTATTCCACTGCTGTTCAGGGAGATAGGACTTATAGCCTTCCACC
50522610 TAT
130 TAT
** * *
50522613 TCCACTGTTGTTCAGAGAGATAGGACTTACAATCTTCCACCTATTCCATTGTTGTTCAGGGAGAT
1 TCCACTACTGTTCAGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGTTGTTCAGGGAGAT
* *
50522678 AGGACTTACAA-CATTCCACCTATTCCACTACTATTCA-GG-G--A-G----ATA-CCTTCCACC
66 AGGACTTACAATC-TTCCACCTATTCCACTGCTGTTCAGGGAGATAGGACTTATAGCCTTCCACC
50522732 TAT
130 TAT
* * * * *
50522735 TCTACTGCTGTTTAGGGAGATAGGACTTACAATCTTCCATCTATTCCACTGTAGTTCAGGGAGAT
1 TCCACTACTGTTCAGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGTTGTTCAGGGAGAT
* * *
50522800 AGGACTTGCAATCTTCCACCTATTCCACTGCTGTCCAGGGAGATAGGACTTATAGTCTTCCACCT
66 AGGACTTACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGATAGGACTTATAGCCTTCCACCT
50522865 AT
131 AT
* *
50522867 TCCACTACTGCTCAGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGAT
1 TCCACTACTGTTCAGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGTTGTTCAGGGAGAT
*
50522932 ATGACTTA
66 AGGACTTA
50522940 TAGTTTTACC
Statistics
Matches: 392, Mismatches: 53, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
122 98 0.25
123 6 0.02
124 1 0.00
126 1 0.00
127 1 0.00
128 1 0.00
130 1 0.00
131 7 0.02
132 275 0.70
133 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (132 bp):
TCCACTACTGTTCAGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGTTGTTCAGGGAGAT
AGGACTTACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGATAGGACTTATAGCCTTCCACCT
AT
Found at i:50522734 original size:34 final size:34
Alignment explanation
Indices: 50522691--50522756 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
50522681 ACTTACAACA
50522691 TTCCACCTATTCCACTACTATTCAGGGAGATACC
1 TTCCACCTATTCCACTACTATTCAGGGAGATACC
* * * *
50522725 TTCCACCTATTCTACTGCTGTTTAGGGAGATA
1 TTCCACCTATTCCACTACTATTCAGGGAGATA
50522757 GGACTTACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.33
Consensus pattern (34 bp):
TTCCACCTATTCCACTACTATTCAGGGAGATACC
Found at i:50524230 original size:15 final size:15
Alignment explanation
Indices: 50524200--50524242 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
50524190 CCTTAGCCTC
* *
50524200 TCCATTTTTACTTTT
1 TCCATTTTTTCATTT
50524215 TCCATTTTTTCATTT
1 TCCATTTTTTCATTT
50524230 TCATCATTTTTTC
1 TC--CATTTTTTC
50524243 GACTCAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 15 0.62
17 9 0.38
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.65
Consensus pattern (15 bp):
TCCATTTTTTCATTT
Found at i:50548258 original size:267 final size:266
Alignment explanation
Indices: 50547783--50548321 Score: 970
Period size: 267 Copynumber: 2.0 Consensus size: 266
50547773 AAGATCGAAA
* *
50547783 GATCCTTCTGGGGTATCGACTAGCTGATTGAATAAGAAACCCTAAAGTGACAGTTGGTTATGATT
1 GATCCTTCTAGGGTATCGACTAGCTGATTGAATAAGAAAACCTAAAGTGACAGTTGGTTATGATT
*
50547848 ACCAAAGCGAGCTAATCACCCTTGCTCAAATTTTACAAATTCTATTATTTAATTTCTCGTTACTT
66 ACCAAAGCGAGCTAATCACCCATGCTCAAATTTTACAAATTCTATTATTTAATTTCTCGTTACTT
50547913 ATTCTTTTATTTTTATTATTAAAAATCCCAAAAACCTTTCTTAATATTTCATCATAATATAATCT
131 ATTCTTTTATTTTTATTATTAAAAATCCCAAAAACCTTTCTTAATATTTCATCATAATATAATCT
* *
50547978 ATCTAAAGTACTAATTAGATCTATTTGTGCTTAGGTTTGGAATTAACCTAGTACTCGCATCCCTT
196 ATCTAAAGTACTAATTAGATCTATTTGTGCTTAGGTTTAGAATCAACCTAGTACTCGCATCCCTT
*
50548043 GGGTTTC
261 GGG-TAC
* *
50548050 GATCCTTCTAGGGTATCGACTAGTTGATTGAATAAGAAAACCTAAAGTGACAGTTTGTTATGATT
1 GATCCTTCTAGGGTATCGACTAGCTGATTGAATAAGAAAACCTAAAGTGACAGTTGGTTATGATT
*
50548115 ACCGAAGCGAGCTAATCACCCATGCTCAAATTTTACAAATTCTATTATTTAATTTCTCGTTACTT
66 ACCAAAGCGAGCTAATCACCCATGCTCAAATTTTACAAATTCTATTATTTAATTTCTCGTTACTT
*
50548180 ATTCTTTTCTTTTTATTATTAAAAATCCCAAAAACCTTTCTTAATATTTCATCATAATATAATCT
131 ATTCTTTTATTTTTATTATTAAAAATCCCAAAAACCTTTCTTAATATTTCATCATAATATAATCT
*
50548245 ATCTAAAGTACTAATTAGATCTATTTGTGCTTAGGTTTAGAATCAACCTAGTACTCGTATCCCTT
196 ATCTAAAGTACTAATTAGATCTATTTGTGCTTAGGTTTAGAATCAACCTAGTACTCGCATCCCTT
50548310 GGGTAC
261 GGGTAC
50548316 GATCCT
1 GATCCT
50548322 CAAAGTACTC
Statistics
Matches: 261, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
266 8 0.03
267 253 0.97
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (266 bp):
GATCCTTCTAGGGTATCGACTAGCTGATTGAATAAGAAAACCTAAAGTGACAGTTGGTTATGATT
ACCAAAGCGAGCTAATCACCCATGCTCAAATTTTACAAATTCTATTATTTAATTTCTCGTTACTT
ATTCTTTTATTTTTATTATTAAAAATCCCAAAAACCTTTCTTAATATTTCATCATAATATAATCT
ATCTAAAGTACTAATTAGATCTATTTGTGCTTAGGTTTAGAATCAACCTAGTACTCGCATCCCTT
GGGTAC
Found at i:50560360 original size:23 final size:22
Alignment explanation
Indices: 50560318--50560360 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
50560308 GAAACTAGAT
* *
50560318 AATTAAAAATAATAATATTTTA
1 AATTAAAAATAAAAAAATTTTA
50560340 AATTAAAATATAAAAAAATTT
1 AATTAAAA-ATAAAAAAATTT
50560361 AAAACGAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AATTAAAAATAAAAAAATTTTA
Found at i:50560361 original size:22 final size:22
Alignment explanation
Indices: 50560318--50560363 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
50560308 GAAACTAGAT
* *
50560318 AATTAAAAATAATAATATTTTA
1 AATTAAAAATAATAAAAATTTA
50560340 AATTAAAATATAA-AAAAATTTA
1 AATTAAAA-ATAATAAAAATTTA
50560362 AA
1 AA
50560364 ACGAGAGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AATTAAAAATAATAAAAATTTA
Found at i:50560393 original size:10 final size:10
Alignment explanation
Indices: 50560366--50560409 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
50560356 AATTTAAAAC
50560366 GAGAGAG-TT
1 GAGAGAGTTT
*
50560375 GAGAAAGTTT
1 GAGAGAGTTT
*
50560385 GAGGGAGTTT
1 GAGAGAGTTT
50560395 GAGAGAG-TT
1 GAGAGAGTTT
50560404 GAGAGA
1 GAGAGA
50560410 AGGATGTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 14 0.47
10 16 0.53
ACGTcount: A:0.34, C:0.00, G:0.43, T:0.23
Consensus pattern (10 bp):
GAGAGAGTTT
Found at i:50561066 original size:32 final size:32
Alignment explanation
Indices: 50561021--50561095 Score: 132
Period size: 32 Copynumber: 2.3 Consensus size: 32
50561011 AATTGGTTCT
* *
50561021 TGTTTTATCTAATTTGTTAATTGTTGTATTGG
1 TGTTTGATATAATTTGTTAATTGTTGTATTGG
50561053 TGTTTGATATAATTTGTTAATTGTTGTATTGG
1 TGTTTGATATAATTTGTTAATTGTTGTATTGG
50561085 TGTTTGATATA
1 TGTTTGATATA
50561096 CTTTCAAGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.21, C:0.01, G:0.20, T:0.57
Consensus pattern (32 bp):
TGTTTGATATAATTTGTTAATTGTTGTATTGG
Found at i:50563189 original size:20 final size:18
Alignment explanation
Indices: 50563164--50563207 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
50563154 TCTCAAGCTC
50563164 CTTCTTTAAATTATCTATTT
1 CTTCTTTAAA-TATCT-TTT
*
50563184 CTTCTTTCAATATCTTTT
1 CTTCTTTAAATATCTTTT
*
50563202 CCTCTT
1 CTTCTT
50563208 CTGTTTCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 5 0.23
20 9 0.41
ACGTcount: A:0.18, C:0.23, G:0.00, T:0.59
Consensus pattern (18 bp):
CTTCTTTAAATATCTTTT
Found at i:50567282 original size:17 final size:19
Alignment explanation
Indices: 50567260--50567296 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
50567250 AAGTTTAGAA
50567260 GTAAAA-AAT-TATATTAT
1 GTAAAATAATATATATTAT
50567277 GTAAAATAATATATATTAT
1 GTAAAATAATATATATTAT
50567296 G
1 G
50567297 GGCCATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
GTAAAATAATATATATTAT
Found at i:50568352 original size:29 final size:27
Alignment explanation
Indices: 50568303--50568362 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
50568293 GATTTCGCAG
* *
50568303 AAAATGGCTCATTCCGGTAAATAATAAA
1 AAAATGGCCCATTCCGATAAAT-ATAAA
* *
50568331 AAAATCGGCCCATTTCGATAAATTTAAA
1 AAAAT-GGCCCATTCCGATAAATATAAA
50568359 AAAA
1 AAAA
50568363 AAAGGGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.25
Consensus pattern (27 bp):
AAAATGGCCCATTCCGATAAATATAAA
Found at i:50572899 original size:14 final size:14
Alignment explanation
Indices: 50572880--50572911 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
50572870 AATATTATTT
50572880 ATTTAATTTAAATA
1 ATTTAATTTAAATA
50572894 ATTTAATTTAAATA
1 ATTTAATTTAAATA
50572908 ATTT
1 ATTT
50572912 TTTCAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTTAATTTAAATA
Found at i:50589406 original size:13 final size:14
Alignment explanation
Indices: 50589376--50589416 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
50589366 TTTATAGATA
50589376 CAGATA-GCAGAAT
1 CAGATATGCAGAAT
*
50589389 CAGATATGCAGAGT
1 CAGATATGCAGAAT
*
50589403 -AGATATACAGAAT
1 CAGATATGCAGAAT
50589416 C
1 C
50589417 CTACCCCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.20
Consensus pattern (14 bp):
CAGATATGCAGAAT
Found at i:50591541 original size:16 final size:16
Alignment explanation
Indices: 50591502--50591532 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50591492 TCTATTTTTG
*
50591502 ATATTTTCATATATAC
1 ATATATTCATATATAC
50591518 ATATATTCATATATA
1 ATATATTCATATATA
50591533 TATTTATTCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATATTCATATATAC
Found at i:50596278 original size:6 final size:6
Alignment explanation
Indices: 50596278--50596353 Score: 100
Period size: 6 Copynumber: 12.7 Consensus size: 6
50596268 AAAAAACAAA
50596278 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAAT-
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
** * *
50596325 AAATAAA AAAATC AAAGTC AAAAGC AAAA
1 AAA-ATC AAAATC AAAATC AAAATC AAAA
50596354 AAGAGAAATC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
5 3 0.05
6 56 0.90
7 3 0.05
ACGTcount: A:0.70, C:0.13, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAATC
Found at i:50599521 original size:16 final size:16
Alignment explanation
Indices: 50599497--50599534 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
50599487 TCTATTTTTG
*
50599497 ATATTTTCATATATAC
1 ATATATTCATATATAC
*
50599513 ATATATTCATATATAT
1 ATATATTCATATATAC
50599529 ATATAT
1 ATATAT
50599535 ATATTCGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATATTCATATATAC
Found at i:50602590 original size:895 final size:896
Alignment explanation
Indices: 50600860--50602653 Score: 3221
Period size: 895 Copynumber: 2.0 Consensus size: 896
50600850 ATTATTGTAA
*
50600860 ATTGAATTTTATATTTTGTCATCATATTGCATGAAGGCTATTTTGGTTTTACCCCTCTAAGTGGG
1 ATTGAATTTTATATTTTGTCATCATATTGCATGAAGGCTATTTTGGTCTTACCCCTCTAAGTGGG
* *
50600925 AGTGAGAAGCTACTCCTTCGTGAGGTTTTCACCTCCGTGCAGGATAGTGGATCACTTTCGGGATA
66 AGTGAGAAGCTACTCCTTCGCGAGGTTTTCACCTCCGTGCAAGATAGTGGATCACTTTCGGGATA
50600990 CATCCGTACCTATGTCTTCGTGAGATTTTCATCTCCGTGCAGCCATAGGGAAATGTATTCCCCTG
131 CATCCGTACCTATGTCTTCGTGAGATTTTCATCTCCGTGCAGCCATAGGGAAATGTATTCCCCTG
* *
50601055 AACCGAACTCGGTCTGTATGAGCCTATAATGGGTGAGGATCGAGGAATCTACTGGTTCAAGTTCC
196 AACCGAACTCGGTCTGTATGAGCCTATAATGGGTGAGGATCGAGGAATCTACTAGTTCAAGTACC
*
50601120 TTGACTTTAGAACCAAACCTCATATAGTGGACTTAGGAACTTAACCTAGGTAGAGCCACTCCAAA
261 TTGACTTTAGAACCAAACCTCATATAGTCGACTTAGGAACTTAACCTAGGTAGAGCCACTCCAAA
* **
50601185 TCCCTAGTGGTTACCTAATTAGGTACTTTCTGTTTTCCTTTTTTACTTCTGTTTTGTACTAACCC
326 TCCCTAGTGGTTACCTAATTAGGTACTTTCTGTTTTCCTTGTTTACTTCCATTTTGTACTAACCC
50601250 CTTTTGCTGTGTTTTGATTGTGATTGCATTGCATTTGCATCTTAGGAAAGAGATATTGATTCAAG
391 CTTTTGCTGTGTTTTGATTGTGATTGCATTGCATTTGCATCTTAGGAAAGAGATATTGATTCAAG
50601315 TCCAATTACTAAATTAGAAAGCTTGTCATGGAATACGGATTCCTTGATAAAGTGGAAAACAATAC
456 TCCAATTACTAAATTAGAAAGCTTGTCATGGAATACGGATTCCTTGATAAAGTGGAAAACAATAC
*
50601380 GGCTACCTTAACATATTCTGAAAAACACATGGAAGAGTTCGTGACCTTGCTTCGTAGCCTAAGAA
521 AGCTACCTTAACATATTCTGAAAAACACATGGAAGAGTTCGTGACCTTGCTTCGTAGCCTAAGAA
*
50601445 TTCAAGGCGATTGTCTAAGAGCCTTCGACATTCCAAGGAAGCTGATGAGCCTTATGAAGATGGGC
586 TTCAAGGCGATTGTCTAAGAGCCATCGACATTCCAAGGAAGCTGATGAGCCTTATGAAGATGGGC
50601510 AAATGATAGATCGAGACCAAGATCAAGAAAAGGATCTAGCAATGGCATCTATTGGAAATTGGCGA
651 AAATGATAGATCGAGACCAAGATCAAGAAAAGGATCTAGCAATGGCATCTATTGGAAATTGGCGA
* * *
50601575 GATTGTCTCAAAAATGCGGATGAAGAAAAAGATCGATGTTGTCTCTTGGAATATAAGGGCGAAGC
716 GATTGTCTCAAAAATGCGGACGAAGAAAAAGATCGATGTTGTCTCTTGGAAGATAAAGGCGAAGC
* *
50601640 CGTACATGCCTTTGCTTTATGTAAAGGAATTTTCTTTCTAAAAAAGTTTCCTAAATGTAATTGAA
781 CGTACATGCCTCTGCTTTATGTAAAGGAATTTGCTTTCTAAAAAAGTTTCCTAAATGTAATTGAA
*
50601705 TTAGAATCAACGTCTCTTTAGGCATGCATTTCATACATCTGCACCGTATGC
846 TCAGAATCAACGTCTCTTTAGGCATGCATTTCATACATCTGCACCGTATGC
*
50601756 ATTGAATTTTATATTTTTTCATCATATTGCATGAAGGCTATTTTGGTCTTACCCCTCTAAGTGGG
1 ATTGAATTTTATATTTTGTCATCATATTGCATGAAGGCTATTTTGGTCTTACCCCTCTAAGTGGG
*
50601821 AGTGAGAAGCTACTCCTTTGCGAGGTTTTCACCTCCGTGCAAGATAGTGGATCACTTTCGGGATA
66 AGTGAGAAGCTACTCCTTCGCGAGGTTTTCACCTCCGTGCAAGATAGTGGATCACTTTCGGGATA
* * *
50601886 CATCCGTACCTATGTCTTCGTGAGATTTTCATCTCTGTGCAGCCATTGGGAAATGTATTCTCCTG
131 CATCCGTACCTATGTCTTCGTGAGATTTTCATCTCCGTGCAGCCATAGGGAAATGTATTCCCCTG
* * **
50601951 AGCCGAACTCGGTCTGTATGAGCCTATAATGGGTGAGGATCGAGGAATCTGCTAGTTCGGGTACC
196 AACCGAACTCGGTCTGTATGAGCCTATAATGGGTGAGGATCGAGGAATCTACTAGTTCAAGTACC
*
50602016 TTGACTTTAGAACCAAACCTTATATAGTCGACTTAGGAACTTAACCTAGGTAGAGCCACTCCAAA
261 TTGACTTTAGAACCAAACCTCATATAGTCGACTTAGGAACTTAACCTAGGTAGAGCCACTCCAAA
* *
50602081 TCCCTAGTGGTTAGCTGATTAGGTACTTTCTGTTTTCCTTGTTTACTTCCATTTTGTACTAACCC
326 TCCCTAGTGGTTACCTAATTAGGTACTTTCTGTTTTCCTTGTTTACTTCCATTTTGTACTAACCC
*
50602146 CTTTTGCTGTGTTTTGATT-TTATTGCATTGCATTTGCATCTTAGGAAAGAGATATTGATTCAAG
391 CTTTTGCTGTGTTTTGATTGTGATTGCATTGCATTTGCATCTTAGGAAAGAGATATTGATTCAAG
50602210 TCCAATTACTAAATTAGAAAGCTTGTCATGGAATACGGATTCCTTGATAAAGTGGAAAACAATAC
456 TCCAATTACTAAATTAGAAAGCTTGTCATGGAATACGGATTCCTTGATAAAGTGGAAAACAATAC
* *
50602275 AGCTACCTTAATATATTCTGAAAAACACATGGGAGAGTTCGTGACCTTGCTTCGTAGCCTAAGAA
521 AGCTACCTTAACATATTCTGAAAAACACATGGAAGAGTTCGTGACCTTGCTTCGTAGCCTAAGAA
* * *
50602340 TTCAAGGCGATTGTCTAAGAGCCATCGACGTTCCAAGGAAGTTGATGAGCCTTATGGAGATGGGC
586 TTCAAGGCGATTGTCTAAGAGCCATCGACATTCCAAGGAAGCTGATGAGCCTTATGAAGATGGGC
*
50602405 AAATGATAGATCGCGACCAAGATCAAGAAAAGGATCTAGCAATGGCATCTATTGGAAATTGGCGA
651 AAATGATAGATCGAGACCAAGATCAAGAAAAGGATCTAGCAATGGCATCTATTGGAAATTGGCGA
* * *
50602470 GATTGTCTCAAACATGTGGACGAAGAAAAAGATCGATGTTGTCTCTTGGAAGATAAAGGTGAAGC
716 GATTGTCTCAAAAATGCGGACGAAGAAAAAGATCGATGTTGTCTCTTGGAAGATAAAGGCGAAGC
*
50602535 CGTACATGCCTCTGCTTTATGTAAAGGAATTTGCTTTCTAGAAAAGTTTCCTAAATGTAATTGAA
781 CGTACATGCCTCTGCTTTATGTAAAGGAATTTGCTTTCTAAAAAAGTTTCCTAAATGTAATTGAA
50602600 TCAGAATCAACGTCTCTTTAGGCATGCATTTCATACATCTGCACCGTATGC
846 TCAGAATCAACGTCTCTTTAGGCATGCATTTCATACATCTGCACCGTATGC
50602651 ATT
1 ATT
50602654 AAAATCCATT
Statistics
Matches: 858, Mismatches: 40, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
895 470 0.55
896 388 0.45
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (896 bp):
ATTGAATTTTATATTTTGTCATCATATTGCATGAAGGCTATTTTGGTCTTACCCCTCTAAGTGGG
AGTGAGAAGCTACTCCTTCGCGAGGTTTTCACCTCCGTGCAAGATAGTGGATCACTTTCGGGATA
CATCCGTACCTATGTCTTCGTGAGATTTTCATCTCCGTGCAGCCATAGGGAAATGTATTCCCCTG
AACCGAACTCGGTCTGTATGAGCCTATAATGGGTGAGGATCGAGGAATCTACTAGTTCAAGTACC
TTGACTTTAGAACCAAACCTCATATAGTCGACTTAGGAACTTAACCTAGGTAGAGCCACTCCAAA
TCCCTAGTGGTTACCTAATTAGGTACTTTCTGTTTTCCTTGTTTACTTCCATTTTGTACTAACCC
CTTTTGCTGTGTTTTGATTGTGATTGCATTGCATTTGCATCTTAGGAAAGAGATATTGATTCAAG
TCCAATTACTAAATTAGAAAGCTTGTCATGGAATACGGATTCCTTGATAAAGTGGAAAACAATAC
AGCTACCTTAACATATTCTGAAAAACACATGGAAGAGTTCGTGACCTTGCTTCGTAGCCTAAGAA
TTCAAGGCGATTGTCTAAGAGCCATCGACATTCCAAGGAAGCTGATGAGCCTTATGAAGATGGGC
AAATGATAGATCGAGACCAAGATCAAGAAAAGGATCTAGCAATGGCATCTATTGGAAATTGGCGA
GATTGTCTCAAAAATGCGGACGAAGAAAAAGATCGATGTTGTCTCTTGGAAGATAAAGGCGAAGC
CGTACATGCCTCTGCTTTATGTAAAGGAATTTGCTTTCTAAAAAAGTTTCCTAAATGTAATTGAA
TCAGAATCAACGTCTCTTTAGGCATGCATTTCATACATCTGCACCGTATGC
Found at i:50605252 original size:12 final size:12
Alignment explanation
Indices: 50605230--50605293 Score: 62
Period size: 11 Copynumber: 5.4 Consensus size: 12
50605220 GGATTCAGAT
*
50605230 TCAATAAAAAAA
1 TCAAAAAAAAAA
50605242 -CAAAAAAAAAA
1 TCAAAAAAAAAA
**
50605253 TCAAAATCAAAA
1 TCAAAAAAAAAA
50605265 TCAAAAACAAAAA
1 TCAAAAA-AAAAA
50605278 --AAAAGAAAAAA
1 TCAAAA-AAAAAA
50605289 TCAAA
1 TCAAA
50605294 GTCAAAAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
11 19 0.45
12 16 0.38
13 7 0.17
ACGTcount: A:0.78, C:0.11, G:0.02, T:0.09
Consensus pattern (12 bp):
TCAAAAAAAAAA
Found at i:50605300 original size:12 final size:12
Alignment explanation
Indices: 50605237--50605276 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
50605227 GATTCAATAA
* *
50605237 AAAAACAAAAAA
1 AAAATCAAAAAC
*
50605249 AAAATCAAAATC
1 AAAATCAAAAAC
50605261 AAAATCAAAAAC
1 AAAATCAAAAAC
50605273 AAAA
1 AAAA
50605277 AAAAAGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.80, C:0.12, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAATCAAAAAC
Found at i:50605307 original size:36 final size:37
Alignment explanation
Indices: 50605236--50605307 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 37
50605226 AGATTCAATA
**
50605236 AAAAAACAAAAAAAAAATCAAAATCAAAATCAAAAAC
1 AAAAAACAAAAAAAAAATCAAAATCAAAAGAAAAAAC
* *
50605273 AAAAAA-AAAGAAAAAATCAAAGTCAAAAGAAAAAA
1 AAAAAACAAAAAAAAAATCAAAATCAAAAGAAAAAA
50605308 AGAGAAATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 25 0.81
37 6 0.19
ACGTcount: A:0.79, C:0.10, G:0.04, T:0.07
Consensus pattern (37 bp):
AAAAAACAAAAAAAAAATCAAAATCAAAAGAAAAAAC
Found at i:50605325 original size:30 final size:29
Alignment explanation
Indices: 50605238--50605336 Score: 101
Period size: 30 Copynumber: 3.3 Consensus size: 29
50605228 ATTCAATAAA
* *
50605238 AAAACAAAAAAAAA-ATCAAAATCAAAATC
1 AAAACAAAAAAAAAGA-AAAAATCAAAGTC
50605267 AAAAACAAAAAAAAAGAAAAAATCAAAGTC
1 -AAAACAAAAAAAAAGAAAAAATCAAAGTC
* * * *
50605297 AAAAGAAAAAAAGAGAAATCAATTAAAGTC
1 AAAACAAAAAAAAAGAAA-AAATCAAAGTC
*
50605327 AAAATAAAAA
1 AAAACAAAAA
50605337 TATGAAAAAG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
29 16 0.27
30 43 0.72
31 1 0.02
ACGTcount: A:0.75, C:0.09, G:0.06, T:0.10
Consensus pattern (29 bp):
AAAACAAAAAAAAAGAAAAAATCAAAGTC
Found at i:50607886 original size:44 final size:44
Alignment explanation
Indices: 50607813--50608331 Score: 266
Period size: 44 Copynumber: 11.1 Consensus size: 44
50607803 AGATCACATT
* * *
50607813 AGATTGAAGCCAGGAAT-CTCATCTTCCTGAGATTACAGTGGAGC
1 AGATTGAAGCTAGTAATCCT-ATCTCCCTGAGATTACAGTGGAGC
50607857 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGC
1 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGC
** * * *
50607901 AGATT-AAAATAAAG-GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATC
1 AGATTGAAGCT--AGTAATCCTATCTCCCTGAGA-TTACAGT---G--GA--G---C
* * *
50607955 AGATTGAAGCCAGAAAT-CTCATCTCCCTGAGATTACAGCGGAGC
1 AGATTGAAGCTAGTAATCCT-ATCTCCCTGAGATTACAGTGGAGC
*
50607999 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGT
1 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGC
* ** * * *
50608043 GGATT-AAAATAAAG-GATCTTATCTCTCTGA-AGTTACAGTAGTGTAGATCACATC
1 AGATTGAAGCT--AGTAATCCTATCTCCCTGAGA-TTACAGT-G-G-AG-------C
* * * *
50608097 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGC
1 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGC
* *
50608141 ATATTGAAGCTAGTAATCCTATCTCCCTGAGAATACAGTGGAGC
1 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGC
* ** * * * * *
50608185 TGATT-AAAATAAAG-GATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATC
1 AGATTGAAGCT--AGTAATCCTATCTCCCTG-AG--AT--TACAGT-G---G-AGC
* ** * *
50608239 AGATTGAAGCCAAAAATCTTATCTCCCTGAGAATACAGTGGAGC
1 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGC
50608283 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGC
1 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGC
*
50608327 GGATT
1 AGATT
50608332 AAAATAAATG
Statistics
Matches: 361, Mismatches: 65, Indels: 98
0.69 0.12 0.19
Matches are distributed among these distances:
43 11 0.03
44 224 0.62
45 14 0.04
46 1 0.00
47 5 0.01
48 1 0.00
49 14 0.04
50 1 0.00
51 5 0.01
52 1 0.00
53 10 0.03
54 66 0.18
55 8 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGC
Found at i:50607888 original size:142 final size:142
Alignment explanation
Indices: 50607671--50608361 Score: 1141
Period size: 142 Copynumber: 4.9 Consensus size: 142
50607661 TACAGTGGAG
* * * *
50607671 CAGATTGAAGCCAGAAATATTTTCTCCCTGAGATTACAGCGGAGTAGA-TGAAGCTATTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * *
50607735 ATCTCCTTGAGATTACAGTGGATCGGACTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
50607800 AGTAGATCACAT
131 AGTAGATCACAT
* * * * *
50607812 TAGATTGAAGCCAGGAATCTCATCTTCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
50607877 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
50607942 AGTAGATCGCAT
131 AGTAGATCACAT
*
50607954 CAGATTGAAGCCAGAAATCTCATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
50608019 ATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
50608084 TGTAGATCACAT
131 AGTAGATCACAT
*
50608096 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCATATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * *
50608161 ATCTCCCTGAGAATACAGTGGAGCTGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
50608226 AGTAGATCGCAT
131 AGTAGATCACAT
* * *
50608238 CAGATTGAAGCCAAAAATCTTATCTCCCTGAGAATACAGTGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
50608303 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTA
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTA
50608362 NNNNNNNNNN
Statistics
Matches: 512, Mismatches: 37, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
141 40 0.08
142 472 0.92
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCACAT
Found at i:50607893 original size:98 final size:94
Alignment explanation
Indices: 50607807--50608184 Score: 227
Period size: 98 Copynumber: 4.0 Consensus size: 94
50607797 TAGAGTAGAT
*
50607807 CACATTAGATTGAAGCCAGGAATCTCATCTTCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA
1 CACATTAGATTGAAGCCAGGAATCTCATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA
50607872 ATCCTATCTCCCTGAGATTACAGT-GGAG
66 ATCCTATCTCCCTGAGATTACAGTAGGAG
* * * * *
50607900 CAGATTAAAAT-AA---AGG-ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGAT
1 CACATTAGATTGAAGCCAGGAATCTCATCTCCCTGAGA-TTACAGT---G--GA--G---CAGAT
* * *
50607959 TGAAGCCAGAAAT-CTCATCTCCCTGAGATTACAG-CGGAG
55 TGAAGCTAGTAATCCT-ATCTCCCTGAGATTACAGTAGGAG
* * ** **
50607998 --C---AGATTGAAGCTAGTAATC-CTATCTCCCTGAGATTACAGTGGAGTGGATT-AAAATAAA
1 CACATTAGATTGAAGCCAGGAATCTC-ATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT--A
* * *
50608056 G-GATCTTATCTCTCTGA-AGTTACAGTAGTGTAG
63 GTAATCCTATCTCCCTGAGA-TTACAGTAG-G-AG
* * * * *
50608089 ATCACATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCATATTGAAGCTAG
1 --CACATTAGATTGAAGCCAGGAATCTCATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAG
*
50608154 TAATCCTATCTCCCTGAGAATACAGT-GGAG
64 TAATCCTATCTCCCTGAGATTACAGTAGGAG
50608184 C
1 C
50608185 TGATTAAAAT
Statistics
Matches: 211, Mismatches: 36, Indels: 76
0.65 0.11 0.24
Matches are distributed among these distances:
87 4 0.02
88 40 0.19
89 7 0.03
90 1 0.00
91 4 0.02
92 2 0.01
93 16 0.08
94 2 0.01
95 5 0.02
96 1 0.00
97 7 0.03
98 117 0.55
99 5 0.02
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (94 bp):
CACATTAGATTGAAGCCAGGAATCTCATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA
ATCCTATCTCCCTGAGATTACAGTAGGAG
Found at i:50608350 original size:44 final size:44
Alignment explanation
Indices: 50608253--50608356 Score: 120
Period size: 44 Copynumber: 2.4 Consensus size: 44
50608243 TGAAGCCAAA
** *
50608253 AATCTTATCTCCCTGAGAATACAGTGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGAATACAGTGGAGCAGATTGAAAATAAT
* * *
50608297 AATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAT
1 AATCTTATCTCCCTGAGAATACAGTGGAGCAGATTGAAAAT-AAT
* *
50608341 GATCTTATCTCTCTGA
1 AATCTTATCTCCCTGA
50608357 AGTTANNNNN
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 3 0.06
44 47 0.94
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGAATACAGTGGAGCAGATTGAAAATAAT
Found at i:50608540 original size:50 final size:50
Alignment explanation
Indices: 50608499--50608678 Score: 204
Period size: 50 Copynumber: 3.6 Consensus size: 50
50608489 GTAGAGCAGG
50608499 TTAAAGCCACATCGGTGAATCTTACTTCCCCGAAATTGCAGTTAAAAAGA
1 TTAAAGCCACATCGGTGAATCTTACTTCCCCGAAATTGCAGTTAAAAAGA
* * * * * ** * *
50608549 TTAAAGCCACAGCAGCGAATCTTACCTCCCTGGCGA-TGCAGTGGAATAA-A
1 TTAAAGCCACATCGGTGAATCTTACTTCCC-CGAAATTGCAGT-TAAAAAGA
* * *
50608599 TGAAAGCCACATCGGTGAATCTTGCTTCCCCGATATTGCAGTTAAAAAGA
1 TTAAAGCCACATCGGTGAATCTTACTTCCCCGAAATTGCAGTTAAAAAGA
50608649 TTAAAGCCACAGT-GGTGAATCTTACTTCCC
1 TTAAAGCCACA-TCGGTGAATCTTACTTCCC
50608679 TAGCGGTGCA
Statistics
Matches: 103, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
49 6 0.06
50 90 0.87
51 7 0.07
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (50 bp):
TTAAAGCCACATCGGTGAATCTTACTTCCCCGAAATTGCAGTTAAAAAGA
Found at i:50608637 original size:100 final size:100
Alignment explanation
Indices: 50608501--50608754 Score: 323
Period size: 100 Copynumber: 2.5 Consensus size: 100
50608491 AGAGCAGGTT
50608501 AAAGCCACATCGGTGAATCTTACTTCCCCGAAATTGCAGTTAAAAAGATTAAAGCCACAGCAGCG
1 AAAGCCACATCGGTGAATCTTACTTCCCCGAAATTGCAGTTAAAAAGATTAAAGCCACAGCAGCG
*
50608566 AATCTTACCTCCCTGGCGATGCAGTGGAATAAATG
66 AATCTTACCTCCCTAGCGATGCAGTGGAATAAATG
* * ** *
50608601 AAAGCCACATCGGTGAATCTTGCTTCCCCGATATTGCAGTTAAAAAGATTAAAGCCACAGTGGTG
1 AAAGCCACATCGGTGAATCTTACTTCCCCGAAATTGCAGTTAAAAAGATTAAAGCCACAGCAGCG
* * *
50608666 AATCTTACTTCCCTAGCGGTGCAGTGGAATAGATTG
66 AATCTTACCTCCCTAGCGATGCAGTGGAATA-AATG
* * * * * * **
50608702 -AAGCTACAACAGCGAATCTTACTTCCTCGACATCACAGTTAAACAA-ATTAAAG
1 AAAGCCACATCGGTGAATCTTACTTCCCCGAAATTGCAGTTAAA-AAGATTAAAG
50608755 TTATGAGTTA
Statistics
Matches: 134, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
100 129 0.96
101 5 0.04
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (100 bp):
AAAGCCACATCGGTGAATCTTACTTCCCCGAAATTGCAGTTAAAAAGATTAAAGCCACAGCAGCG
AATCTTACCTCCCTAGCGATGCAGTGGAATAAATG
Found at i:50608689 original size:50 final size:50
Alignment explanation
Indices: 50608465--50608727 Score: 167
Period size: 50 Copynumber: 5.3 Consensus size: 50
50608455 NNNNNNNGGC
* * ** *
50608465 GAATCCTACTTCCCTAGTGGTGCAG-TAGAGCAGGTTAAAGCCACATCGGT
1 GAATCTTACTTCCCTAGCGGTGCAGTTA-AAAAGATTAAAGCCACATCGGT
* *** * * *
50608515 GAATCTTACTTCCC-CGAAATTGCAGTTAAAAAGATTAAAGCCACAGCAGC
1 GAATCTTACTTCCCTAG-CGGTGCAGTTAAAAAGATTAAAGCCACATCGGT
* * * * * *
50608565 GAATCTTACCTCCCTGGCGATGCAGTGGAATAA-ATGAAAGCCACATCGGT
1 GAATCTTACTTCCCTAGCGGTGCAGT-TAAAAAGATTAAAGCCACATCGGT
* * ***
50608615 GAATCTTGCTTCCC-CGATATTGCAGTTAAAAAGATTAAAGCCACAGT-GGT
1 GAATCTTACTTCCCTAG-CGGTGCAGTTAAAAAGATTAAAGCCACA-TCGGT
** * * * * * *
50608665 GAATCTTACTTCCCTAGCGGTGCAGTGGAATAGATTGAAGCTACAACAGC
1 GAATCTTACTTCCCTAGCGGTGCAGTTAAAAAGATTAAAGCCACATCGGT
50608715 GAATCTTACTTCC
1 GAATCTTACTTCC
50608728 TCGACATCAC
Statistics
Matches: 160, Mismatches: 44, Indels: 18
0.72 0.20 0.08
Matches are distributed among these distances:
49 6 0.04
50 145 0.91
51 9 0.06
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (50 bp):
GAATCTTACTTCCCTAGCGGTGCAGTTAAAAAGATTAAAGCCACATCGGT
Found at i:50609770 original size:25 final size:25
Alignment explanation
Indices: 50609742--50609792 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
50609732 CATGAAACGA
50609742 CACCGTTTAGGGCCTACCACAGTGG
1 CACCGTTTAGGGCCTACCACAGTGG
*
50609767 CACCGTTTAGGGCCTACCTCAGTGG
1 CACCGTTTAGGGCCTACCACAGTGG
50609792 C
1 C
50609793 CCTAAAACGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.18, C:0.33, G:0.27, T:0.22
Consensus pattern (25 bp):
CACCGTTTAGGGCCTACCACAGTGG
Found at i:50610333 original size:16 final size:16
Alignment explanation
Indices: 50610309--50610339 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50610299 TTTATTTTTG
*
50610309 ATATTTTCATATATAC
1 ATATATTCATATATAC
50610325 ATATATTCATATATA
1 ATATATTCATATATA
50610340 TATTCGTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATATTCATATATAC
Found at i:50614392 original size:21 final size:21
Alignment explanation
Indices: 50614366--50614410 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
50614356 ATGCAATGAT
*
50614366 AAAAATACCAATGAAATGT-CC
1 AAAAATACAAAT-AAATGTACC
*
50614387 AAAAATGCAAATAAATGTACC
1 AAAAATACAAATAAATGTACC
50614408 AAA
1 AAA
50614411 TACAAGCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.58, C:0.16, G:0.09, T:0.18
Consensus pattern (21 bp):
AAAAATACAAATAAATGTACC
Found at i:50626246 original size:20 final size:21
Alignment explanation
Indices: 50626209--50626248 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
50626199 ATTTCTTTTA
*
50626209 TTTTTAATTTCCATTTATTTC
1 TTTTTAATTGCCATTTATTTC
*
50626230 TTTTTAATTGCTA-TTATTT
1 TTTTTAATTGCCATTTATTT
50626249 AATGTTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.20, C:0.10, G:0.03, T:0.68
Consensus pattern (21 bp):
TTTTTAATTGCCATTTATTTC
Found at i:50636411 original size:2 final size:2
Alignment explanation
Indices: 50636404--50636452 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
50636394 GAGAGCTTCT
50636404 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
50636446 TC TC TC T
1 TC TC TC T
50636453 TTTTGCTTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:50645436 original size:50 final size:50
Alignment explanation
Indices: 50645361--50645543 Score: 285
Period size: 50 Copynumber: 3.6 Consensus size: 50
50645351 TACACGGAAT
* * * *
50645361 CACTTATCATTTATCTCTTCTCACTGATCAGATAAGTGTAGCTAAGCTAC
1 CACTTATCACTTATCACTTGTCACTAATCAGATAAGTGTAGCTAAGCTAC
* *
50645411 CACTTATCACTTATCACTTGTCACTGATCAGATAAATGTAGCTAAGCTAC
1 CACTTATCACTTATCACTTGTCACTAATCAGATAAGTGTAGCTAAGCTAC
*
50645461 CACTTATCACCTATCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTATCACTTGTCACTAATCAGATAAGTGTAGCT-AAGCTAC
*
50645512 CACTTATCACTTGTCACTTGTCACTAATCAGA
1 CACTTATCACTTATCACTTGTCACTAATCAGA
50645544 AGCACTCAAA
Statistics
Matches: 123, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 86 0.70
51 37 0.30
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (50 bp):
CACTTATCACTTATCACTTGTCACTAATCAGATAAGTGTAGCTAAGCTAC
Found at i:50651257 original size:22 final size:24
Alignment explanation
Indices: 50651224--50651270 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
50651214 TACTTGTATT
*
50651224 TCTATTTTATTTTTTTCA-TTATA
1 TCTATTTTATTTTTATCATTTATA
50651247 TCTA-TTTATTTTTATCATTTATA
1 TCTATTTTATTTTTATCATTTATA
50651270 T
1 T
50651271 AAATAATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (24 bp):
TCTATTTTATTTTTATCATTTATA
Found at i:50655862 original size:24 final size:24
Alignment explanation
Indices: 50655835--50655880 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
50655825 AGAACAATCC
*
50655835 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGGAAATGAAGGAGCAGCTT
* *
50655859 CAAAAGTAAATGAATGAGCAGC
1 CAAAAGGAAATGAAGGAGCAGC
50655881 AAAAGATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.26, T:0.13
Consensus pattern (24 bp):
CAAAAGGAAATGAAGGAGCAGCTT
Found at i:50664067 original size:44 final size:45
Alignment explanation
Indices: 50664016--50664143 Score: 156
Period size: 45 Copynumber: 2.9 Consensus size: 45
50664006 GATCGCATCT
50664016 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TGGACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATGG-CA
50664060 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTAAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAAGATGGCA
* * * * *
50664105 AATCTCATCTCCATGAAGTTGTAGTGGAGCAGATTAAAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
50664144 CCGATAATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
43 3 0.04
44 30 0.41
45 34 0.47
46 6 0.08
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATGGCA
Found at i:50664224 original size:217 final size:214
Alignment explanation
Indices: 50663846--50664255 Score: 633
Period size: 217 Copynumber: 1.9 Consensus size: 214
50663836 TAACAGATCG
* *
50663846 AGTCTTATCCTCCTGAAGTGCAGTGAGGCAGACTAAAGATGACAAATTTTATCTCCTGAAGTTAC
1 AGTCTTATCCTCCTGAAGTGCAGTGAGGCAGACTAAAGATGACAAATCTCATCTCCTGAAGTTAC
* * **
50663911 AGTGGAGCAGATTAAAGTCGGTAATCCTATCTCGCTAAAGTTGCAGTGAGCGGATTAAAACCTTA
66 AGTGGAGCAGATTAAAGCCGATAATCCTATCTCGCTAAAGTTAAAGTGAGCGGATTAAAACCTTA
50663976 AATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGT
131 AATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGT
50664041 GGAGCAGACTAAGTGGACA
196 GGAGCAGACTAAGTGGACA
*
50664060 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTCATCTCCATGAAGTT
1 AGTCTTATCCTCCTGAAG-TGCAGTGAGGCAGACTAAAGATGACAAATCTCATCTCC-TGAAGTT
** *
50664125 GTAGTGGAGCAGATTAAAGCCGATAATCCTATCTTC-CTAAAGTTAAAGTGGAGTGGATTAAAAC
64 ACAGTGGAGCAGATTAAAGCCGATAATCCTATC-TCGCTAAAGTTAAAGT-GAGCGGATTAAAAC
** * * * *
50664189 CTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGTATTTAGTCTTATCTCCTTGAAGTTG
127 CTTAAATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTG
50664254 CA
192 CA
50664256 CCAGGAGTGG
Statistics
Matches: 176, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
214 18 0.10
215 35 0.20
216 47 0.27
217 76 0.43
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (214 bp):
AGTCTTATCCTCCTGAAGTGCAGTGAGGCAGACTAAAGATGACAAATCTCATCTCCTGAAGTTAC
AGTGGAGCAGATTAAAGCCGATAATCCTATCTCGCTAAAGTTAAAGTGAGCGGATTAAAACCTTA
AATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGT
GGAGCAGACTAAGTGGACA
Found at i:50664909 original size:22 final size:24
Alignment explanation
Indices: 50664876--50664922 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
50664866 TACTTGTATT
*
50664876 TCTATTTTATTTTTTTCA-TTATA
1 TCTATTTTATTTTTATCATTTATA
50664899 TCTA-TTTATTTTTATCATTTATA
1 TCTATTTTATTTTTATCATTTATA
50664922 T
1 T
50664923 AAATAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (24 bp):
TCTATTTTATTTTTATCATTTATA
Found at i:50672125 original size:43 final size:43
Alignment explanation
Indices: 50672072--50672202 Score: 131
Period size: 43 Copynumber: 3.1 Consensus size: 43
50672062 CTACTTAAGA
* * *
50672072 CTTAGTTTTCTCGATTGCAATCTTATTTCAGTTCATTTCTTTC
1 CTTAGGTTTCTCAATTGCAATTTTATTTCAGTTCATTTCTTTC
** * * * *
50672115 CTTAGGTTTCTCAATTGTGATTTTATTTCACTTTACTTCATTTT
1 CTTAGGTTTCTCAATTGCAATTTTATTTCAGTTCATTTC-TTTC
* * *
50672159 TTTTGG-TT-TCAATTGCAATTTTATTTCAGTTGATTTCTTTC
1 CTTAGGTTTCTCAATTGCAATTTTATTTCAGTTCATTTCTTTC
50672200 CTT
1 CTT
50672203 TCTAGAATAC
Statistics
Matches: 69, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
41 5 0.07
42 24 0.35
43 33 0.48
44 7 0.10
ACGTcount: A:0.17, C:0.17, G:0.10, T:0.56
Consensus pattern (43 bp):
CTTAGGTTTCTCAATTGCAATTTTATTTCAGTTCATTTCTTTC
Found at i:50677833 original size:59 final size:59
Alignment explanation
Indices: 50677731--50677848 Score: 193
Period size: 59 Copynumber: 2.0 Consensus size: 59
50677721 TTTTCATCAT
50677731 TTAACTACTGGATTTTTCGATTTAGTCACTTAGTTTCTCAAAATTAAATATTCTAGTCG
1 TTAACTACTGGATTTTTCGATTTAGTCACTTAGTTTCTCAAAATTAAATATTCTAGTCG
* * *
50677790 TTAACTATTGGATTTTTCGATTTAGTCACTTCA-TTTTTTAAAATTAAATATTCTAGTCG
1 TTAACTACTGGATTTTTCGATTTAGTCACTT-AGTTTCTCAAAATTAAATATTCTAGTCG
50677849 CTATTGGATT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 54 0.98
60 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.47
Consensus pattern (59 bp):
TTAACTACTGGATTTTTCGATTTAGTCACTTAGTTTCTCAAAATTAAATATTCTAGTCG
Found at i:50679339 original size:25 final size:25
Alignment explanation
Indices: 50679287--50679484 Score: 173
Period size: 25 Copynumber: 7.9 Consensus size: 25
50679277 GATTACCTGA
* * * * *
50679287 AAAGCTTTTATGGCAATTTCTTTGG
1 AAAGCCTTTGTGGCAAATTCTCTAG
*
50679312 AAAGCCTTTGTTGCAAATTCTCTAG
1 AAAGCCTTTGTGGCAAATTCTCTAG
**
50679337 AAAGATTTTGTGG-AGAATTCTCTAG
1 AAAGCCTTTGTGGCA-AATTCTCTAG
* ** * * *
50679362 AAAGCCTTTGTAGTGAACTATCTGG
1 AAAGCCTTTGTGGCAAATTCTCTAG
** * *
50679387 AAAGCCTTTGTGGTGAATTCTTTGG
1 AAAGCCTTTGTGGCAAATTCTCTAG
* * *
50679412 AAAACCTTTGTGGGAAACTCTCTAG
1 AAAGCCTTTGTGGCAAATTCTCTAG
*
50679437 AAAGCCTTTGTGGCAAACTCTCTAG
1 AAAGCCTTTGTGGCAAATTCTCTAG
*
50679462 AAAGCCTTTGTGGCGAATTCTCT
1 AAAGCCTTTGTGGCAAATTCTCT
50679485 TAAATGCTTT
Statistics
Matches: 141, Mismatches: 30, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
24 1 0.01
25 140 0.99
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (25 bp):
AAAGCCTTTGTGGCAAATTCTCTAG
Found at i:50679422 original size:75 final size:75
Alignment explanation
Indices: 50679311--50679482 Score: 204
Period size: 75 Copynumber: 2.3 Consensus size: 75
50679301 AATTTCTTTG
* * * * * *
50679311 GAAAGCCTTTGTTGCAAATTCTCTAGAAAGA-TTTTGT-GGAGAATTCTCTAGAAAGCCTTTGTA
1 GAAAGCCTTTGTGGCGAATTCTTTGGAAA-ACCTTTGTGGGA-AACTCTCTAGAAAGCCTTTGTA
** *
50679374 GTGAACTATCTG
64 GCAAACTATCTA
* *
50679386 GAAAGCCTTTGTGGTGAATTCTTTGGAAAACCTTTGTGGGAAACTCTCTAGAAAGCCTTTGTGGC
1 GAAAGCCTTTGTGGCGAATTCTTTGGAAAACCTTTGTGGGAAACTCTCTAGAAAGCCTTTGTAGC
*
50679451 AAACTCTCTA
66 AAACTATCTA
50679461 GAAAGCCTTTGTGGCGAATTCT
1 GAAAGCCTTTGTGGCGAATTCT
50679483 CTTAAATGCT
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
74 1 0.01
75 78 0.95
76 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (75 bp):
GAAAGCCTTTGTGGCGAATTCTTTGGAAAACCTTTGTGGGAAACTCTCTAGAAAGCCTTTGTAGC
AAACTATCTA
Found at i:50701119 original size:41 final size:41
Alignment explanation
Indices: 50701072--50701159 Score: 131
Period size: 41 Copynumber: 2.1 Consensus size: 41
50701062 GTTTTTCATT
50701072 TTAACGTCACAAAAGGTAAAGCAATAGCAATGTTTTACCCA
1 TTAACGTCACAAAAGGTAAAGCAATAGCAATGTTTTACCCA
* * * *
50701113 TTAACGTCACAAAAGGTAAAGTAATAGTAGTGTTTTTCCCA
1 TTAACGTCACAAAAGGTAAAGCAATAGCAATGTTTTACCCA
*
50701154 TAAACG
1 TTAACG
50701160 CCATGAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (41 bp):
TTAACGTCACAAAAGGTAAAGCAATAGCAATGTTTTACCCA
Found at i:50711548 original size:42 final size:43
Alignment explanation
Indices: 50711500--50711583 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
50711490 TTTCTTGCGA
* *
50711500 CGTTTGTAAAAAAA-CGTTC-CTAAAAATCATGTTCTTTATCGG
1 CGTTTGTAAAAAAAGC-ATCGCTAAAAATCATGTTCTATATCGG
* *
50711542 CGTTTGTAATAAAAGCATCGCTAAAGATCATGTTCTATATCG
1 CGTTTGTAAAAAAAGCATCGCTAAAAATCATGTTCTATATCG
50711584 ACATTTTTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 15 0.42
43 21 0.58
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (43 bp):
CGTTTGTAAAAAAAGCATCGCTAAAAATCATGTTCTATATCGG
Found at i:50711572 original size:43 final size:43
Alignment explanation
Indices: 50711519--50711623 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
50711509 AAAAACGTTC
* * * * * * *
50711519 CTAAAAATCATGTTCTTTATCGGCGTTTGTAATAAAAGCATCG
1 CTAAAGATCATGTTCTATATCGACATTTGTAAGAAAAGCACCA
* * *
50711562 CTAAAGATCATGTTCTATATCGACATTTTTAGGAAAAGCGCCA
1 CTAAAGATCATGTTCTATATCGACATTTGTAAGAAAAGCACCA
50711605 CTAAAGATCATGTTCTATA
1 CTAAAGATCATGTTCTATA
50711624 GTGGTGTTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.33
Consensus pattern (43 bp):
CTAAAGATCATGTTCTATATCGACATTTGTAAGAAAAGCACCA
Found at i:50716457 original size:24 final size:24
Alignment explanation
Indices: 50716430--50716485 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
50716420 ACCAAGGAGT
*
50716430 CCACTCAAGTTGCTACTAAAGCAC
1 CCACTCAACTTGCTACTAAAGCAC
* * *
50716454 CCACTCAACTTGCTGCTGAGGCAC
1 CCACTCAACTTGCTACTAAAGCAC
*
50716478 CTACTCAA
1 CCACTCAA
50716486 ACTGCTAGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.36, G:0.14, T:0.21
Consensus pattern (24 bp):
CCACTCAACTTGCTACTAAAGCAC
Found at i:50722640 original size:28 final size:28
Alignment explanation
Indices: 50722600--50722657 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
50722590 TCATTTGATC
50722600 CTTGGTTTAATATCCATTTAAGACATTG
1 CTTGGTTTAATATCCATTTAAGACATTG
50722628 CTTGGTTTAATATCCATTTAAGACATTG
1 CTTGGTTTAATATCCATTTAAGACATTG
50722656 CT
1 CT
50722658 CAATTCTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (28 bp):
CTTGGTTTAATATCCATTTAAGACATTG
Found at i:50726607 original size:17 final size:17
Alignment explanation
Indices: 50726587--50726621 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
50726577 TAGTAGCTAA
50726587 AATGCTATAGTACAAGG
1 AATGCTATAGTACAAGG
50726604 AATGCTATAGTACAAGG
1 AATGCTATAGTACAAGG
50726621 A
1 A
50726622 CTAAGTACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (17 bp):
AATGCTATAGTACAAGG
Found at i:50733125 original size:26 final size:26
Alignment explanation
Indices: 50733087--50733156 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
50733077 AAATATATTG
* * * *
50733087 TACTGGTAACTTTGCTGTGATACTGT
1 TACTGGCAGCTTTGCTGCGATACTAT
50733113 TACTGGCAGCTTTGCTGCGATACTAT
1 TACTGGCAGCTTTGCTGCGATACTAT
50733139 TACTGGCAGCTTTGCTGC
1 TACTGGCAGCTTTGCTGC
50733157 AATATTGGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.37
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGATACTAT
Found at i:50735961 original size:27 final size:27
Alignment explanation
Indices: 50735918--50736048 Score: 136
Period size: 27 Copynumber: 4.9 Consensus size: 27
50735908 GGCATTTTGT
* *
50735918 TAGCCTTTTTGACGAACTCTGAAAGAA
1 TAGCCTTTGTGGCGAACTCTGAAAGAA
* * * *
50735945 TAGTCTTTGTGGTGAACTTTGAAAAAA
1 TAGCCTTTGTGGCGAACTCTGAAAGAA
*** * * *
50735972 TATTATTTGTGGCGAGCTTTGAAATAA
1 TAGCCTTTGTGGCGAACTCTGAAAGAA
* *
50735999 TAGCCTTTATGGCAAACTCTGAAAGAA
1 TAGCCTTTGTGGCGAACTCTGAAAGAA
50736026 TAGCCTTTGTGGCGAACTCTGAA
1 TAGCCTTTGTGGCGAACTCTGAA
50736049 TGGACTAACT
Statistics
Matches: 83, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (27 bp):
TAGCCTTTGTGGCGAACTCTGAAAGAA
Found at i:50739446 original size:30 final size:30
Alignment explanation
Indices: 50739412--50739635 Score: 136
Period size: 30 Copynumber: 7.5 Consensus size: 30
50739402 CTACCATCGG
* *
50739412 ACTATGAAAAGGGATGGTTTCGGCTATTGA
1 ACTATGAAAAGGGATGGCTTCGACTATTGA
* * ** * *
50739442 ACTATGGAAAGAGATAACTTCAACTA-TCA
1 ACTATGAAAAGGGATGGCTTCGACTATTGA
* * *
50739471 ATTTATGAAAAGGGATGGCTTCGGCTA-TCA
1 A-CTATGAAAAGGGATGGCTTCGACTATTGA
* **
50739501 ATCTATGAAAAGGGATAGCTTC-AGCTATCAA
1 A-CTATGAAAAGGGATGGCTTCGA-CTATTGA
* * *
50739532 ATTATGAAAAGGGATGG-TGACGACCATTGA
1 ACTATGAAAAGGGATGGCT-TCGACTATTGA
* **
50739562 ACTATGAAAAGGGATGG-TGACGACTATCAA
1 ACTATGAAAAGGGATGGCT-TCGACTATTGA
* * * * *
50739592 ATTATGAAAAGGGATAGCTTCGCCCATCGA
1 ACTATGAAAAGGGATGGCTTCGACTATTGA
50739622 ACTATG-AAAGGGAT
1 ACTATGAAAAGGGAT
50739636 AACTTTGGTT
Statistics
Matches: 151, Mismatches: 37, Indels: 13
0.75 0.18 0.06
Matches are distributed among these distances:
29 12 0.08
30 135 0.89
31 4 0.03
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.25
Consensus pattern (30 bp):
ACTATGAAAAGGGATGGCTTCGACTATTGA
Found at i:50739479 original size:60 final size:60
Alignment explanation
Indices: 50739414--50739640 Score: 237
Period size: 60 Copynumber: 3.8 Consensus size: 60
50739404 ACCATCGGAC
* * * * *
50739414 TATGAAAAGGGATGGTTTCGGCTATTGAACTATGGAAAGAGATAACTTCAACTATCAATT
1 TATGAAAAGGGATGGCTTCGGCCATTGAACTATGAAAAGGGATAACTTCAACTATCAAAT
* * * *
50739474 TATGAAAAGGGATGGCTTCGGCTA-TCAATCTATGAAAAGGGATAGCTTCAGCTATCAAAT
1 TATGAAAAGGGATGGCTTCGGCCATTGAA-CTATGAAAAGGGATAACTTCAACTATCAAAT
* * ** * *
50739534 TATGAAAAGGGATGG-TGACGACCATTGAACTATGAAAAGGGAT-GGTGACGACTATCAAAT
1 TATGAAAAGGGATGGCT-TCGGCCATTGAACTATGAAAAGGGATAACT-TCAACTATCAAAT
* * *
50739594 TATGAAAAGGGATAGCTTCGCCCATCGAACTATG-AAAGGGATAACTT
1 TATGAAAAGGGATGGCTTCGGCCATTGAACTATGAAAAGGGATAACTT
50739641 TGGTTACTGA
Statistics
Matches: 139, Mismatches: 22, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
59 14 0.10
60 121 0.87
61 4 0.03
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.26
Consensus pattern (60 bp):
TATGAAAAGGGATGGCTTCGGCCATTGAACTATGAAAAGGGATAACTTCAACTATCAAAT
Found at i:50745290 original size:14 final size:15
Alignment explanation
Indices: 50745255--50745295 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
50745245 ATAAGCAAGG
* *
50745255 AAATAAAAGCAAATT
1 AAATAAATGAAAATT
50745270 AAATAAATGAAAATT
1 AAATAAATGAAAATT
50745285 -AATAAATGAAA
1 AAATAAATGAAA
50745296 TAATTGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.22
Consensus pattern (15 bp):
AAATAAATGAAAATT
Found at i:50750071 original size:41 final size:41
Alignment explanation
Indices: 50750014--50750091 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
50750004 AATTGAGTTG
*
50750014 TTATGGCGGTGTATTGTATTGGGCCTTG-GACCTAGCAAGCT
1 TTATGGCGGTGTATTGTATCGGGCCTTGAG-CCTAGCAAGCT
* *
50750055 TTATGTCGGTGTATTGTGTCGGGCCTTGAGCCTAGCA
1 TTATGGCGGTGTATTGTATCGGGCCTTGAGCCTAGCA
50750092 GGCCTCGTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 32 0.97
42 1 0.03
ACGTcount: A:0.15, C:0.18, G:0.32, T:0.35
Consensus pattern (41 bp):
TTATGGCGGTGTATTGTATCGGGCCTTGAGCCTAGCAAGCT
Found at i:50750123 original size:38 final size:38
Alignment explanation
Indices: 50750073--50750214 Score: 135
Period size: 38 Copynumber: 3.7 Consensus size: 38
50750063 GTGTATTGTG
* * *
50750073 TCGGGCCTTGAGCCTAGCAGGCCTCGTACCAGTGTTTA
1 TCGGGCTTTGAGCCTAGCAGGCTTCGTACCAGTGTTAA
* * * * **
50750111 TCGGGCTTTGAGCCTAGCAAGCTTCATGCTAGTGACCAA
1 TCGGGCTTTGAGCCTAGCAGGCTTCGTACCAGTG-TTAA
*
50750150 TCGGGCTTTGAGCCTAGCAGGCTTCGTACC-GATGTTCA
1 TCGGGCTTTGAGCCTAGCAGGCTTCGTACCAG-TGTTAA
* *
50750188 TCTGGC-TTGATGCCTAGTAGGCTTCGT
1 TCGGGCTTTGA-GCCTAGCAGGCTTCGT
50750215 GCTGGTGTAA
Statistics
Matches: 83, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
37 4 0.05
38 50 0.60
39 29 0.35
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.29
Consensus pattern (38 bp):
TCGGGCTTTGAGCCTAGCAGGCTTCGTACCAGTGTTAA
Found at i:50753807 original size:27 final size:27
Alignment explanation
Indices: 50753769--50753839 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
50753759 CAGAACAACC
* * *
50753769 ACTATGCAAACAAGTCATTATGTATCG
1 ACTAAGCAAACAAGTCATTATGCATCA
50753796 ACTAAGCAAACAAGTCATTATGCATCA
1 ACTAAGCAAACAAGTCATTATGCATCA
*
50753823 ACTAAGCAAACATGTCA
1 ACTAAGCAAACAAGTCA
50753840 CATATTCATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (27 bp):
ACTAAGCAAACAAGTCATTATGCATCA
Found at i:50754401 original size:35 final size:36
Alignment explanation
Indices: 50754357--50754433 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 36
50754347 ATATTCATTG
* * *
50754357 CATATTTACTATCCCATGGTATGAA-AACATACCCA
1 CATATTTACTATCACATGGCATGAATAACATACCAA
* *
50754392 CATATTTACTCTCACATGGCATGAATATCATACCAA
1 CATATTTACTATCACATGGCATGAATAACATACCAA
50754428 CATATT
1 CATATT
50754434 CTCTTTCACA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 22 0.61
36 14 0.39
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.31
Consensus pattern (36 bp):
CATATTTACTATCACATGGCATGAATAACATACCAA
Found at i:50758655 original size:13 final size:13
Alignment explanation
Indices: 50758646--50758681 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
50758636 TCATTTCGTA
50758646 TAACCATTTCATC
1 TAACCATTTCATC
*
50758659 TAAACATTTCATC
1 TAACCATTTCATC
*
50758672 TTACCATTTC
1 TAACCATTTC
50758682 GTTTACACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.42
Consensus pattern (13 bp):
TAACCATTTCATC
Found at i:50761537 original size:30 final size:30
Alignment explanation
Indices: 50761503--50761562 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
50761493 ACTAATTTAA
50761503 CATTCATTTAACTTAGAAGATTAAATGTGC
1 CATTCATTTAACTTAGAAGATTAAATGTGC
*
50761533 CATTCATTTACCTTAGAAGATTAAATGTGC
1 CATTCATTTAACTTAGAAGATTAAATGTGC
50761563 ATCAATTAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (30 bp):
CATTCATTTAACTTAGAAGATTAAATGTGC
Found at i:50762054 original size:17 final size:16
Alignment explanation
Indices: 50762034--50762074 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
50762024 AAAGGCAAAG
50762034 GTGAATGAAGAAATGAA
1 GTGAATGAAGAAATG-A
*
50762051 GTGAAAGAAGAAATGA
1 GTGAATGAAGAAATGA
50762067 GTGAATGA
1 GTGAATGA
50762075 TGAATGGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.51, C:0.00, G:0.32, T:0.17
Consensus pattern (16 bp):
GTGAATGAAGAAATGA
Found at i:50780346 original size:7 final size:7
Alignment explanation
Indices: 50780330--50780358 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
50780320 GTGTTGCAAC
50780330 TTTC-TT
1 TTTCTTT
50780336 TTTCTTT
1 TTTCTTT
50780343 TTTCTTT
1 TTTCTTT
50780350 TTTCTTT
1 TTTCTTT
50780357 TT
1 TT
50780359 GGAATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTCTTT
Found at i:50781638 original size:2 final size:2
Alignment explanation
Indices: 50781633--50781666 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
50781623 CAAAAAAGTA
*
50781633 AT AT AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50781667 TATGTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:50783461 original size:5 final size:5
Alignment explanation
Indices: 50783451--50783489 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
50783441 TAAGGTTTAA
50783451 AAATT AAATT AAATT AAATT AAATT --ATT AAATTT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAA-TT AAATT
50783490 TATTTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 3 0.10
5 23 0.74
6 5 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
AAATT
Found at i:50790499 original size:24 final size:24
Alignment explanation
Indices: 50790465--50790551 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 24
50790455 GTACATGTAT
50790465 GCTCATACGAGCT-ATAAACGGTAA
1 GCTCATACGAGCTAAT-AACGGTAA
* *
50790489 GCTCATCCGAGCTGAATAATGGTAA
1 GCTCATACGAGCT-AATAACGGTAA
* *
50790514 GCTCATGCGAGCTAAGTATCGGTAA
1 GCTCATACGAGCTAA-TAACGGTAA
* *
50790539 CCTCATAAGAGCT
1 GCTCATACGAGCT
50790552 GAAATCGATA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
24 14 0.27
25 36 0.69
26 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (24 bp):
GCTCATACGAGCTAATAACGGTAA
Found at i:50793403 original size:23 final size:23
Alignment explanation
Indices: 50793348--50793467 Score: 100
Period size: 23 Copynumber: 5.2 Consensus size: 23
50793338 GGCATTACAA
** * *
50793348 AATATGCTTCAAAGCCTTTACAG
1 AATATGCCACAAAGGCTTAACAG
**
50793371 AATACACCACAAAGGCTTAACAG
1 AATATGCCACAAAGGCTTAACAG
*
50793394 AACATGCCACAAAGGCTTAACA-
1 AATATGCCACAAAGGCTTAACAG
* * *
50793416 ATTTATGCCACAAAGG-TTGTATAG
1 A-ATATGCCACAAAGGCTT-AACAG
* *
50793440 AATGTGCCACAAAGGCTTAATAG
1 AATATGCCACAAAGGCTTAACAG
50793463 AATAT
1 AATAT
50793468 TACATGTTTA
Statistics
Matches: 76, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
22 3 0.04
23 70 0.92
24 3 0.04
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (23 bp):
AATATGCCACAAAGGCTTAACAG
Found at i:50798140 original size:17 final size:17
Alignment explanation
Indices: 50798099--50798141 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
50798089 ATTAGGTTAA
* *
50798099 TTTAGGTTAAGTAATTT
1 TTTAGTTTAAGTAATAT
*
50798116 TCTTAGTTTAATTAATAT
1 T-TTAGTTTAAGTAATAT
50798134 TTTAGTTT
1 TTTAGTTT
50798142 GGATTCACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (17 bp):
TTTAGTTTAAGTAATAT
Found at i:50814694 original size:29 final size:29
Alignment explanation
Indices: 50814639--50814697 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
50814629 TCAAATAATC
* **
50814639 ACAGAAAAATTAAGTAAGTAAAGATTTAA
1 ACAGAAAAATTAAATAACCAAAGATTTAA
50814668 ACAGAAAAATTAAATAAACCAAA-ATTTAA
1 ACAGAAAAATTAAAT-AACCAAAGATTTAA
50814697 A
1 A
50814698 AACAGATTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.63, C:0.07, G:0.08, T:0.22
Consensus pattern (29 bp):
ACAGAAAAATTAAATAACCAAAGATTTAA
Found at i:50816531 original size:18 final size:17
Alignment explanation
Indices: 50816517--50816569 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
50816507 TATAAATATA
50816517 TACATTATAAAAAATAAT
1 TACA-TATAAAAAATAAT
*
50816535 TACATATAAATAA-AA-
1 TACATATAAAAAATAAT
*
50816550 TA-AAAT-AAAAATAAT
1 TACATATAAAAAATAAT
50816565 TACAT
1 TACAT
50816570 TATATTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
13 4 0.14
14 5 0.18
15 4 0.14
16 3 0.11
17 8 0.29
18 4 0.14
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (17 bp):
TACATATAAAAAATAAT
Found at i:50816562 original size:30 final size:28
Alignment explanation
Indices: 50816526--50816586 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 28
50816516 ATACATTATA
50816526 AAAAATAATTACATATAAATAAAATAAAAT
1 AAAAATAATTACAT-TAAATAAAA-AAAAT
* *
50816556 AAAAATAATTACATTATATTAAAAAAAT
1 AAAAATAATTACATTAAATAAAAAAAAT
50816584 AAA
1 AAA
50816587 TATGCGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 8 0.28
29 7 0.24
30 14 0.48
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (28 bp):
AAAAATAATTACATTAAATAAAAAAAAT
Found at i:50816685 original size:21 final size:22
Alignment explanation
Indices: 50816661--50816702 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
50816651 AAATATGAAA
* *
50816661 AATAAA-AAAATTAATAAAATT
1 AATAAAGAAAATAAAGAAAATT
50816682 AATAAAGAAAATAAAGAAAAT
1 AATAAAGAAAATAAAGAAAAT
50816703 AAAAAAGGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (22 bp):
AATAAAGAAAATAAAGAAAATT
Done.