Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 28 of 126
Found at i:6007967 original size:16 final size:16
Alignment explanation
Indices: 6007946--6007986 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
6007936 GCAATGCAAA
6007946 AAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAG
*
6007962 AAAAAAAAAAGAAAAG
1 AAAAAAAAAAAAAAAG
6007978 AAAAGAAAA
1 AAAA-AAAA
6007987 GTTATGATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAG
Found at i:6007987 original size:10 final size:10
Alignment explanation
Indices: 6007943--6007986 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
6007933 TCTGCAATGC
6007943 AAAAAAAAA-
1 AAAAAAAAAG
6007952 AAAAAAAAAG
1 AAAAAAAAAG
6007962 AAAAAAAAAAG
1 -AAAAAAAAAG
*
6007973 AAAAGAAAAG
1 AAAAAAAAAG
6007983 AAAA
1 AAAA
6007987 GTTATGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 9 0.28
10 13 0.41
11 10 0.31
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:6008840 original size:21 final size:21
Alignment explanation
Indices: 6008803--6008888 Score: 64
Period size: 22 Copynumber: 3.7 Consensus size: 21
6008793 ATTTTTTTTG
*
6008803 TTTAAAGAATAAAAAATATATT
1 TTTAAAAAAT-AAAAATATATT
6008825 TTTAAAAAATAAAAATAAAAATTACTT
1 TTTAAAAAATAAAAAT----A-TA-TT
* *
6008852 TTTAAAAATTAAAAATTTATT
1 TTTAAAAAATAAAAATATATT
*
6008873 TTAAAAATAATAAAAA
1 TTTAAAA-AATAAAAA
6008889 AAAGATATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
21 14 0.27
22 18 0.35
25 1 0.02
26 2 0.04
27 17 0.33
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (21 bp):
TTTAAAAAATAAAAATATATT
Found at i:6008844 original size:27 final size:28
Alignment explanation
Indices: 6008805--6008867 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 28
6008795 TTTTTTTGTT
6008805 TAAAGAATAAAAAATATA-TTTTTAAAAAA
1 TAAA-AATAAAAAAT-TACTTTTTAAAAAA
*
6008834 TAAAAAT-AAAAATTACTTTTTAAAAAT
1 TAAAAATAAAAAATTACTTTTTAAAAAA
6008861 TAAAAAT
1 TAAAAAT
6008868 TTATTTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 2 0.06
27 23 0.72
28 3 0.09
29 4 0.12
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (28 bp):
TAAAAATAAAAAATTACTTTTTAAAAAA
Found at i:6008857 original size:20 final size:19
Alignment explanation
Indices: 6008834--6008882 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
6008824 TTTTAAAAAA
6008834 TAAAAATAAAAA-TTACTTTT
1 TAAAAATAAAAATTTA--TTT
6008854 TAAAAATTAAAAATTTATTT
1 TAAAAA-TAAAAATTTATTT
6008874 TAAAAATAA
1 TAAAAATAA
6008883 TAAAAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.11
20 15 0.56
21 6 0.22
22 3 0.11
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAAATAAAAATTTATTT
Found at i:6008943 original size:16 final size:15
Alignment explanation
Indices: 6008900--6008943 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
6008890 AAGATATTTG
6008900 TTTTTCTTTCCTTTT
1 TTTTTCTTTCCTTTT
*
6008915 TTTTCCTTTTCCTTTT
1 TTTTTC-TTTCCTTTT
*
6008931 TCTTTTCTCTCCT
1 T-TTTTCTTTCCT
6008944 CCCTTTCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 5 0.21
16 15 0.62
17 4 0.17
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTCTTTCCTTTT
Found at i:6012276 original size:15 final size:15
Alignment explanation
Indices: 6012256--6012293 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
6012246 AACAAACCTT
*
6012256 TCAATGTTTAGTTTA
1 TCAATGTATAGTTTA
6012271 TCAATGTATAGTTTA
1 TCAATGTATAGTTTA
6012286 TCAATGTA
1 TCAATGTA
6012294 ATTCGATCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (15 bp):
TCAATGTATAGTTTA
Found at i:6014929 original size:29 final size:28
Alignment explanation
Indices: 6014865--6014919 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
6014855 TATTTATATT
*
6014865 ATTAAAA-TTTAAATTTTAGTCATTAAA
1 ATTAAAATTTTAAATTTTAGTCAATAAA
6014892 ATTAAAATTTTAATATTTTA-TCAATAAA
1 ATTAAAATTTTAA-ATTTTAGTCAATAAA
6014920 TTATATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 7 0.28
28 12 0.48
29 6 0.24
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (28 bp):
ATTAAAATTTTAAATTTTAGTCAATAAA
Found at i:6018865 original size:21 final size:21
Alignment explanation
Indices: 6018839--6018878 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6018829 GGCTACTAAT
6018839 GGAAAAGCTGCGAGCCAAGAG
1 GGAAAAGCTGCGAGCCAAGAG
* *
6018860 GGAAAAGTTGTGAGCCAAG
1 GGAAAAGCTGCGAGCCAAG
6018879 GTGGAGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.38, T:0.10
Consensus pattern (21 bp):
GGAAAAGCTGCGAGCCAAGAG
Found at i:6038180 original size:201 final size:204
Alignment explanation
Indices: 6037849--6038213 Score: 442
Period size: 201 Copynumber: 1.8 Consensus size: 204
6037839 AAAAAAATAA
* *
6037849 AAAAAGAAAAATTTTATTATATTGAAGATTTTCTATAAATATCTCAATACTCTGGTAATATTTGA
1 AAAAAGAAAAATTTTATTATATTGAAAATTTTCTATAAATATCTCAATACGCTGGTAATATTTGA
*** * * *
6037914 AAAAATCTTCTCACATAGGGATTCTTAAAATATCTCTACTCAAAATACTTTTAGAATCTATCATC
66 AAAAATCTTCTCACATAAAAATTCATAAAATATCGCTACTCAAAATACCTTTAGAATCTATCATC
*
6037979 G-G-ATAAAATTTCCCTTTT-TTTCATTTTTTCATTATTTAATTATTTAATTTATTTTTATTTAT
131 GAGTA-AAAATTT-CCTTTTCTTACATTTTTT-ATTATTTAATTATTTAATTTATTTTTATTTAT
6038041 TATTTTAAAACC
193 TATTTTAAAACC
* * * *
6038053 AAAAA-AAAATTTTTATTGTATTGAAAATTTT-TATAAATA-CTCTAATGCGCTGGTAGTATTT-
1 AAAAAGAAAAATTTTATTATATTGAAAATTTTCTATAAATATCTC-AATACGCTGGTAATATTTG
* * * * **
6038114 AAAAAATCTTCTTACCTAAAAATTTCAT-AAGTATCGCTATTCGGAATACCTTT-GAATCTCATC
65 AAAAAATCTTCTCACATAAAAA-TTCATAAAATATCGCTACTCAAAATACCTTTAGAATCT-ATC
6038177 ATCGAGTAAAAATTTCCTTTTCTTACATTTTTTATTA
128 ATCGAGTAAAAATTTCCTTTTCTTACATTTTTTATTA
6038214 ACTTAAACCT
Statistics
Matches: 136, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
200 6 0.04
201 56 0.41
202 45 0.33
203 24 0.18
204 5 0.04
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (204 bp):
AAAAAGAAAAATTTTATTATATTGAAAATTTTCTATAAATATCTCAATACGCTGGTAATATTTGA
AAAAATCTTCTCACATAAAAATTCATAAAATATCGCTACTCAAAATACCTTTAGAATCTATCATC
GAGTAAAAATTTCCTTTTCTTACATTTTTTATTATTTAATTATTTAATTTATTTTTATTTATTAT
TTTAAAACC
Found at i:6038390 original size:22 final size:24
Alignment explanation
Indices: 6038345--6038391 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6038335 AAAAATATTT
* *
6038345 TAATATGTATAAATATTAATAAAA
1 TAATATATAAAAATATTAATAAAA
*
6038369 TAATATATAAAAAT-TTAAAAAAA
1 TAATATATAAAAATATTAATAAAA
6038392 ATTCAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (24 bp):
TAATATATAAAAATATTAATAAAA
Found at i:6040666 original size:17 final size:17
Alignment explanation
Indices: 6040644--6040682 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
6040634 ACTTGCCTTA
*
6040644 TTAGTCTCTGTCTTTTC
1 TTAGTCTCTATCTTTTC
6040661 TTAGTCTCTATCTTTTC
1 TTAGTCTCTATCTTTTC
6040678 TTAGT
1 TTAGT
6040683 TGTTCATAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.10, C:0.21, G:0.10, T:0.59
Consensus pattern (17 bp):
TTAGTCTCTATCTTTTC
Found at i:6041173 original size:3 final size:3
Alignment explanation
Indices: 6041161--6041198 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
6041151 ATATTATTAT
*
6041161 TAC TAT TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
6041199 GTATTATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (3 bp):
TAC
Found at i:6051572 original size:22 final size:22
Alignment explanation
Indices: 6051533--6051575 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6051523 AGTATTCTAG
*
6051533 TATAGTCTTCAAAAGATTATAT
1 TATAGTCTCCAAAAGATTATAT
**
6051555 TATAGTCTCCAAGGGATTATA
1 TATAGTCTCCAAAAGATTATA
6051576 GAAAAATGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (22 bp):
TATAGTCTCCAAAAGATTATAT
Found at i:6057065 original size:46 final size:46
Alignment explanation
Indices: 6056993--6057086 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
6056983 ATGAAAATGA
*
6056993 TTGGAACCTTCTTGAATTTTTGCATTGGTCAAATACTATAGGAGAG
1 TTGGAACCTTCTTGAATTTTTACATTGGTCAAATACTATAGGAGAG
* * *
6057039 TTGGAACCTTTTTGAATTTTTACATTGGTCGAATACTATGGGAGAG
1 TTGGAACCTTCTTGAATTTTTACATTGGTCAAATACTATAGGAGAG
6057085 TT
1 TT
6057087 AGAGGTATCC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (46 bp):
TTGGAACCTTCTTGAATTTTTACATTGGTCAAATACTATAGGAGAG
Found at i:6063023 original size:22 final size:23
Alignment explanation
Indices: 6062953--6063035 Score: 80
Period size: 23 Copynumber: 3.7 Consensus size: 23
6062943 TATTTCTTTC
* *
6062953 TTTTTTGAAAATTATATTTTGTA
1 TTTTTTGAAAAATAAATTTTGTA
* * *
6062976 TTTTTTGAAAAATAAAATTAGAA
1 TTTTTTGAAAAATAAATTTTGTA
* *
6062999 TTTTTT-AAAAATACATTTTTTA
1 TTTTTTGAAAAATAAATTTTGTA
*
6063021 -TTTTTAAAAAATAAA
1 TTTTTTGAAAAATAAA
6063036 AAAAATGAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
21 5 0.10
22 19 0.40
23 24 0.50
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (23 bp):
TTTTTTGAAAAATAAATTTTGTA
Found at i:6063604 original size:19 final size:21
Alignment explanation
Indices: 6063580--6063621 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 21
6063570 AATTTTTTGT
6063580 ATATTTATT-TTAA-GGGTTG
1 ATATTTATTATTAATGGGTTG
6063599 ATATTTATTCATTAATGGGTTG
1 ATATTTATT-ATTAATGGGTTG
6063621 A
1 A
6063622 GTAATCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 9 0.45
21 4 0.20
22 7 0.35
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.50
Consensus pattern (21 bp):
ATATTTATTATTAATGGGTTG
Found at i:6063956 original size:29 final size:29
Alignment explanation
Indices: 6063899--6063956 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
6063889 AGTTAGAAAA
* *
6063899 TTAAAGTTCATATATCATATTGAAAATTT
1 TTAAAATTCATATATCACATTGAAAATTT
6063928 TTAAAATTCATATATCACATT-AAATATTT
1 TTAAAATTCATATATCACATTGAAA-ATTT
6063957 CACAGTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 23 0.88
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (29 bp):
TTAAAATTCATATATCACATTGAAAATTT
Found at i:6064158 original size:19 final size:19
Alignment explanation
Indices: 6064119--6064158 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6064109 GTTTTTCACT
*
6064119 ATTAAATAATAATTATATA
1 ATTAAATAATAATAATATA
* *
6064138 ATTATATAATAATAATGTA
1 ATTAAATAATAATAATATA
6064157 AT
1 AT
6064159 AATTAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
ATTAAATAATAATAATATA
Found at i:6070398 original size:26 final size:27
Alignment explanation
Indices: 6070368--6070423 Score: 96
Period size: 26 Copynumber: 2.1 Consensus size: 27
6070358 CCATCATATG
6070368 GAGAAAGTTTCTTACCAGTAG-TACTA
1 GAGAAAGTTTCTTACCAGTAGTTACTA
*
6070394 GAGAAAGTTTCTTACTAGTAGTTACTA
1 GAGAAAGTTTCTTACCAGTAGTTACTA
6070421 GAG
1 GAG
6070424 TAGAAGTAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.32
Consensus pattern (27 bp):
GAGAAAGTTTCTTACCAGTAGTTACTA
Found at i:6075582 original size:19 final size:19
Alignment explanation
Indices: 6075550--6075605 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
6075540 AATCTAAATA
6075550 AGAAAAGAAAGAAATAGACT
1 AGAAAAG-AAGAAATAGACT
*
6075570 AGAATAGAAGAAAATTAAGACT
1 AGAAAAGAAG-AAA-T-AGACT
6075592 AGAAAAG-AGAAATA
1 AGAAAAGAAGAAATA
6075606 CGAGCAAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 1 0.03
19 4 0.13
20 12 0.39
21 3 0.10
22 11 0.35
ACGTcount: A:0.64, C:0.04, G:0.20, T:0.12
Consensus pattern (19 bp):
AGAAAAGAAGAAATAGACT
Found at i:6077546 original size:1 final size:1
Alignment explanation
Indices: 6077540--6077591 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
6077530 CCATTTTGTA
* * * * * *
6077540 TTTTTTTTATTATTTTTTTCTTTTTTTCTTTTCTTTTTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6077592 GGCAACTTTT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.04, C:0.08, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:6077555 original size:12 final size:11
Alignment explanation
Indices: 6077540--6077591 Score: 68
Period size: 11 Copynumber: 4.5 Consensus size: 11
6077530 CCATTTTGTA
*
6077540 TTTTTTTTATT
1 TTTTTTTTCTT
*
6077551 ATTTTTTTCTTT
1 TTTTTTTTC-TT
6077563 TTTTCTTTTCTT
1 TTTT-TTTTCTT
6077575 TTTTTTTTCTT
1 TTTTTTTTCTT
6077586 TTTTTT
1 TTTTTT
6077592 GGCAACTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 20 0.56
12 11 0.31
13 5 0.14
ACGTcount: A:0.04, C:0.08, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:6077563 original size:8 final size:8
Alignment explanation
Indices: 6077552--6077590 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
6077542 TTTTTTATTA
6077552 TTTTTTTC
1 TTTTTTTC
6077560 TTTTTTTC
1 TTTTTTTC
6077568 TTTTCTTT-
1 TTTT-TTTC
6077576 TTTTTTTC
1 TTTTTTTC
6077584 TTTTTTT
1 TTTTTTT
6077591 TGGCAACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 3 0.10
8 23 0.79
9 3 0.10
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTC
Found at i:6077571 original size:13 final size:12
Alignment explanation
Indices: 6077552--6077591 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
6077542 TTTTTTATTA
6077552 TTTTTTTCTTTT
1 TTTTTTTCTTTT
6077564 TTTCTTTTC-TTT
1 TTT-TTTTCTTTT
6077576 TTTTTTTCTTTT
1 TTTTTTTCTTTT
6077588 TTTT
1 TTTT
6077592 GGCAACTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.19
12 16 0.62
13 5 0.19
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:6077669 original size:25 final size:22
Alignment explanation
Indices: 6077620--6077675 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
6077610 TGTCTGATAG
6077620 TCGTCGACAGCTACCCTGACAA
1 TCGTCGACAGCTACCCTGACAA
* *
6077642 TCGTCGGCAGTTACCCTGACAA
1 TCGTCGACAGCTACCCTGACAA
* *
6077664 CCATCGACAGCT
1 TCGTCGACAGCT
6077676 GGCAACCATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.36, G:0.20, T:0.20
Consensus pattern (22 bp):
TCGTCGACAGCTACCCTGACAA
Found at i:6078574 original size:22 final size:22
Alignment explanation
Indices: 6078488--6078574 Score: 61
Period size: 22 Copynumber: 3.8 Consensus size: 22
6078478 TAACTTTTTA
6078488 TTTTTTT-TATTTTTTTGCTTAAT
1 TTTTTTTATATTTTTTTG-TT-AT
* * *
6078511 TTTTTTTATATATTTATATTAT
1 TTTTTTTATATTTTTTTGTTAT
**
6078533 TTAATTTATGATTTTCTTTTGTTAT
1 TTTTTTTAT-A-TTT-TTTTGTTAT
6078558 TTTTATTT-TATTTTTTT
1 TTTT-TTTATATTTTTTT
6078575 ATAAACTTTT
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
22 13 0.27
23 13 0.27
24 10 0.20
25 10 0.20
26 3 0.06
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.76
Consensus pattern (22 bp):
TTTTTTTATATTTTTTTGTTAT
Found at i:6078729 original size:15 final size:15
Alignment explanation
Indices: 6078679--6078743 Score: 67
Period size: 15 Copynumber: 4.1 Consensus size: 15
6078669 AATTTTAATG
* *
6078679 AATAAGAATAAAGAAA
1 AATAATAATAAA-AAT
*
6078695 AATATACAATAAAGAAT
1 AATA-ATAATAAA-AAT
*
6078712 AATAATAATTAAAAT
1 AATAATAATAAAAAT
6078727 AATAATAATAAAAAT
1 AATAATAATAAAAAT
6078742 AA
1 AA
6078744 CTAAAAAGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
15 19 0.44
16 10 0.23
17 14 0.33
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.23
Consensus pattern (15 bp):
AATAATAATAAAAAT
Found at i:6079159 original size:20 final size:20
Alignment explanation
Indices: 6079130--6079167 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6079120 TAAATAAAAA
6079130 TAAAAAATAAAA-AAAATTT
1 TAAAAAATAAAATAAAATTT
6079149 TAAAGAAATAAAATAAAAT
1 TAAA-AAATAAAATAAAAT
6079168 GTGTGCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (20 bp):
TAAAAAATAAAATAAAATTT
Found at i:6080082 original size:20 final size:21
Alignment explanation
Indices: 6080040--6080083 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
6080030 CAAGGGCTTA
6080040 CTTATCACTCTATACCCTTTTT
1 CTTATCACTCTATA-CCTTTTT
*
6080062 CTTATCACTCTAT-CTTTTTT
1 CTTATCACTCTATACCTTTTT
6080082 CT
1 CT
6080084 GTAATAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
22 13 0.62
ACGTcount: A:0.16, C:0.30, G:0.00, T:0.55
Consensus pattern (21 bp):
CTTATCACTCTATACCTTTTT
Found at i:6083159 original size:14 final size:15
Alignment explanation
Indices: 6083140--6083171 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6083130 TTTTTAAATG
6083140 TTTTA-GTTTTTTAT
1 TTTTAGGTTTTTTAT
6083154 TTTTAGGTTTTTTAT
1 TTTTAGGTTTTTTAT
6083169 TTT
1 TTT
6083172 ATTTTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (15 bp):
TTTTAGGTTTTTTAT
Found at i:6096942 original size:23 final size:23
Alignment explanation
Indices: 6096916--6096961 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6096906 TTTGAGAATG
*
6096916 AAAGGGAAGTAATAGAAAAAGTT
1 AAAGGGAAGAAATAGAAAAAGTT
* *
6096939 AAAGGGAGGAAATAGAGAAAGTT
1 AAAGGGAAGAAATAGAAAAAGTT
6096962 CTTAAGTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.30, T:0.15
Consensus pattern (23 bp):
AAAGGGAAGAAATAGAAAAAGTT
Found at i:6097674 original size:21 final size:21
Alignment explanation
Indices: 6097629--6097733 Score: 92
Period size: 21 Copynumber: 5.0 Consensus size: 21
6097619 GACAAGATGG
*
6097629 TTTATTTATTAT-TATTATTTA
1 TTTA-TTATTATATATTTTTTA
* *
6097650 -TTATGATTTTATATTTTTTA
1 TTTATTATTATATATTTTTTA
* *
6097670 TTTATTAATATATATTTATTA
1 TTTATTATTATATATTTTTTA
6097691 TTTATCTATTAATATATTTTTTA
1 TTTAT-TATT-ATATATTTTTTA
6097714 -TTATTTATCTAT-TATTTTTT
1 TTTA-TTAT-TATATATTTTTT
6097734 TTGGTTTATC
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
19 5 0.07
20 11 0.16
21 29 0.42
22 11 0.16
23 13 0.19
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.69
Consensus pattern (21 bp):
TTTATTATTATATATTTTTTA
Found at i:6097710 original size:51 final size:51
Alignment explanation
Indices: 6097631--6097727 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
6097621 CAAGATGGTT
* * *
6097631 TATTTATTATTATTATTTATTATGATTTTATATTTTTTATTTATTAATATA
1 TATTTATTATTATTATTTAATATGATTTTATATTATTTATCTATTAATATA
*
6097682 TATTTATTATTTATCTA-TTAATAT-ATTTTTTATTATTTATCTATTA
1 TATTTATTA-TTAT-TATTTAATATGATTTTATATTATTTATCTATTA
6097728 TTTTTTTTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
51 28 0.70
52 10 0.25
53 2 0.05
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (51 bp):
TATTTATTATTATTATTTAATATGATTTTATATTATTTATCTATTAATATA
Found at i:6097726 original size:8 final size:7
Alignment explanation
Indices: 6097630--6097730 Score: 64
Period size: 7 Copynumber: 13.9 Consensus size: 7
6097620 ACAAGATGGT
6097630 TTATTTA
1 TTATTTA
6097637 TTA-TTA
1 TTATTTA
6097643 TTATTTA
1 TTATTTA
*
6097650 TTATGATTT
1 TTAT--TTA
*
6097659 TATATTTT
1 T-TATTTA
6097667 TTATTTA
1 TTATTTA
*
6097674 TTA-ATA
1 TTATTTA
6097680 TATATTTA
1 T-TATTTA
6097688 TTATTTA
1 TTATTTA
*
6097695 TCTATTAA
1 T-TATTTA
*
6097703 TATATTTT
1 T-TATTTA
6097711 TTA-TTA
1 TTATTTA
*
6097717 TTTATCTA
1 -TTATTTA
6097725 TTATTT
1 TTATTT
6097731 TTTTTGGTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
6 11 0.15
7 37 0.50
8 20 0.27
9 3 0.04
10 3 0.04
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (7 bp):
TTATTTA
Found at i:6098529 original size:3 final size:3
Alignment explanation
Indices: 6098523--6098554 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6098513 CTTTTTCTAT
6098523 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6098555 TAGGTATTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6098609 original size:5 final size:5
Alignment explanation
Indices: 6098572--6098623 Score: 63
Period size: 5 Copynumber: 10.8 Consensus size: 5
6098562 TCCTTAATTT
* * *
6098572 TTTTA TTTT- TTTAA TTTTA ATTT- TTTTA CTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
6098620 TTTT
1 TTTT
6098624 TTAGTGATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
4 6 0.15
5 33 0.85
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:6098741 original size:60 final size:58
Alignment explanation
Indices: 6098658--6099003 Score: 335
Period size: 60 Copynumber: 5.7 Consensus size: 58
6098648 TTCCAAAAAA
** *
6098658 AAAAAAAAATATTTCGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAATTTC
1 AAAAAAAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAATTTC
6098716 AGAAAACAAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTC
1 A-AAAA-AAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAATT-AAATTTC
* *
6098777 AAAAAAATAAAGTATTTTAAGAAAAAGTTGAAAGTATCAA-TTTTCCTGAAAATAAAAAAGATTT
1 -AAAAAA-AAA-TATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTG-AAAT---TAA-ATTT
6098841 -
58 C
* * * * *
6098841 AAAAAAATAT-TTTTAGGAAAAA-TTAAAAGTATCAATTTTTCTTAAAAATAAAAAGGTTT-
1 AAAAAAAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTT-GAAAT-TAAA--TTTC
* * *
6098900 -AAAAAATATATTTTTAGGAAAAAGTTGAAAGTATTAATTTTTCTTGAAATTAAAATTTTC
1 AAAAAAAAATA-TTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAATT-AAA-TTTC
*
6098960 AAAAAAATAAAATATTTTAAGAAAAAATTGAAAGTATCAATTTT
1 --AAAAA-AAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTT
6099004 CTTTAAAATA
Statistics
Matches: 245, Mismatches: 19, Indels: 43
0.80 0.06 0.14
Matches are distributed among these distances:
57 1 0.00
58 14 0.06
59 22 0.09
60 84 0.34
61 41 0.17
62 35 0.14
63 37 0.15
64 7 0.03
65 4 0.02
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.35
Consensus pattern (58 bp):
AAAAAAAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAATTTC
Found at i:6098878 original size:121 final size:120
Alignment explanation
Indices: 6098677--6099059 Score: 324
Period size: 121 Copynumber: 3.2 Consensus size: 120
6098667 TATTTCGAGG
* * **
6098677 AAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAATTTCAGA---AAACAAAATATTTTAAGAAA
1 AAAAGTTGAAAGTATCAATTTTTCCTGAAAATAAA--AAAGATTTAAA-AAAATATTTTAAGAAA
* * *
6098739 AAGTTGAAAGTATCAATTTTTCTT-GAAATTAAAA-TTTCAAAAAAATAAAGTATTTTAAGA
63 AAGTTAAAAGTATCAATTTTTCTTAAAAATAAAAAGTTT--AAAAAATAAA-T-TTTTAAGA
*
6098799 AAAAGTTGAAAGTATCAA-TTTTCCTGAAAATAAAAAAGATTTAAAAAAATATTTTTAGGAAAAA
1 AAAAGTTGAAAGTATCAATTTTTCCTGAAAATAAAAAAGATTTAAAAAAATA-TTTTAAGAAAAA
* *
6098863 -TTAAAAGTATCAATTTTTCTTAAAAATAAAAAGGTTTAAAAAATATATTTTTAGGA
65 GTTAAAAGTATCAATTTTTCTTAAAAATAAAAA-GTTTAAAAAATAAATTTTTAAGA
* * * *** ***
6098919 AAAAGTTGAAAGTATTAATTTTTCTTGAAATTAAAATTTTCAAAAAAATAAAATATTTTAAGAAA
1 AAAAGTTGAAAGTATCAATTTTTCCTGAAAATAAAA--AAGATTTAAA-AAAATATTTTAAGAAA
* * * * * **
6098984 AAATTGAAAGTATCAA-TTTTCTTTAAAATAAAAACTTT--CAAAT---GCTTTAAGA
63 AAGTTAAAAGTATCAATTTTTCTTAAAAATAAAAAGTTTAAAAAATAAATTTTTAAGA
*
6099036 AAAAATTGAAAGTATCAATTTTTC
1 AAAAGTTGAAAGTATCAATTTTTC
6099060 TTGTACAAAA
Statistics
Matches: 220, Mismatches: 29, Indels: 29
0.79 0.10 0.10
Matches are distributed among these distances:
117 28 0.13
119 3 0.01
120 28 0.13
121 56 0.25
122 52 0.24
123 32 0.15
124 21 0.10
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (120 bp):
AAAAGTTGAAAGTATCAATTTTTCCTGAAAATAAAAAAGATTTAAAAAAATATTTTAAGAAAAAG
TTAAAAGTATCAATTTTTCTTAAAAATAAAAAGTTTAAAAAATAAATTTTTAAGA
Found at i:6098967 original size:18 final size:20
Alignment explanation
Indices: 6098946--6098988 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
6098936 ATTTTTCTTG
*
6098946 AAATTAAA-ATTTTCA-AAA
1 AAATTAAATATTTTAAGAAA
*
6098964 AAATAAAATATTTTAAGAAA
1 AAATTAAATATTTTAAGAAA
6098984 AAATT
1 AAATT
6098989 GAAAGTATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 7 0.35
19 6 0.30
20 7 0.35
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAATTAAATATTTTAAGAAA
Found at i:6099053 original size:29 final size:30
Alignment explanation
Indices: 6098975--6099054 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 30
6098965 AATAAAATAT
* *
6098975 TTTAAGAAAAAATTGAAAGTATCAATTTTC
1 TTTAAGAAAAAATTGAAAGTATCAATATGC
* * *
6099005 TTT-A-AAATAA---AAACTTTCAA-ATGC
1 TTTAAGAAAAAATTGAAAGTATCAATATGC
6099029 TTTAAGAAAAAATTGAAAGTATCAAT
1 TTTAAGAAAAAATTGAAAGTATCAAT
6099055 TTTTCTTGTA
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
24 5 0.14
25 9 0.25
26 5 0.14
28 5 0.14
29 9 0.25
30 3 0.08
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (30 bp):
TTTAAGAAAAAATTGAAAGTATCAATATGC
Found at i:6100221 original size:17 final size:17
Alignment explanation
Indices: 6100191--6100232 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
6100181 TATGCATCTA
*
6100191 CATCATTGCATTCTATG
1 CATCATTTCATTCTATG
*
6100208 CATTATTTCATTCTATG
1 CATCATTTCATTCTATG
6100225 CATCATTT
1 CATCATTT
6100233 TCATGATCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.24, C:0.21, G:0.07, T:0.48
Consensus pattern (17 bp):
CATCATTTCATTCTATG
Found at i:6103142 original size:9 final size:9
Alignment explanation
Indices: 6103128--6103203 Score: 89
Period size: 10 Copynumber: 7.9 Consensus size: 9
6103118 GAAAGAGAAA
6103128 AAAAAAAAG
1 AAAAAAAAG
6103137 AAAAAAAAG
1 AAAAAAAAG
6103146 AAAAAAAGAG
1 AAAAAAA-AG
*
6103156 AAAAAGAATG
1 AAAAA-AAAG
*
6103166 AAAAGATAAG
1 AAAA-AAAAG
6103176 AAAAAGAAAG
1 AAAAA-AAAG
6103186 AAAAAAAAG
1 AAAAAAAAG
6103195 AGAAAAAAA
1 A-AAAAAAA
6103204 TGGAAATGAG
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
9 22 0.38
10 33 0.57
11 3 0.05
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:6105019 original size:44 final size:44
Alignment explanation
Indices: 6104957--6105083 Score: 173
Period size: 44 Copynumber: 2.9 Consensus size: 44
6104947 AGCAATTTAC
* * *
6104957 TTTCAAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTGTTTATT
1 TTTCCAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTTGTTTATT
* *
6105001 TTTCCAAAGTCGTTGAGCCTCTGATTAAAGGAGCTTTGTTTATT
1 TTTCCAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTTGTTTATT
* * *
6105045 TTACTCAAAGTCGTTAAGCCTCTACTTAGAGGAGCTTTG
1 TTTC-CAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTTG
6105084 ATAAAAATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
44 42 0.58
45 30 0.42
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (44 bp):
TTTCCAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTTGTTTATT
Found at i:6105295 original size:3 final size:3
Alignment explanation
Indices: 6105276--6105366 Score: 62
Period size: 3 Copynumber: 29.7 Consensus size: 3
6105266 GATGGCCCTT
* * *
6105276 TTA TTT TTA TTA TTTA TTA TTA TTA TTA TTT TGTA TT- TTT TTA TCTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA
* * *
6105323 TTA ATA TATA TTT TTA TTA TTTA TTA ATA -TA TT- TTA TTA TTA TT
1 TTA TTA T-TA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT
6105367 TATCTATTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
2 6 0.09
3 50 0.71
4 14 0.20
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6105338 original size:20 final size:21
Alignment explanation
Indices: 6105313--6105363 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
6105303 ATTTTGTATT
6105313 TTTTTATCTA-TTAAT-ATATA
1 TTTTTAT-TATTTAATAATATA
*
6105333 TTTTTATTATTTATTAATATA
1 TTTTTATTATTTAATAATATA
6105354 -TTTTATTATT
1 TTTTTATTATT
6105364 ATTTATCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 21 0.75
21 5 0.18
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTATTATTTAATAATATA
Found at i:6105367 original size:23 final size:23
Alignment explanation
Indices: 6105286--6105369 Score: 93
Period size: 23 Copynumber: 3.7 Consensus size: 23
6105276 TTATTTTTAT
* * *
6105286 TATTTATTATTA-TTATTATTTTG
1 TATTT-TTATTATTTATTAATATA
*
6105309 TATTTTT-TTATCTATTAATATA
1 TATTTTTATTATTTATTAATATA
6105331 TATTTTTATTATTTATTAATATA
1 TATTTTTATTATTTATTAATATA
6105354 T-TTTATTATTATTTAT
1 TATTT-TTATTATTTAT
6105370 CTATTAATGT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
21 3 0.06
22 19 0.36
23 31 0.58
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (23 bp):
TATTTTTATTATTTATTAATATA
Found at i:6105367 original size:54 final size:51
Alignment explanation
Indices: 6105277--6105406 Score: 142
Period size: 54 Copynumber: 2.5 Consensus size: 51
6105267 ATGGCCCTTT
*
6105277 TATTTTTATTATTTATTATTATTATTATTTTGTATTTTTTTATCTATTAA-TATA
1 TATTTTTATTATTTATTATTATTATTATTATGTA----TTTATCTATTAAGTATA
6105331 TATTTTTATTATTTATTAATATATT-TTATTAT-TATTTATCTATTAATGTATA
1 TATTTTTATTATTTATT-AT-TATTATTATTATGTATTTATCTATTAA-GTATA
6105383 TATTTGTTA-TATTTATCTATTATT
1 TATTT-TTATTATTTAT-TATTATT
6105407 TTTTTTTGGG
Statistics
Matches: 69, Mismatches: 1, Indels: 15
0.81 0.01 0.18
Matches are distributed among these distances:
50 12 0.17
51 4 0.06
52 18 0.26
53 4 0.06
54 19 0.28
55 8 0.12
56 4 0.06
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (51 bp):
TATTTTTATTATTTATTATTATTATTATTATGTATTTATCTATTAAGTATA
Found at i:6105369 original size:50 final size:49
Alignment explanation
Indices: 6105283--6105408 Score: 143
Period size: 52 Copynumber: 2.5 Consensus size: 49
6105273 CTTTTATTTT
*
6105283 TATTATTTATTA-TTATTATTATTTTGTATTTTTTTATCTATTAA-TATA
1 TATT-TTTATTATTTATTAATATTTTGTATTTTTTTATCTATTAAGTATA
6105331 TATTTTTATTATTTATTAATATATTT-TATTATTATTTATCTATTAATGTATA
1 TATTTTTATTATTTATTAATAT-TTTGTATT-TT-TTTATCTATTAA-GTATA
*
6105383 TATTTGTTA-TATTTATCTATTATTTT
1 TATTT-TTATTATTTAT-TAATATTTT
6105409 TTTTTGGGTT
Statistics
Matches: 68, Mismatches: 2, Indels: 12
0.83 0.02 0.15
Matches are distributed among these distances:
47 7 0.10
48 17 0.25
49 5 0.07
50 12 0.18
52 19 0.28
53 8 0.12
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (49 bp):
TATTTTTATTATTTATTAATATTTTGTATTTTTTTATCTATTAAGTATA
Found at i:6105386 original size:23 final size:23
Alignment explanation
Indices: 6105315--6105386 Score: 65
Period size: 23 Copynumber: 3.0 Consensus size: 23
6105305 TTTGTATTTT
*
6105315 TTTATCTATTAATATATAT-TTT
1 TTTATCTATTAATATATATATTA
*
6105337 TATTATTTATTAATATATTTTATTATTA
1 T-TTATCTATTAATATA---TA-TATTA
*
6105365 TTTATCTATTAATGTATATATT
1 TTTATCTATTAATATATATATT
6105387 TGTTATATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
22 1 0.03
23 18 0.45
24 2 0.05
26 2 0.05
27 14 0.35
28 3 0.08
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (23 bp):
TTTATCTATTAATATATATATTA
Found at i:6105423 original size:52 final size:50
Alignment explanation
Indices: 6105283--6105398 Score: 143
Period size: 48 Copynumber: 2.3 Consensus size: 50
6105273 CTTTTATTTT
*
6105283 TATTATTTATTA-TTATTATTAT-TTTGTATT-TT-TTTATCTATTAATATA
1 TATT-TTTATTATTTATTAATATATTT-TATTATTATTTATCTATTAATATA
6105331 TATTTTTATTATTTATTAATATATTTTATTATTATTTATCTATTAATGTATA
1 TATTTTTATTATTTATTAATATATTTTATTATTATTTATCTATTAA--TATA
6105383 TATTTGTTA-TATTTAT
1 TATTT-TTATTATTTAT
6105399 CTATTATTTT
Statistics
Matches: 60, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
47 7 0.12
48 17 0.28
49 5 0.08
50 12 0.20
52 16 0.27
53 3 0.05
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (50 bp):
TATTTTTATTATTTATTAATATATTTTATTATTATTTATCTATTAATATA
Found at i:6106249 original size:9 final size:9
Alignment explanation
Indices: 6106235--6106285 Score: 102
Period size: 9 Copynumber: 5.7 Consensus size: 9
6106225 GTATTCCATA
6106235 AATTTTTTT
1 AATTTTTTT
6106244 AATTTTTTT
1 AATTTTTTT
6106253 AATTTTTTT
1 AATTTTTTT
6106262 AATTTTTTT
1 AATTTTTTT
6106271 AATTTTTTT
1 AATTTTTTT
6106280 AATTTT
1 AATTTT
6106286 AACTTTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
AATTTTTTT
Found at i:6106295 original size:11 final size:11
Alignment explanation
Indices: 6106240--6106317 Score: 59
Period size: 9 Copynumber: 7.9 Consensus size: 11
6106230 CCATAAATTT
6106240 TTTTAA-TTT-
1 TTTTAATTTTA
6106249 TTTTAA-TTT-
1 TTTTAATTTTA
6106258 TTTTAA-TTT-
1 TTTTAATTTTA
6106267 TTTTAA-TTT-
1 TTTTAATTTTA
6106276 TTTTAATTTTAA
1 TTTTAATTTT-A
*
6106288 CTTT-ATTTTA
1 TTTTAATTTTA
6106298 TTTT-ATTTTA
1 TTTTAATTTTA
*
6106308 TTTTTATTTT
1 TTTTAATTTT
6106318 TTAGTGATTT
Statistics
Matches: 63, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
9 33 0.52
10 17 0.27
11 10 0.16
12 3 0.05
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTAATTTTA
Found at i:6106296 original size:27 final size:24
Alignment explanation
Indices: 6106235--6106319 Score: 91
Period size: 27 Copynumber: 3.3 Consensus size: 24
6106225 GTATTCCATA
6106235 AATTTTTTTAATTTTTTTAATTTTTTT
1 AATTTTTTTAATTTTTTTAA---TTTT
6106262 AATTTTTTTAATTTTTTTAATTTT
1 AATTTTTTTAATTTTTTTAATTTT
*
6106286 AACTTTATTTT-ATTTTATTTTATTTT
1 AA-TTT-TTTTAATTTT-TTTAATTTT
*
6106312 TATTTTTT
1 AATTTTTT
6106320 AGTGATTTTC
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
24 9 0.17
25 11 0.21
26 13 0.25
27 20 0.38
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.76
Consensus pattern (24 bp):
AATTTTTTTAATTTTTTTAATTTT
Found at i:6106318 original size:6 final size:5
Alignment explanation
Indices: 6106236--6106317 Score: 57
Period size: 5 Copynumber: 17.0 Consensus size: 5
6106226 TATTCCATAA
* * * * *
6106236 ATTTT -TTTA ATTTT -TTTA ATTTT -TTTA ATTTT -TTTA ATTTT -TTTA
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
*
6106281 ATTTT AACTTT ATTTT ATTTT ATTTT ATTTTT ATTTT
1 ATTTT -ATTTT ATTTT ATTTT ATTTT A-TTTT ATTTT
6106318 TTAGTGATTT
Statistics
Matches: 58, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
4 15 0.26
5 34 0.59
6 9 0.16
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:6106502 original size:62 final size:62
Alignment explanation
Indices: 6106324--6106837 Score: 469
Period size: 61 Copynumber: 8.4 Consensus size: 62
6106314 TTTTTTAGTG
* * *
6106324 ATTTTCC-TAAAA-TAAAAATTC-CAAAAA-AAAATATTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAAATTAAAATTTCAAAAAAATAAAATATTTTAAGGAAAAGTTGAAAGTATCA
* * *
6106382 ATTTTTCTTGAAATTAAAATTTC-AAAAAACAAAATATTTTAAGGAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAAATTAAAATTTCAAAAAAATAAAATATTTTAAGGAAAAGTTGAAAGTATCA
* *
6106443 ATTTTCCTTGAAATTAAAATTACAAAAAAATAAAATATTTTAAGGAAAAGTTGAAAGTATC-
1 ATTTTCCTTAAAATTAAAATTTCAAAAAAATAAAATATTTTAAGGAAAAGTTGAAAGTATCA
* * * * *
6106504 ATTATCCCTAAAAATAAAAAAGGTTTTC-TAAAAAT---AT-TTTT-AGGAAAAGTTAAAAGTAT
1 ATT-TTCCTTAAAAT-TAAAA---TTTCAAAAAAATAAAATATTTTAAGGAAAAGTTGAAAGTAT
6106563 CA
61 CA
* * * * *
6106565 ATTTTCCTTGAAAATAAAAAGGTTT---AAAAAT-ATATTTTTTAGGGGAAA-TTGAAAGTAATC
1 ATTTTCCTT-AAAATTAAAA--TTTCAAAAAAATAAAATATTTTAAGGAAAAGTTGAAAGT-ATC
6106625 -
62 A
*** * *
6106625 ATTTT-CTTAAAATTAACAATTTCAAAAAAA-ATTTTTTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAAATTAA-AATTTCAAAAAAATAAAATATTTTAAGGAAAAGTTGAAAGTATCA
* * * *
6106686 ATTTTCCTTGAAATTAAAATTTC-ATAAAACAAAATATTTTAAGAAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAAATTAAAATTTCAAAAAAATAAAATATTTTAAGGAAAAGTTGAAAGTATCA
** *
6106747 ATTTTTTTTTAAAATTAAAATTTCAAAAAAATAAAATATTTTAAGGAAAACTTGAAAGTATC-
1 A-TTTTCCTTAAAATTAAAATTTCAAAAAAATAAAATATTTTAAGGAAAAGTTGAAAGTATCA
*
6106809 ATTTTCTTTAAAAATTAAAAACTTTCAAA
1 ATTTTCCTT-AAAATT-AAAA-TTTCAAA
6106838 TGCTTTAAGA
Statistics
Matches: 383, Mismatches: 43, Indels: 54
0.80 0.09 0.11
Matches are distributed among these distances:
57 9 0.02
58 13 0.03
59 15 0.04
60 81 0.21
61 126 0.33
62 82 0.21
63 41 0.11
64 7 0.02
65 6 0.02
66 3 0.01
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.35
Consensus pattern (62 bp):
ATTTTCCTTAAAATTAAAATTTCAAAAAAATAAAATATTTTAAGGAAAAGTTGAAAGTATCA
Found at i:6108248 original size:17 final size:17
Alignment explanation
Indices: 6108193--6108248 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
6108183 TCAAAAGTTT
*
6108193 AAAATTTCTT-TTATTTA
1 AAAATTT-TTATTATATA
*
6108210 AAAAATTTTATTATATA
1 AAAATTTTTATTATATA
*
6108227 TAAATTTTTATTATATA
1 AAAATTTTTATTATATA
6108244 AAAAT
1 AAAAT
6108249 ATTAAAATAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 2 0.06
17 31 0.94
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
AAAATTTTTATTATATA
Found at i:6112236 original size:2 final size:2
Alignment explanation
Indices: 6112229--6112260 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6112219 ATTTGGAAAT
6112229 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6112261 AATGATGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6118321 original size:24 final size:22
Alignment explanation
Indices: 6118294--6118356 Score: 69
Period size: 24 Copynumber: 2.9 Consensus size: 22
6118284 AATATACATG
*
6118294 AATATTAATAATAAAATTTATAA
1 AATATTAATAAAAAAATTTA-AA
6118317 TAATA-TATATAAAAAAATTTAAA
1 -AATATTA-ATAAAAAAATTTAAA
6118340 AAT-TTAA-AAAAAAATTT
1 AATATTAATAAAAAAATTT
6118357 TTTTTACTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
20 10 0.28
21 1 0.03
22 5 0.14
23 4 0.11
24 16 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AATATTAATAAAAAAATTTAAA
Found at i:6119229 original size:1 final size:1
Alignment explanation
Indices: 6119223--6119271 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
6119213 AATGAGGAAC
* * * * *
6119223 AAAAAAAAAGAAAAAAAAAAGAAAAAAAAAGAAGAAAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6119272 TAAATAATTA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.90, C:0.00, G:0.08, T:0.02
Consensus pattern (1 bp):
A
Found at i:6119249 original size:21 final size:21
Alignment explanation
Indices: 6119223--6119271 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
6119213 AATGAGGAAC
6119223 AAAAAAAAAGAAAAAAAAAAG
1 AAAAAAAAAGAAAAAAAAAAG
* *
6119244 AAAAAAAAAGAAGAAAAAAAT
1 AAAAAAAAAGAAAAAAAAAAG
6119265 AAAAAAA
1 AAAAAAA
6119272 TAAATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.90, C:0.00, G:0.08, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAGAAAAAAAAAAG
Found at i:6119278 original size:12 final size:11
Alignment explanation
Indices: 6119223--6119271 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
6119213 AATGAGGAAC
6119223 AAAAAAAAAGA
1 AAAAAAAAAGA
6119234 AAAAAAAAAG-
1 AAAAAAAAAGA
6119244 AAAAAAAAAGA
1 AAAAAAAAAGA
* *
6119255 AGAAAAAAATA
1 AAAAAAAAAGA
6119266 AAAAAA
1 AAAAAA
6119272 TAAATAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
10 10 0.29
11 24 0.71
ACGTcount: A:0.90, C:0.00, G:0.08, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:6119501 original size:44 final size:44
Alignment explanation
Indices: 6119453--6119557 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 44
6119443 TCTTCTCAAT
* *
6119453 AGAGGCCCAATAACTTTTGAAAATATAAAAAGGCTCCT-CTAAGC
1 AGAGGCCCAACAACTTTTAAAAATATAAAAAGGCT-CTACTAAGC
* * *
6119497 AGAGGCTCAACAATTTTTAAAAATATAAAAGGGCTCTACTAAGC
1 AGAGGCCCAACAACTTTTAAAAATATAAAAAGGCTCTACTAAGC
**
6119541 AGAGGCTTAACAACTTT
1 AGAGGCCCAACAACTTT
6119558 AAAGATTCAT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
43 2 0.04
44 51 0.96
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (44 bp):
AGAGGCCCAACAACTTTTAAAAATATAAAAAGGCTCTACTAAGC
Found at i:6119559 original size:43 final size:44
Alignment explanation
Indices: 6119472--6119611 Score: 133
Period size: 44 Copynumber: 3.1 Consensus size: 44
6119462 ATAACTTTTG
*
6119472 AAAATATAAAAAGGCTCCTCTAAGCAGAGGCTCAACAATTTTTA
1 AAAATATAAAAAGGCTCCTCTAAGCAGAGGCTCAACAATCTTTA
* *
6119516 AAAATATAAAAGGGCT-CTACTAAGCAGAGGCTTAACAA-CTTTA
1 AAAATATAAAAAGGCTCCT-CTAAGCAGAGGCTCAACAATCTTTA
* * * *
6119559 AAGATTCATTTTGAAAAAAGCTCATCTAAGCAGAGGCTCCACAA-CTTTA
1 AA-A---A-TAT-AAAAAGGCTCCTCTAAGCAGAGGCTCAACAATCTTTA
6119608 AAAA
1 AAAA
6119612 AAAATAATCT
Statistics
Matches: 79, Mismatches: 9, Indels: 15
0.77 0.09 0.15
Matches are distributed among these distances:
43 8 0.10
44 34 0.43
45 1 0.01
47 1 0.01
48 3 0.04
49 31 0.39
50 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (44 bp):
AAAATATAAAAAGGCTCCTCTAAGCAGAGGCTCAACAATCTTTA
Found at i:6119592 original size:49 final size:49
Alignment explanation
Indices: 6119535--6119877 Score: 232
Period size: 48 Copynumber: 7.0 Consensus size: 49
6119525 AAGGGCTCTA
* * *
6119535 CTAAGCAGAGGCTTAACAACTTTAAAGATTCATTTTGAAAAAAGCTCAT
1 CTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAAGCTCAT
* * * ** *
6119584 CTAAGCAGAGGCTCCACAACTTTAAAAAAAAATAATCTTGGGAAAAGCTCCT
1 CTAAGCAGAGGCTCAACAACTTT---AAAAATTCATCTTGAAAAAAGCTCAT
* * * * *
6119636 CTAAGCAAAGGCTTC-ATAACTTAAAAAAAAATCATCTT-AGAAAAGCTCCTAT
1 CTAAGCAGAGGC-TCAACAACTT--TAAAAATTCATCTTGAAAAAAGCT-C-AT
* * * * * *
6119688 C-AA-CAAAGGTTTAACAACTTTAAAAATTCATCTTGGAAAAAGATCCT
1 CTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAAGCTCAT
* * ** * * *
6119735 TTAAGCAGAGGCTCAACAA-TTTTAAAATTCATCTTGAGGAAGGTTCTT
1 CTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAAGCTCAT
* * * *
6119783 TTCAGCAGAGGCTCAATAACTTT-AAAATTCATCTTG-AAAAAGCTTAT
1 CTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAAGCTCAT
* * * * *
6119830 CTCAGTAGAGGCTCAATAACTTTAAAAATCTCATTTTGAAAAAGGCTC
1 CTAAGCAGAGGCTCAACAACTTTAAAAAT-TCATCTTGAAAAAAGCTC
6119878 TTCTTAGTAA
Statistics
Matches: 230, Mismatches: 48, Indels: 31
0.74 0.16 0.10
Matches are distributed among these distances:
47 27 0.12
48 72 0.31
49 49 0.21
50 27 0.12
51 15 0.07
52 38 0.17
53 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.28
Consensus pattern (49 bp):
CTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAAGCTCAT
Found at i:6119648 original size:52 final size:52
Alignment explanation
Indices: 6119574--6119761 Score: 174
Period size: 49 Copynumber: 3.7 Consensus size: 52
6119564 TCATTTTGAA
* * * *
6119574 AAAAGCTCATCTAAGCAGAGGCTCCACAACTTTAAAAAAAAATAATCTTGGG
1 AAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAAAAAAATCATCTTGGG
* *
6119626 AAAAGCTCCTCTAAGCAAAGGCTTC-ATAAC-TTAAAAAAAAATCATCTT-AG
1 AAAAGCTCCTCTAAGCAAAGGC-TCAACAACTTTAAAAAAAAATCATCTTGGG
* * * * *
6119676 AAAAGCTCCTATCAA-CAAAGGTTTAACAACTTT---AAAAATTCATCTTGGA
1 AAAAGCTCCTCT-AAGCAAAGGCTCAACAACTTTAAAAAAAAATCATCTTGGG
* * * *
6119725 AAAAGATCCTTTAAGCAGAGGCTCAACAATTTTAAAA
1 AAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAA
6119762 TTCATCTTGA
Statistics
Matches: 109, Mismatches: 18, Indels: 18
0.75 0.12 0.12
Matches are distributed among these distances:
48 14 0.13
49 25 0.23
50 22 0.20
51 21 0.19
52 25 0.23
53 2 0.02
ACGTcount: A:0.45, C:0.19, G:0.12, T:0.24
Consensus pattern (52 bp):
AAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAAAAAAATCATCTTGGG
Found at i:6119683 original size:50 final size:52
Alignment explanation
Indices: 6119569--6119713 Score: 161
Period size: 52 Copynumber: 2.8 Consensus size: 52
6119559 AAGATTCATT
* * *
6119569 TTGAAAAAAGCTCATCTAAGCAGAGGCTCCACAACTTTAAAAAAAAATAATC
1 TTGAGAAAAGCTCCTCTAAGCAAAGGCTCCACAACTTTAAAAAAAAATAATC
* * * *
6119621 TTGGGAAAAGCTCCTCTAAGCAAAGGCTTCATAAC-TTAAAAAAAAATCATC
1 TTGAGAAAAGCTCCTCTAAGCAAAGGCTCCACAACTTTAAAAAAAAATAATC
* * **
6119672 TT-AGAAAAGCTCCTATCAA-CAAAGGTTTAACAACTTTAAAAA
1 TTGAGAAAAGCTCCTCT-AAGCAAAGGCTCCACAACTTTAAAAA
6119714 TTCATCTTGG
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
50 24 0.30
51 26 0.33
52 29 0.37
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (52 bp):
TTGAGAAAAGCTCCTCTAAGCAAAGGCTCCACAACTTTAAAAAAAAATAATC
Found at i:6119711 original size:51 final size:52
Alignment explanation
Indices: 6119536--6119713 Score: 152
Period size: 52 Copynumber: 3.5 Consensus size: 52
6119526 AGGGCTCTAC
* * * * * * * *
6119536 TAAGCAGAGGCTTAACAACTTT---AAAGATTCATTTTGAAAAAAGCTCATC
1 TAAGCAAAGGCTTAACAACTTTAAAAAAAAATAATCTTGAGAAAAGCTCCTA
* ** * *
6119585 TAAGCAGAGGCTCCACAACTTTAAAAAAAAATAATCTTGGGAAAAGCTCCTC
1 TAAGCAAAGGCTTAACAACTTTAAAAAAAAATAATCTTGAGAAAAGCTCCTA
* * *
6119637 TAAGCAAAGGCTTCATAAC-TTAAAAAAAAATCATCTT-AGAAAAGCTCCTA
1 TAAGCAAAGGCTTAACAACTTTAAAAAAAAATAATCTTGAGAAAAGCTCCTA
*
6119687 TCAA-CAAAGGTTTAACAACTTTAAAAA
1 T-AAGCAAAGGCTTAACAACTTTAAAAA
6119714 TTCATCTTGG
Statistics
Matches: 106, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
49 20 0.19
50 24 0.23
51 26 0.25
52 36 0.34
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (52 bp):
TAAGCAAAGGCTTAACAACTTTAAAAAAAAATAATCTTGAGAAAAGCTCCTA
Found at i:6119895 original size:16 final size:17
Alignment explanation
Indices: 6119869--6119909 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
6119859 CTCATTTTGA
6119869 AAAAGGCTCTTCTTAGT
1 AAAAGGCTCTTCTTAGT
6119886 AAAA-GCTCTTCTTAG-
1 AAAAGGCTCTTCTTAGT
*
6119901 CAAAGGCTC
1 AAAAGGCTC
6119910 AACAACTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 15 0.68
17 4 0.18
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (17 bp):
AAAAGGCTCTTCTTAGT
Found at i:6119957 original size:115 final size:111
Alignment explanation
Indices: 6119786--6120006 Score: 289
Period size: 115 Copynumber: 2.0 Consensus size: 111
6119776 GGTTCTTTTC
* * * * * *
6119786 AGCAGAGGCTCAATAACTTTAAAATTCATCTTGAAAAAGCTTATCTCAGTAGAGGCTCAATAACT
1 AGCAAAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTTATCTAAGCAAAGGCTCAACAACT
* * *
6119851 TTAAAAATCTCATTTTGAAAAAGGCTCTTCTTAGTAAAAGCTCTTCTT
66 TTAAAAATC-CATCTTGAAAAA-GCTCATCTCAGTAAAAGCTCTTCTT
* * *
6119899 AGCAAAGGCTCAACAACTTTAAATTTCTCATCTTGGAAAAGCTTCTCTAAGCAAAGGCTCAACAA
1 AGCAAAGGCTCAACAACTTTAAA-AT-TCATCTTGAAAAAGCTTATCTAAGCAAAGGCTCAACAA
*
6119964 CTTTAAAAATCCATCTTGAAAAAGCTCATCTCAGTAAAGGCTC
64 CTTTAAAAATCCATCTTGAAAAAGCTCATCTCAGTAAAAGCTC
6120007 AACAACTTTA
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
113 38 0.41
114 12 0.13
115 43 0.46
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.29
Consensus pattern (111 bp):
AGCAAAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTTATCTAAGCAAAGGCTCAACAACT
TTAAAAATCCATCTTGAAAAAGCTCATCTCAGTAAAAGCTCTTCTT
Found at i:6120003 original size:48 final size:48
Alignment explanation
Indices: 6119886--6120260 Score: 298
Period size: 49 Copynumber: 7.8 Consensus size: 48
6119876 TCTTCTTAGT
* * * ** *
6119886 AAAAGCTCTTCTTAGCAAAGGCTCAACAACTTTAAATTTCTCATCTTGG
1 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATC-CATCTTGA
* *
6119935 AAAAGCTTCTCTAAGCAAAGGCTCAACAACTTTAAAAATCCATCTTGA
1 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCCATCTTGA
* * * * * * *
6119983 AAAAGCTCATCTCAGTAAAGGCTCAACAACTTTAAAATTCTCATATTGG
1 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATC-CATCTTGA
** ** **
6120032 AAAAGCTCCTCTAAGCAGATACTCAATGACTTTTGAAA---AT-TT--
1 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCCATCTTGA
* * * *
6120074 AAAAGGTCCTTTAAAG-AGAGGCTTAACAACTTTAAAAATCTATCTTGA
1 AAAAGCTCCTCT-AAGCAGAGGCTCAACAACTTTAAAAATCCATCTTGA
* ** * * * * *
6120122 AAAAGTTTATTTCAGCAGAGGCTCCACAACTTAAAAAAAAAT-CATCTTGGG
1 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTT---TAAAAATCCATCTT-GA
* *
6120173 AAAAGCTCCTCTAAGCAGAGGCTCAACAATTTTAAAAATTCATCTTGAA
1 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCCATCTTG-A
*
6120222 AAAAGCTCCTCTAAACAGAGGCTCAACAACTTTAAAAAT
1 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAT
6120261 TCATATTTTC
Statistics
Matches: 258, Mismatches: 53, Indels: 30
0.76 0.16 0.09
Matches are distributed among these distances:
42 25 0.10
43 3 0.01
44 2 0.01
45 4 0.02
46 2 0.01
47 2 0.01
48 72 0.28
49 111 0.43
50 5 0.02
51 32 0.12
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (48 bp):
AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCCATCTTGA
Found at i:6131587 original size:20 final size:20
Alignment explanation
Indices: 6131549--6131586 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6131539 AACGTGTGTG
6131549 AATTTTTTCTTTTTGTTTTC
1 AATTTTTTCTTTTTGTTTTC
6131569 AATTTGTTT-TTTTT-TTTT
1 AATTT-TTTCTTTTTGTTTT
6131587 TGACTTATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 10 0.59
21 3 0.18
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.79
Consensus pattern (20 bp):
AATTTTTTCTTTTTGTTTTC
Found at i:6131682 original size:260 final size:261
Alignment explanation
Indices: 6131213--6132001 Score: 1391
Period size: 260 Copynumber: 3.0 Consensus size: 261
6131203 TGCAAATATA
* * *
6131213 TCATAATTTATTAAGAGTAATATATACAAAAAAATAAAGCATAAGAGGTATAGTAAAAGAAACGT
1 TCATAATTTATTGAGAGTAATATATACAGAAAAATAAAGCATAAGAGGCATAGTAAAAGAAACGT
*
6131278 GTGTGAATTTTTTCTTTTTGTTTTCAATTTGTTTTGTTTTTTTTTTTTTTGAGTTATTGAAAGTG
66 GTGTGAATTTTTTCTTTTTGTTTTCAA-----TTTGTTTTTTTTTTTTTTGACTTATTGAAAGTG
*
6131343 AAAAATAAAAATCTAAAAAATCGATTAGGACTGTTTGAATCAAAATTTAAGGATAACATGTAGTT
126 AAAAATAAAAATCTAAAATATCGATTAGGACTGTTTGAATCAAAATTTAAGGATAACATGTAGTT
6131408 AATTTTGGCTTGACTCTTGAAAACAAATGGCATCCCTAGCGGAGTTGCCAAGTTGTCATAACGAT
191 AATTTTGGCTTGACTCTTGAAAACAAATGGCATCCCTAGCGGAGTTGCCAAGTTGTCATAACGAT
6131473 TTTGTG
256 TTTGTG
6131479 TCATAATTTATTGAGAGTAATATATACAGAAAAATAAAGCATAAGAGGCATAGTAAAAGAAACGT
1 TCATAATTTATTGAGAGTAATATATACAGAAAAATAAAGCATAAGAGGCATAGTAAAAGAAACGT
6131544 GTGTGAATTTTTTCTTTTTGTTTTCAATTTG-TTTTTTTTTTTTTGACTTATTGAAAGTGAAAAA
66 GTGTGAATTTTTTCTTTTTGTTTTCAATTTGTTTTTTTTTTTTTTGACTTATTGAAAGTGAAAAA
*
6131608 TAAAAATCTAAAATATCGATTAGGACTGTTTGAATCAAAATTTAAGGATAACATGTGGTTAATTT
131 TAAAAATCTAAAATATCGATTAGGACTGTTTGAATCAAAATTTAAGGATAACATGTAGTTAATTT
6131673 TGGCTTGACTCTTGAAAACAAATGGCATCCCTAGCGGAGTTGCCAAGTTGTCATAACGATTTTGT
196 TGGCTTGACTCTTGAAAACAAATGGCATCCCTAGCGGAGTTGCCAAGTTGTCATAACGATTTTGT
6131738 G
261 G
6131739 TCATAATTTATTGAGAGTAATATATACAGAAAAATAAAGCATAAGAGGCATAGTAAAAGAAACGT
1 TCATAATTTATTGAGAGTAATATATACAGAAAAATAAAGCATAAGAGGCATAGTAAAAGAAACGT
6131804 GTGTGAATTTTTTCTTTTTGTTTTCAATTTGTTTTTTTTTTTTTTGACTTATTGAAAGTGAAAAA
66 GTGTGAATTTTTTCTTTTTGTTTTCAATTTGTTTTTTTTTTTTTTGACTTATTGAAAGTGAAAAA
* *
6131869 TAAAAATCTAAAATATCGATTAGGACTGTTGGAATCAAAATTTAAGGATAAAATGTAGTTAATTT
131 TAAAAATCTAAAATATCGATTAGGACTGTTTGAATCAAAATTTAAGGATAACATGTAGTTAATTT
* * * * * * *
6131934 TGGCTTGACTGTCGAAAACAAATGGCATCCCTAGCGGAGTCGCCCAGCTGTCATAACAATTTTAT
196 TGGCTTGACTCTTGAAAACAAATGGCATCCCTAGCGGAGTTGCCAAGTTGTCATAACGATTTTGT
6131999 G
261 G
6132000 TC
1 TC
6132002 TACCTGATAA
Statistics
Matches: 506, Mismatches: 16, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
260 257 0.51
261 160 0.32
266 89 0.18
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.37
Consensus pattern (261 bp):
TCATAATTTATTGAGAGTAATATATACAGAAAAATAAAGCATAAGAGGCATAGTAAAAGAAACGT
GTGTGAATTTTTTCTTTTTGTTTTCAATTTGTTTTTTTTTTTTTTGACTTATTGAAAGTGAAAAA
TAAAAATCTAAAATATCGATTAGGACTGTTTGAATCAAAATTTAAGGATAACATGTAGTTAATTT
TGGCTTGACTCTTGAAAACAAATGGCATCCCTAGCGGAGTTGCCAAGTTGTCATAACGATTTTGT
G
Found at i:6131847 original size:20 final size:20
Alignment explanation
Indices: 6131809--6131846 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6131799 AACGTGTGTG
6131809 AATTTTTTCTTTTTGTTTTC
1 AATTTTTTCTTTTTGTTTTC
6131829 AATTTGTTT-TTTTT-TTTT
1 AATTT-TTTCTTTTTGTTTT
6131847 TTGACTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 10 0.59
21 3 0.18
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.79
Consensus pattern (20 bp):
AATTTTTTCTTTTTGTTTTC
Found at i:6132624 original size:12 final size:13
Alignment explanation
Indices: 6132593--6132626 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
6132583 TTTTTAGAAA
6132593 TTTTA-TTAATTG
1 TTTTATTTAATTG
6132605 TTTTATTTAATT-
1 TTTTATTTAATTG
6132617 TTTTATTTAA
1 TTTTATTTAA
6132627 AAAAAGAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (13 bp):
TTTTATTTAATTG
Found at i:6133194 original size:9 final size:10
Alignment explanation
Indices: 6133172--6133197 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6133162 ATATATATAT
6133172 AAAAATTTCA
1 AAAAATTTCA
6133182 AAAAATTTCA
1 AAAAATTTCA
6133192 AAAAAT
1 AAAAAT
6133198 ATTTTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATTTCA
Found at i:6134103 original size:1 final size:1
Alignment explanation
Indices: 6134099--6134168 Score: 59
Period size: 1 Copynumber: 70.0 Consensus size: 1
6134089 CCAAAAAGAG
* * * * * * * * *
6134099 AAAAAAACAAAAAAAAACAAAAAAAAAGAAAAAGAAAAAAAGAAGAAAAAATAAAAAAATAAAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6134164 AAAAA
1 AAAAA
6134169 TAAATTAATT
Statistics
Matches: 51, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.87, C:0.03, G:0.06, T:0.04
Consensus pattern (1 bp):
A
Found at i:6134104 original size:10 final size:9
Alignment explanation
Indices: 6134091--6134157 Score: 59
Period size: 9 Copynumber: 7.4 Consensus size: 9
6134081 AAAAGTTACC
6134091 AAAAAGAGAA
1 AAAAAGA-AA
*
6134101 AAAAACAAA
1 AAAAAGAAA
6134110 AAAAA-ACAA
1 AAAAAGA-AA
*
6134119 AAAAA-AAG
1 AAAAAGAAA
6134127 AAAAAG-AA
1 AAAAAGAAA
6134135 AAAAAGAAGA
1 AAAAAGAA-A
*
6134145 AAAAATAAA
1 AAAAAGAAA
6134154 AAAA
1 AAAA
6134158 TAAAATAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
8 14 0.29
9 21 0.43
10 14 0.29
ACGTcount: A:0.87, C:0.03, G:0.09, T:0.01
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:6134137 original size:34 final size:35
Alignment explanation
Indices: 6134092--6134157 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 35
6134082 AAAGTTACCA
6134092 AAAAGAGAAAAAAACAAAAAAAAACAAAAAAAAAG
1 AAAAGAGAAAAAAACAAAAAAAAACAAAAAAAAAG
* * *
6134127 AAAA-AGAAAAAAAGAAGAAAAAATAAAAAAA
1 AAAAGAGAAAAAAACAAAAAAAAACAAAAAAA
6134158 TAAAATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 24 0.86
35 4 0.14
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.02
Consensus pattern (35 bp):
AAAAGAGAAAAAAACAAAAAAAAACAAAAAAAAAG
Found at i:6139522 original size:18 final size:18
Alignment explanation
Indices: 6139465--6139527 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
6139455 GGGAACAAGT
*
6139465 GTTGGTTTTGTGATTTGGG
1 GTTGGTTTTG-GATTTGGA
* ***
6139484 GCTTGG-TTTGGGTTCAAA
1 G-TTGGTTTTGGATTTGGA
6139502 GTTGGTTTTGGATTTGGA
1 GTTGGTTTTGGATTTGGA
6139520 GTTGGTTT
1 GTTGGTTT
6139528 AGAGTTTAGG
Statistics
Matches: 33, Mismatches: 9, Indels: 5
0.70 0.19 0.11
Matches are distributed among these distances:
17 4 0.12
18 20 0.61
19 5 0.15
20 4 0.12
ACGTcount: A:0.10, C:0.03, G:0.38, T:0.49
Consensus pattern (18 bp):
GTTGGTTTTGGATTTGGA
Found at i:6139583 original size:7 final size:7
Alignment explanation
Indices: 6139553--6139702 Score: 109
Period size: 7 Copynumber: 22.3 Consensus size: 7
6139543 ATTTTAAAAG
6139553 TTAGGGT
1 TTAGGGT
6139560 TTA-GGT
1 TTAGGGT
*
6139566 TTAGGATT
1 TTAGG-GT
6139574 TTAGGGT
1 TTAGGGT
6139581 TTA-GGT
1 TTAGGGT
6139587 TTAGGG-
1 TTAGGGT
*
6139593 TTAGAGT
1 TTAGGGT
*
6139600 TTAGAGT
1 TTAGGGT
6139607 TTAGGGT
1 TTAGGGT
*
6139614 TTAAGGT
1 TTAGGGT
6139621 TT--GGT
1 TTAGGGT
**
6139626 TTAGGAA
1 TTAGGGT
6139633 TT-GGAGT
1 TTAGG-GT
*
6139640 TTAAGGT
1 TTAGGGT
*
6139647 TTAGTGT
1 TTAGGGT
6139654 TT--GGT
1 TTAGGGT
*
6139659 TTAGGTT
1 TTAGGGT
*
6139666 TTAGGCT
1 TTAGGGT
6139673 TTAGGGT
1 TTAGGGT
* *
6139680 TTAAGTT
1 TTAGGGT
*
6139687 TTAGGGC
1 TTAGGGT
6139694 TTAGGGT
1 TTAGGGT
6139701 TT
1 TT
6139703 GGTTTGTATG
Statistics
Matches: 111, Mismatches: 22, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
5 9 0.08
6 19 0.17
7 76 0.68
8 7 0.06
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Found at i:6139587 original size:27 final size:27
Alignment explanation
Indices: 6139558--6139698 Score: 91
Period size: 26 Copynumber: 5.3 Consensus size: 27
6139548 AAAAGTTAGG
* *
6139558 GTTTAGGTTTAGGATTTTAGGGTTTA-G
1 GTTTAGGTTTA-GAGTTTAGAGTTTAGG
*
6139585 GTTTAGGGTTAGAGTTTAGAGTTTAGG
1 GTTTAGGTTTAGAGTTTAGAGTTTAGG
*
6139612 GTTTAAGGTTT-G-GTTTAG-GAATT-GG
1 GTTT-AGGTTTAGAGTTTAGAG-TTTAGG
*
6139637 AGTTTAAGGTTTAGTGTTT-G-GTTTAGG
1 -GTTT-AGGTTTAGAGTTTAGAGTTTAGG
* *
6139664 TTTTAGGCTTTAGGGTTTA-AGTTTTAGG
1 GTTTAGG-TTTAGAGTTTAGAG-TTTAGG
*
6139692 GCTTAGG
1 GTTTAGG
6139699 GTTTGGTTTG
Statistics
Matches: 93, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
25 6 0.06
26 45 0.48
27 22 0.24
28 20 0.22
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.45
Consensus pattern (27 bp):
GTTTAGGTTTAGAGTTTAGAGTTTAGG
Found at i:6139615 original size:33 final size:33
Alignment explanation
Indices: 6139553--6139698 Score: 122
Period size: 33 Copynumber: 4.3 Consensus size: 33
6139543 ATTTTAAAAG
*
6139553 TTAGGGTTTAGGTTTAGGATTTTAGGGTTT-AGGT
1 TTAGGG-TTAGGTTTA-GAGTTTAGGGTTTAAGGT
6139587 TTAGGGTTAGAGTTTAGAGTTTAGGGTTTAAGGT
1 TTAGGGTTAG-GTTTAGAGTTTAGGGTTTAAGGT
* * * *
6139621 TT-GGTTTAGGAATTGGAGTTTAAGGTTT-AGTGT
1 TTAGGGTTAGG-TTTAGAGTTTAGGGTTTAAG-GT
* *
6139654 TT-GGTTTAGGTTTTAG-GCTTTAGGGTTTAAGTT
1 TTAGGGTTAGG-TTTAGAG-TTTAGGGTTTAAGGT
6139687 TTAGGGCTTAGG
1 TTAGGG-TTAGG
6139699 GTTTGGTTTG
Statistics
Matches: 93, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
32 4 0.04
33 63 0.68
34 21 0.23
35 5 0.05
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.45
Consensus pattern (33 bp):
TTAGGGTTAGGTTTAGAGTTTAGGGTTTAAGGT
Found at i:6139810 original size:17 final size:18
Alignment explanation
Indices: 6139788--6139821 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6139778 TGGAAACAAA
6139788 CATA-TTACAAACATATG
1 CATATTTACAAACATATG
*
6139805 CATATTTACAAATATAT
1 CATATTTACAAACATAT
6139822 TACAAACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (18 bp):
CATATTTACAAACATATG
Found at i:6141711 original size:20 final size:20
Alignment explanation
Indices: 6141686--6141731 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
6141676 AGCTCAATCC
6141686 AATTTGAC-TGATTTTGACCA
1 AATTTGACATGA-TTTGACCA
*
6141706 AATTTGACATTATTTGACCA
1 AATTTGACATGATTTGACCA
*
6141726 GATTTG
1 AATTTG
6141732 GCAAAGTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (20 bp):
AATTTGACATGATTTGACCA
Found at i:6141987 original size:4 final size:4
Alignment explanation
Indices: 6141976--6142025 Score: 75
Period size: 4 Copynumber: 12.8 Consensus size: 4
6141966 AAAGATTTTT
* *
6141976 TTTG -TTG TTTG TTTA TTTG TTTG TTTG TTTG TTTA TTTG TTTG TTTG
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG
6142023 TTT
1 TTT
6142026 ATTTTTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 3 0.07
4 38 0.93
ACGTcount: A:0.04, C:0.00, G:0.20, T:0.76
Consensus pattern (4 bp):
TTTG
Found at i:6142003 original size:20 final size:20
Alignment explanation
Indices: 6141976--6142025 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
6141966 AAAGATTTTT
6141976 TTTG-TTGTTTGTTTATTTG
1 TTTGTTTGTTTGTTTATTTG
6141995 TTTGTTTGTTTGTTTATTTG
1 TTTGTTTGTTTGTTTATTTG
6142015 TTTGTTTGTTT
1 TTTGTTTGTTT
6142026 ATTTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.04, C:0.00, G:0.20, T:0.76
Consensus pattern (20 bp):
TTTGTTTGTTTGTTTATTTG
Found at i:6142173 original size:41 final size:41
Alignment explanation
Indices: 6142077--6142599 Score: 124
Period size: 41 Copynumber: 12.8 Consensus size: 41
6142067 CAAAACTAAG
* *
6142077 AGACTTTGGATTCACGTCAAAGAAAATGATTCACAGTTGAA
1 AGACTTTGGATTCACATCAAAGAAAACGATTCACAGTTGAA
* * * *
6142118 GGA-TTCTGGGTTCACAT-AAGTGGAAACGATTCACAGTTGAA
1 AGACTT-TGGATTCACATCAA-AGAAAACGATTCACAGTTGAA
* * ** ** *
6142159 AGACTTTGGATTCACAACAAAGTAAGTGACACATAGTT-AA
1 AGACTTTGGATTCACATCAAAGAAAACGATTCACAGTTGAA
* * * * * * *
6142199 AGGACTCTGAATTCATAAT-AAAGTAAATGATTGATAGTTTG-A
1 A-GACTTTGGATTCA-CATCAAAGAAAACGATTCACAG-TTGAA
* * * * * *
6142241 GGACTCTGGATTCATGA-CGAAGTAAACAATTCACAGTT-AGA
1 AGACTTTGGATTCA-CATCAAAGAAAACGATTCACAGTTGA-A
* * * ** * *
6142282 AGACTTTGGATTAACAAT-AGAGTAATTGATTTATAGTT-AGA
1 AGACTTTGGATTCAC-ATCAAAGAAAACGATTCACAGTTGA-A
* * * ** * * * *
6142323 GGACTTTAGATTCATAAT-AGGGTAAATGATTCATAATTGAA
1 AGACTTTGGATTCA-CATCAAAGAAAACGATTCACAGTTGAA
* * * * * * *
6142364 GGGCTCTT-AAATCACAT-AAGAGAAAACAATTCATAGTTGGA
1 AGACT-TTGGATTCACATCAA-AGAAAACGATTCACAGTTGAA
* * * * * *
6142405 GGACTTTAGATTCATAAT-AGAGCAAATGATTCACAGTT-AGA
1 AGACTTTGGATTCA-CATCAAAGAAAACGATTCACAGTTGA-A
* * * ** *
6142446 GGACTTTGGATTCACATTAAAGAAAATGGCTCACAGTT-AG
1 AGACTTTGGATTCACATCAAAGAAAACGATTCACAGTTGAA
* *
6142486 AGTACTTTGGATTCATAT-AAGAGAAAATGATTCACAGTTGAA
1 AG-ACTTTGGATTCACATCAA-AGAAAACGATTCACAGTTGAA
* * * * * * * *
6142528 AGGCTTTGGATTCACAACAGAGTATATGATTCATAGTTGGA
1 AGACTTTGGATTCACATCAAAGAAAACGATTCACAGTTGAA
* * *
6142569 AGACTTTGGATTCATAACAAGGAAAACGATT
1 AGACTTTGGATTCACATCAAAGAAAACGATT
6142600 AGAAAACTTA
Statistics
Matches: 358, Mismatches: 99, Indels: 50
0.71 0.20 0.10
Matches are distributed among these distances:
40 19 0.05
41 321 0.90
42 18 0.05
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (41 bp):
AGACTTTGGATTCACATCAAAGAAAACGATTCACAGTTGAA
Found at i:6142458 original size:22 final size:22
Alignment explanation
Indices: 6142432--6142500 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 22
6142422 TAGAGCAAAT
6142432 GATTCACAGTTAGAGGACTTTG
1 GATTCACAGTTAGAGGACTTTG
* ***
6142454 GATTCACA-TTA-AAGAAAATG
1 GATTCACAGTTAGAGGACTTTG
* *
6142474 G-CTCACAGTTAGAGTACTTTG
1 GATTCACAGTTAGAGGACTTTG
6142495 GATTCA
1 GATTCA
6142501 TATAAGAGAA
Statistics
Matches: 33, Mismatches: 11, Indels: 6
0.66 0.22 0.12
Matches are distributed among these distances:
19 5 0.15
20 9 0.27
21 8 0.24
22 11 0.33
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.30
Consensus pattern (22 bp):
GATTCACAGTTAGAGGACTTTG
Found at i:6142594 original size:82 final size:81
Alignment explanation
Indices: 6142077--6142599 Score: 299
Period size: 82 Copynumber: 6.4 Consensus size: 81
6142067 CAAAACTAAG
*** * * * *
6142077 AGACTTTGGATTCACGTCAAAGAAAATGATTCACAGTTGAAGGATTCTGGGTTCAC-ATA-AGTG
1 AGACTTTGGATTCATAACAAGGAAAATGATTCACAGTTAAAGGCTT-TGGATTCACAATAGAGT-
* * *
6142140 GAAACGATTCACAGTTGAA
64 -AAATGATTCATAGTTGGA
* * * * ** * * * * *
6142159 AGACTTTGGATTCACAACAAAGTAAGTGACACATAGTTAAAGGACTCTGAATTCATAATAAAGTA
1 AGACTTTGGATTCATAACAAGGAAAATGATTCACAGTTAAAGG-CTTTGGATTCACAATAGAGTA
* *
6142224 AATGATTGATAGTTTGA
65 AATGATTCATAGTTGGA
* * * * * *
6142241 GGACTCTGGATTCATGACGAAGTAAACA--ATTCACAGTTAGAAGACTTTGGATTAACAATAGAG
1 AGACTTTGGATTCATAAC-AAGGAAA-ATGATTCACAGTTA-AAGGCTTTGGATTCACAATAGAG
* * *
6142304 TAATTGATTTATAGTTAGA
63 TAAATGATTCATAGTTGGA
* * * * * * * * * *
6142323 GGACTTTAGATTCATAATAGGGTAAATGATTCATAATTGAAGGGCTCTT-AAATCAC-ATAAGAG
1 AGACTTTGGATTCATAACAAGGAAAATGATTCACAGTT-AAAGGCT-TTGGATTCACAAT-AGAG
* **
6142386 AAAACAATTCATAGTTGGA
63 TAAATGATTCATAGTTGGA
* * * * * * * *
6142405 GGACTTTAGATTCATAA-TAGAGCAAATGATTCACAGTTAGAGGACTTTGGATTCACATTAAAGA
1 AGACTTTGGATTCATAACAAG-GAAAATGATTCACAGTTAAAGG-CTTTGGATTCACAATAGAGT
** * *
6142469 AAATGGCTCACAGTTAG-
64 AAATGATTCATAGTTGGA
* *
6142486 AGTACTTTGGATTCAT-ATAAGAGAAAATGATTCACAGTTGAAAGGCTTTGGATTCACAACAGAG
1 AG-ACTTTGGATTCATAACAAG-GAAAATGATTCACAGTT-AAAGGCTTTGGATTCACAATAGAG
*
6142550 TATATGATTCATAGTTGGA
63 TAAATGATTCATAGTTGGA
*
6142569 AGACTTTGGATTCATAACAAGGAAAACGATT
1 AGACTTTGGATTCATAACAAGGAAAATGATT
6142600 AGAAAACTTA
Statistics
Matches: 330, Mismatches: 91, Indels: 40
0.72 0.20 0.09
Matches are distributed among these distances:
80 1 0.00
81 14 0.04
82 287 0.87
83 25 0.08
84 3 0.01
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (81 bp):
AGACTTTGGATTCATAACAAGGAAAATGATTCACAGTTAAAGGCTTTGGATTCACAATAGAGTAA
ATGATTCATAGTTGGA
Found at i:6142786 original size:34 final size:34
Alignment explanation
Indices: 6142748--6142853 Score: 113
Period size: 34 Copynumber: 3.1 Consensus size: 34
6142738 ACAAATATTG
* * * * *
6142748 CAAGAGTAAAATATTCACAACTTTTAATGATTCA
1 CAAGAATAAAAGATTCACAAATTTCAAAGATTCA
*
6142782 CAAGAATCAAAGATTCACAAATTTCAAAGATTCA
1 CAAGAATAAAAGATTCACAAATTTCAAAGATTCA
* * * * *
6142816 CATGGACAAAAAATTCACAAATTCCAAAGATTCA
1 CAAGAATAAAAGATTCACAAATTTCAAAGATTCA
6142850 CAAG
1 CAAG
6142854 GGTCAAGGAT
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.25
Consensus pattern (34 bp):
CAAGAATAAAAGATTCACAAATTTCAAAGATTCA
Found at i:6142796 original size:17 final size:17
Alignment explanation
Indices: 6142776--6142853 Score: 63
Period size: 17 Copynumber: 4.6 Consensus size: 17
6142766 AACTTTTAAT
6142776 GATTCACAAGAATCAAA
1 GATTCACAAGAATCAAA
*
6142793 GATTCACAA-ATTTCAAA
1 GATTCACAAGA-ATCAAA
* *
6142810 GATTCACATGGA-CAAAA
1 GATTCACAAGAATC-AAA
* *
6142827 AATTCACAA-ATTCCAAA
1 GATTCACAAGAAT-CAAA
6142844 GATTCACAAG
1 GATTCACAAG
6142854 GGTCAAGGAT
Statistics
Matches: 46, Mismatches: 9, Indels: 11
0.70 0.14 0.17
Matches are distributed among these distances:
16 2 0.04
17 43 0.93
18 1 0.02
ACGTcount: A:0.49, C:0.19, G:0.10, T:0.22
Consensus pattern (17 bp):
GATTCACAAGAATCAAA
Found at i:6145261 original size:16 final size:16
Alignment explanation
Indices: 6145240--6145275 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6145230 AAACAAGCTC
* *
6145240 ATACCAATTGTTAAGG
1 ATACCAATTATTAAAG
6145256 ATACCAATTATTAAAG
1 ATACCAATTATTAAAG
6145272 ATAC
1 ATAC
6145276 GTTATCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (16 bp):
ATACCAATTATTAAAG
Found at i:6148395 original size:8 final size:8
Alignment explanation
Indices: 6148382--6148406 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6148372 TGTTTTTCAT
6148382 TCATCAAA
1 TCATCAAA
6148390 TCATCAAA
1 TCATCAAA
6148398 TCATCAAA
1 TCATCAAA
6148406 T
1 T
6148407 TTCTTTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (8 bp):
TCATCAAA
Found at i:6148417 original size:21 final size:20
Alignment explanation
Indices: 6148393--6148435 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
6148383 CATCAAATCA
**
6148393 TCAAATCATCAAATTTCTTTT
1 TCAAATCAAAAAATTT-TTTT
6148414 TCAAATCAAAAAATTTTTTT
1 TCAAATCAAAAAATTTTTTT
6148434 TC
1 TC
6148436 TAAAATTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (20 bp):
TCAAATCAAAAAATTTTTTT
Found at i:6150732 original size:72 final size:72
Alignment explanation
Indices: 6150650--6150805 Score: 197
Period size: 73 Copynumber: 2.2 Consensus size: 72
6150640 TGCAAGAAGA
** *
6150650 GTTAAAGATTCAAAAAGTTCAAAGATTTGCAAAAG-ACAAAGATTTGTAAATTTCAAAGTTTCAT
1 GTTAAAGATTCAAAAAGTTCAAAGATTCACAAAAGTACAAAGATTTGTAAATTTCAAAGTTTCAC
*
6150714 AAAATGG
66 AAAAGGG
* * * ** *
6150721 GTTAAAAGATTCACAAATTTCAAATATTCACAAGGGTTCAAAGATTTGTAAATTTCAAAGTTTCA
1 GTT-AAAGATTCAAAAAGTTCAAAGATTCACAAAAGTACAAAGATTTGTAAATTTCAAAGTTTCA
*
6150786 CAAGAGGG
65 CAAAAGGG
6150794 GTTAAAGATTCA
1 GTTAAAGATTCA
6150806 CAAATACAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
71 3 0.04
72 34 0.47
73 35 0.49
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (72 bp):
GTTAAAGATTCAAAAAGTTCAAAGATTCACAAAAGTACAAAGATTTGTAAATTTCAAAGTTTCAC
AAAAGGG
Found at i:6150765 original size:35 final size:37
Alignment explanation
Indices: 6150697--6150810 Score: 119
Period size: 35 Copynumber: 3.1 Consensus size: 37
6150687 AAAGATTTGT
* * *
6150697 AAATTTCAAAGTTTCATAAAATGGGTTAAAAGATTCAC
1 AAATTTCAAAGTTTCACAAGAGGGGTT-AAAGATTCAC
***
6150735 AAATTTCAAA-TATTCAC-A-A-GGGTTCAAAGATTTGT
1 AAATTTCAAAGT-TTCACAAGAGGGGTT-AAAGATTCAC
6150770 AAATTTCAAAGTTTCACAAGAGGGGTTAAAGATTCAC
1 AAATTTCAAAGTTTCACAAGAGGGGTTAAAGATTCAC
6150807 AAAT
1 AAAT
6150811 ACAAACATAA
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
35 27 0.43
36 3 0.05
37 14 0.22
38 19 0.30
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (37 bp):
AAATTTCAAAGTTTCACAAGAGGGGTTAAAGATTCAC
Found at i:6152369 original size:25 final size:25
Alignment explanation
Indices: 6152301--6152416 Score: 142
Period size: 25 Copynumber: 4.6 Consensus size: 25
6152291 ATTTAATATT
* *
6152301 ATATTTTCATTATGTCATTTCATTGC
1 ATATTTTAATTATGTTATTTCA-TGC
*
6152327 ATATTTTAATTATGTTATTTCATGT
1 ATATTTTAATTATGTTATTTCATGC
* *
6152352 ATATTTTAAATATATTATTTCATGC
1 ATATTTTAATTATGTTATTTCATGC
* *
6152377 ATATTTTAATTATGTCATTTCATAC
1 ATATTTTAATTATGTTATTTCATGC
* *
6152402 ATGTTTAAATTATGT
1 ATATTTTAATTATGT
6152417 CATTGATTAT
Statistics
Matches: 78, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
25 58 0.74
26 20 0.26
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.54
Consensus pattern (25 bp):
ATATTTTAATTATGTTATTTCATGC
Found at i:6153964 original size:11 final size:11
Alignment explanation
Indices: 6153931--6153964 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
6153921 CTTTTGTTCT
*
6153931 AAGAAAAAAAG
1 AAGAAAAAAAA
6153942 AAGACAAAAAAA
1 AAGA-AAAAAAA
6153954 AAGAAAAAAAA
1 AAGAAAAAAAA
6153965 TTTGTTGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:6154677 original size:8 final size:7
Alignment explanation
Indices: 6154660--6154731 Score: 54
Period size: 7 Copynumber: 9.4 Consensus size: 7
6154650 GGGGGAATGC
6154660 AAAAAAG
1 AAAAAAG
6154667 AAAAAAGG
1 AAAAAA-G
*
6154675 AAAAAAAAT
1 --AAAAAAG
*
6154684 AAAAAAT
1 AAAAAAG
6154691 AAAAAAG
1 AAAAAAG
*
6154698 AGAGAAAAA
1 A-A-AAAAG
6154707 AAAAAAG
1 AAAAAAG
6154714 AAAGAAAG
1 AAA-AAAG
*
6154722 AAAGAAG
1 AAAAAAG
6154729 AAA
1 AAA
6154732 GAGGAAAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
7 33 0.61
8 10 0.19
9 5 0.09
10 6 0.11
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:6154681 original size:16 final size:15
Alignment explanation
Indices: 6154660--6154731 Score: 65
Period size: 16 Copynumber: 4.7 Consensus size: 15
6154650 GGGGGAATGC
*
6154660 AAAAAAGAAAAAAGG
1 AAAAAAGAAAAAAAG
* *
6154675 AAAAAAAATAAAAAAT
1 AAAAAAGA-AAAAAAG
6154691 AAAAAAGAGAGAAAAA-
1 AAAAAAGA-A-AAAAAG
*
6154707 AAAAAAGAAAGAAAG
1 AAAAAAGAAAAAAAG
*
6154722 AAAGAAGAAA
1 AAAAAAGAAA
6154732 GAGGAAAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
14 4 0.09
15 17 0.36
16 21 0.45
17 5 0.11
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:6154698 original size:31 final size:32
Alignment explanation
Indices: 6154660--6154740 Score: 80
Period size: 31 Copynumber: 2.6 Consensus size: 32
6154650 GGGGGAATGC
* *
6154660 AAAAAAGAAAAAAGGAAAAAAAATAAA-AAAT
1 AAAAAAGAAAAAAGGAAAAAAAAGAAAGAAAG
*
6154691 AAAAAAGAGAGAAA--AAAAAAAAGAAAGAAAG
1 AAAAAAGA-AAAAAGGAAAAAAAAGAAAGAAAG
* *
6154722 AAAGAAG-AAAGAGGAAAAA
1 AAAAAAGAAAAAAGGAAAAA
6154741 TTTTTGGTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
29 3 0.08
30 11 0.28
31 22 0.55
32 4 0.10
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (32 bp):
AAAAAAGAAAAAAGGAAAAAAAAGAAAGAAAG
Found at i:6154707 original size:35 final size:35
Alignment explanation
Indices: 6154665--6154740 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 35
6154655 AATGCAAAAA
* *
6154665 AGAAAAAAGGAAAAA-AAATAAA-AAATAAAAAAGAG
1 AGAAAAAA--AAAAAGAAAGAAAGAAAGAAAAAAGAG
*
6154700 AGAAAAAAAAAAAGAAAGAAAGAAAGAAGAAAGAG
1 AGAAAAAAAAAAAGAAAGAAAGAAAGAAAAAAGAG
6154735 -GAAAAA
1 AGAAAAA
6154741 TTTTTGGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 5 0.14
34 12 0.33
35 19 0.53
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (35 bp):
AGAAAAAAAAAAAGAAAGAAAGAAAGAAAAAAGAG
Found at i:6154709 original size:20 final size:20
Alignment explanation
Indices: 6154661--6154724 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 20
6154651 GGGGAATGCA
6154661 AAAAAGAAAAAAGGAAA-AAA-
1 AAAAA-AAAAAA-GAAAGAAAG
*
6154681 AATAAAAAATAAA-AAAGAGAG
1 AA-AAAAAA-AAAGAAAGAAAG
6154702 AAAAAAAAAAAGAAAGAAAG
1 AAAAAAAAAAAGAAAGAAAG
6154722 AAA
1 AAA
6154725 GAAGAAAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
19 6 0.16
20 23 0.62
21 8 0.22
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAAAGAAAGAAAG
Found at i:6154727 original size:24 final size:24
Alignment explanation
Indices: 6154660--6154727 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 24
6154650 GGGGGAATGC
6154660 AAAAAAGAAAAAAGGAAA-AAAAAT
1 AAAAAAGAAAAAA-GAAAGAAAAAT
* *
6154684 AAAAAATAAAAAAGAGAGAAAAA-
1 AAAAAAGAAAAAAGAAAGAAAAAT
6154707 AAAAAAGAAAGAAAGAAAGAA
1 AAAAAAGAAA-AAAGAAAGAA
6154728 GAAAGAGGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.32
24 26 0.68
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (24 bp):
AAAAAAGAAAAAAGAAAGAAAAAT
Found at i:6155186 original size:26 final size:26
Alignment explanation
Indices: 6155166--6155275 Score: 73
Period size: 28 Copynumber: 4.1 Consensus size: 26
6155156 CGAAAGGAAA
6155166 GAAAAATAGAGAAAAAAGAAAAAAAAT
1 GAAAAATAGA-AAAAAAGAAAAAAAAT
*
6155193 GAAAGATAGAAAAAAAGAGGAAAAAAA-
1 GAAAAATAGAAAAAAAGA--AAAAAAAT
** ** *
6155220 -AAAGAA-AGAGGAAAATTAAAAAAAG
1 GAAA-AATAGAAAAAAAGAAAAAAAAT
* *
6155245 GAAAAAAAAAGAAAAAAAGAAGAAAAAT
1 G--AAAAATAGAAAAAAAGAAAAAAAAT
6155273 GAA
1 GAA
6155276 TGATTGAGTG
Statistics
Matches: 63, Mismatches: 12, Indels: 17
0.68 0.13 0.18
Matches are distributed among these distances:
24 7 0.11
26 20 0.32
27 12 0.19
28 24 0.38
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.05
Consensus pattern (26 bp):
GAAAAATAGAAAAAAAGAAAAAAAAT
Found at i:6155197 original size:14 final size:14
Alignment explanation
Indices: 6155180--6155262 Score: 55
Period size: 14 Copynumber: 5.6 Consensus size: 14
6155170 AATAGAGAAA
*
6155180 AAAGAAAAAAAATG
1 AAAGAAAAAAAAAG
6155194 AAAGATAGAAAAAAAG
1 AAAGA-A-AAAAAAAG
*
6155210 -AGGAAAAAAAAAAG
1 AAAG-AAAAAAAAAG
6155224 AAAGAGGAAAATTAAAA-
1 AAAGA--AAAA--AAAAG
6155241 AAAGGAAAAAAAAAG
1 AAA-GAAAAAAAAAG
6155256 AAA-AAAA
1 AAAGAAAA
6155263 GAAGAAAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 21
0.70 0.04 0.26
Matches are distributed among these distances:
13 4 0.07
14 18 0.32
15 9 0.16
16 16 0.29
17 3 0.05
18 6 0.11
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (14 bp):
AAAGAAAAAAAAAG
Found at i:6155227 original size:18 final size:16
Alignment explanation
Indices: 6155202--6155254 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
6155192 TGAAAGATAG
6155202 AAAAAAAGAGGAAAAAA
1 AAAAAAAGAGG-AAAAA
*
6155219 AAAAGAAAGAGGAAAAT
1 AAAA-AAAGAGGAAAAA
*
6155236 TAAAAAA-AGGAAAAA
1 AAAAAAAGAGGAAAAA
6155251 AAAA
1 AAAA
6155255 GAAAAAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 10 0.32
16 3 0.10
17 11 0.35
18 7 0.23
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (16 bp):
AAAAAAAGAGGAAAAA
Found at i:6155264 original size:36 final size:37
Alignment explanation
Indices: 6155167--6155270 Score: 99
Period size: 36 Copynumber: 2.9 Consensus size: 37
6155157 GAAAGGAAAG
* * *
6155167 AAAAATAGAGAAAAAAGAAAAAAA-ATGAAAGATAGAA
1 AAAAAGAGAAAAAAAAGAAAAAAAGAAGAAA-ATAGAA
* * * *
6155204 AAAAAGAGGAAAAAAA-AAAGAAAGAGGAAAAT-TAA
1 AAAAAGAGAAAAAAAAGAAAAAAAGAAGAAAATAGAA
6155239 AAAAAG-GAAAAAAAAAGAAAAAAAGAAGAAAA
1 AAAAAGAG-AAAAAAAAGAAAAAAAGAAGAAAA
6155271 ATGAATGATT
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
34 1 0.02
35 15 0.27
36 21 0.38
37 18 0.33
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (37 bp):
AAAAAGAGAAAAAAAAGAAAAAAAGAAGAAAATAGAA
Found at i:6155271 original size:10 final size:10
Alignment explanation
Indices: 6155177--6155271 Score: 59
Period size: 10 Copynumber: 9.2 Consensus size: 10
6155167 AAAAATAGAG
6155177 AAAAAAGAAA
1 AAAAAAGAAA
*
6155187 AAAAATG--A
1 AAAAAAGAAA
* *
6155195 AAGATAGAAA
1 AAAAAAGAAA
*
6155205 AAAAGAGGAAAA
1 AAAA-AAG-AAA
6155217 AAAAAAGAAA
1 AAAAAAGAAA
* **
6155227 GAGGAAAATTAA
1 -A-AAAAAGAAA
*
6155239 AAAAAGGAAA
1 AAAAAAGAAA
6155249 AAAAAAGAAA
1 AAAAAAGAAA
6155259 AAAAGAAGAAA
1 AAAA-AAGAAA
6155270 AA
1 AA
6155272 TGAATGATTG
Statistics
Matches: 62, Mismatches: 16, Indels: 13
0.68 0.18 0.14
Matches are distributed among these distances:
8 5 0.08
10 31 0.50
11 13 0.21
12 13 0.21
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:6156733 original size:17 final size:17
Alignment explanation
Indices: 6156711--6156748 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
6156701 TCTTATGAAA
6156711 CTTTGAAAT-TTACAAAT
1 CTTTG-AATCTTACAAAT
*
6156728 CTTTGACTCTTACAAAT
1 CTTTGAATCTTACAAAT
6156745 CTTT
1 CTTT
6156749 AAAAACTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (17 bp):
CTTTGAATCTTACAAAT
Found at i:6156842 original size:22 final size:22
Alignment explanation
Indices: 6156817--6156886 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
6156807 TTCTCTATTG
6156817 TGAATCAAAGTTTTCCAAACTA
1 TGAATCAAAGTTTTCCAAACTA
* *
6156839 TGAATC--A-TTTACTC-TACTA
1 TGAATCAAAGTTTTC-CAAACTA
*
6156858 TGAATCCAAAGTCTT-CAAACTA
1 TGAAT-CAAAGTTTTCCAAACTA
6156880 TGAATCA
1 TGAATCA
6156887 TTTACTCTAC
Statistics
Matches: 37, Mismatches: 5, Indels: 13
0.67 0.09 0.24
Matches are distributed among these distances:
19 13 0.35
20 3 0.08
21 3 0.08
22 16 0.43
23 2 0.05
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (22 bp):
TGAATCAAAGTTTTCCAAACTA
Found at i:6156854 original size:41 final size:40
Alignment explanation
Indices: 6156751--6157058 Score: 196
Period size: 41 Copynumber: 7.5 Consensus size: 40
6156741 AAATCTTTAA
* * *
6156751 AAACTATGAATCATTTACTCTATTATGAATTTAAAATCTTTT
1 AAACTATGAATCATTTACTCTATTATGAA-TCAAAGT-TTTC
* * *
6156793 AAACTGTGAA-C-TGTTTCTCTATTGTGAATCAAAGTTTTCC
1 AAACTATGAATCAT-TTACTCTATTATGAATCAAAGTTTT-C
* *
6156833 AAACTATGAATCATTTACTCTACTATGAATCCAAAGTCTTC
1 AAACTATGAATCATTTACTCTATTATGAAT-CAAAGTTTTC
* * * *
6156874 AAACTATGAATCATTTACTCTACTATGAATTTATAA-TAGTCC
1 AAACTATGAATCATTTACTCTATTATGAA-TCA-AAGT-TTTC
* * * *
6156916 AAACTATGAATTATTTTCTCTATTATGCATCCAGAGTCTTTC
1 AAACTATGAATCATTTACTCTATTATGAAT-CAAAGT-TTTC
* * * * * * *
6156958 CAATTATGAATC-TTTGCCTTTGTTATGAACCCAGAGTTTTTC
1 AAACTATGAATCATTT-ACTCTATTATGAA-TCAAAG-TTTTC
* ** *
6157000 -AACTGTGAATCATTGCCTCTATTGTGAATCCAAAGTCTTTC
1 AAACTATGAATCATTTACTCTATTATGAAT-CAAAGT-TTTC
6157041 -AACTATGAATCATTTACT
1 AAACTATGAATCATTTACT
6157059 TTCAATGTGA
Statistics
Matches: 208, Mismatches: 42, Indels: 33
0.73 0.15 0.12
Matches are distributed among these distances:
39 3 0.01
40 16 0.08
41 107 0.51
42 81 0.39
43 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (40 bp):
AAACTATGAATCATTTACTCTATTATGAATCAAAGTTTTC
Found at i:6156859 original size:19 final size:19
Alignment explanation
Indices: 6156835--6156903 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
6156825 AGTTTTCCAA
6156835 ACTATGAATCATTTACTCT
1 ACTATGAATCATTTACTCT
** *
6156854 ACTATGAATCCAAAGT-CTTCAA
1 ACTATGAAT-C-ATTTAC-TC-T
6156876 ACTATGAATCATTTACTCT
1 ACTATGAATCATTTACTCT
6156895 ACTATGAAT
1 ACTATGAAT
6156904 TTATAATAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
19 18 0.46
20 6 0.15
21 6 0.15
22 9 0.23
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (19 bp):
ACTATGAATCATTTACTCT
Found at i:6157081 original size:21 final size:22
Alignment explanation
Indices: 6157022--6157081 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 22
6157012 TTGCCTCTAT
6157022 TGTGAATCC-AAAGTCTTTCAAC
1 TGTGAATCCTAAA-TCTTTCAAC
* * **
6157044 TATGAATCATTTA-CTTTCAA-
1 TGTGAATCCTAAATCTTTCAAC
6157064 TGTGAATCCTAAATCTTT
1 TGTGAATCCTAAATCTTT
6157082 TGAAAAAACC
Statistics
Matches: 28, Mismatches: 8, Indels: 5
0.68 0.20 0.12
Matches are distributed among these distances:
20 9 0.32
21 11 0.39
22 7 0.25
23 1 0.04
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (22 bp):
TGTGAATCCTAAATCTTTCAAC
Found at i:6157170 original size:51 final size:51
Alignment explanation
Indices: 6157090--6157550 Score: 221
Period size: 51 Copynumber: 9.1 Consensus size: 51
6157080 TTTGAAAAAA
* * * *
6157090 CCTTTTGGTGTAAATC-CCAAATCTTTGAAAAATCTTGGTGTAAATCCTAG
1 CCTTTTGATGTGAATCTCAAAACCTTTGAAAAATCTTGGTGTAAATCCTAG
** * ** * *
6157140 CCTTTTGACATGAATCTCAAAACCTTTGAAAAATCTTGGTGGGAACCCCGAA
1 CCTTTTGATGTGAATCTCAAAACCTTTGAAAAATCTTGGT-GTAAATCCTAG
* * * * * *
6157192 CCTTTTTGGTGTGAA--TCATGAA-CTTTAGAAGAATAC-TAGTGTGAATCTTAG
1 CC-TTTTGATGTGAATCTCA-AAACCTTT-GAAAAAT-CTTGGTGTAAATCCTAG
* * * * * *
6157243 CCTTTCGATGTGAATC-CTAAAACCTTTAAAAAAATCCTGGTGTGAATCTTAA
1 CCTTTTGATGTGAATCTC-AAAACCTTT-GAAAAATCTTGGTGTAAATCCTAG
** * * * *
6157295 CCTTTCCA--TGAATC-CTAAACTTTTGAAAAATCTTGGTGTAAACCCTAA
1 CCTTTTGATGTGAATCTCAAAACCTTTGAAAAATCTTGGTGTAAATCCTAG
* * *** * *
6157343 CTTTTTTAGTGTGAAT-TTTGAACCTTTGAAGAATCTTGGTATAAATCCTAG
1 CCTTTTGA-TGTGAATCTCAAAACCTTTGAAAAATCTTGGTGTAAATCCTAG
* * * * * **
6157394 CATTTCGAAGTGAGTC-CTAAAACCTTTAAAAAATCTTGGCATAAATCCTAG
1 CCTTTTGATGTGAATCTC-AAAACCTTTGAAAAATCTTGGTGTAAATCCTAG
* ** * * * *
6157445 CC-ATTG-TGGTGAATCT-TGAACCCTTGAAGAATCTTGGTATAAATCCTAA
1 CCTTTTGAT-GTGAATCTCAAAACCTTTGAAAAATCTTGGTGTAAATCCTAG
* * * * * * *
6157494 CCATTAGGTGTGAATCCCAAAACCTTTGAAATATCTTGGTATACATCCTAG
1 CCTTTTGATGTGAATCTCAAAACCTTTGAAAAATCTTGGTGTAAATCCTAG
6157545 CCTTTT
1 CCTTTT
6157551 CGGTTTGATC
Statistics
Matches: 305, Mismatches: 84, Indels: 43
0.71 0.19 0.10
Matches are distributed among these distances:
48 24 0.08
49 35 0.11
50 51 0.17
51 135 0.44
52 50 0.16
53 10 0.03
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (51 bp):
CCTTTTGATGTGAATCTCAAAACCTTTGAAAAATCTTGGTGTAAATCCTAG
Found at i:6157458 original size:151 final size:149
Alignment explanation
Indices: 6157112--6157495 Score: 376
Period size: 151 Copynumber: 2.5 Consensus size: 149
6157102 AATCCCAAAT
* *
6157112 CTTTGAAAAATCTTGGTGTAAATCCTAGCCTTTTGACATGAATCTCAAAACCTTTGAAAAATCTT
1 CTTTAAAAAATCTTGGTGTAAATCCTAGCC-TTTG--ATGAATC-CTAAACCTTTGAAAAATCTT
* * * * * * *
6157177 GGTGGGAACCCCGAACCTTTTTGGTGTGAATCATGAACTTTAGAAGAATACTAGTGTGAATCTTA
62 GGT-GTAAACCCTAACCTTTTTAGTGTGAATCATGAACTTTAGAAGAATACTAGTATAAATCCTA
* *
6157242 GCCTTTCGATGTGAATCCTAAAAC
126 GCATTTCGAAGTGAATCCTAAAAC
* * * * * *
6157266 CTTTAAAAAAATCCTGGTGTGAATCTTAACCTTTCCATGAATCCTAAACTTTTGAAAAATCTTGG
1 CTTT-AAAAAATCTTGGTGTAAATCCTAGCCTTT-GATGAATCCTAAACCTTTGAAAAATCTTGG
* ** *
6157331 TGTAAACCCTAACTTTTTTAGTGTGAATTTTGAACCTTT-GAAGAAT-CTTGGTATAAATCCTAG
64 TGTAAACCCTAACCTTTTTAGTGTGAATCATGAA-CTTTAGAAGAATAC-TAGTATAAATCCTAG
*
6157394 CATTTCGAAGTGAGTCCTAAAAC
127 CATTTCGAAGTGAATCCTAAAAC
** * * * * *
6157417 CTTTAAAAAATCTTGGCATAAATCCTAGCCATTGTGGTGAATCTTGAACCCTTGAAGAATCTTGG
1 CTTTAAAAAATCTTGGTGTAAATCCTAGCC-TT-TGATGAATCCTAAACCTTTGAAAAATCTTGG
* *
6157482 TATAAATCCTAACC
64 TGTAAACCCTAACC
6157496 ATTAGGTGTG
Statistics
Matches: 186, Mismatches: 38, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
150 21 0.11
151 104 0.56
152 26 0.14
153 7 0.04
154 7 0.04
155 21 0.11
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (149 bp):
CTTTAAAAAATCTTGGTGTAAATCCTAGCCTTTGATGAATCCTAAACCTTTGAAAAATCTTGGTG
TAAACCCTAACCTTTTTAGTGTGAATCATGAACTTTAGAAGAATACTAGTATAAATCCTAGCATT
TCGAAGTGAATCCTAAAAC
Found at i:6157464 original size:100 final size:100
Alignment explanation
Indices: 6157353--6157583 Score: 270
Period size: 100 Copynumber: 2.3 Consensus size: 100
6157343 CTTTTTTAGT
* * * * *
6157353 GTGAATTTTGAACCTTTGAAGAATCTTGGTATAAATCCT-AGCATTTCGAAGTGAGTCCTAAAAC
1 GTGAATCTTGAACCTTTGAAGAATCTTGGTATAAATCCTAACCA-TTAGAAGTGAATCCCAAAAC
6157417 CTTTAAAAAATCTTGGCATAAATCCTAGCCATTGT-G
65 CTTTAAAAAATCTTGGCATAAATCCTAGCC-TTGTCG
* **
6157453 GTGAATCTTGAACCCTTGAAGAATCTTGGTATAAATCCTAACCATTAGGTGTGAATCCCAAAACC
1 GTGAATCTTGAACCTTTGAAGAATCTTGGTATAAATCCTAACCATTAGAAGTGAATCCCAAAACC
* * * * *
6157518 TTTGAAATATCTTGGTATACATCCTAGCCTTTTCG
66 TTTAAAAAATCTTGGCATAAATCCTAGCCTTGTCG
* *
6157553 GTTTG-ATCTTGAACCTCTGAAGAATATTGGT
1 G--TGAATCTTGAACCTTTGAAGAATCTTGGT
6157584 TTGAATCCCA
Statistics
Matches: 111, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
99 3 0.03
100 80 0.72
101 26 0.23
102 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (100 bp):
GTGAATCTTGAACCTTTGAAGAATCTTGGTATAAATCCTAACCATTAGAAGTGAATCCCAAAACC
TTTAAAAAATCTTGGCATAAATCCTAGCCTTGTCG
Found at i:6157787 original size:13 final size:12
Alignment explanation
Indices: 6157761--6157872 Score: 93
Period size: 12 Copynumber: 8.9 Consensus size: 12
6157751 ATGTAAATCT
*
6157761 AAAAAAAAAAAC
1 AAAATAAAAAAC
6157773 AAAATAAAAATAC
1 AAAATAAAAA-AC
6157786 AAAATAAACAAA-
1 AAAATAAA-AAAC
*
6157798 ATAAACAAACAAAC
1 A-AAATAAA-AAAC
6157812 AAAATAAAAAAC
1 AAAATAAAAAAC
*
6157824 ATTAA-AAAAAAC
1 A-AAATAAAAAAC
*
6157836 AAAACAAAAAAC
1 AAAATAAAAAAC
*
6157848 AAAATAGCAAAAAA
1 AAAATA--AAAAAC
*
6157862 AAAAGAAAAAA
1 AAAATAAAAAA
6157873 TGAAAAATAA
Statistics
Matches: 84, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
11 2 0.02
12 40 0.48
13 29 0.35
14 13 0.15
ACGTcount: A:0.81, C:0.10, G:0.02, T:0.07
Consensus pattern (12 bp):
AAAATAAAAAAC
Found at i:6157798 original size:9 final size:9
Alignment explanation
Indices: 6157784--6157853 Score: 58
Period size: 9 Copynumber: 7.9 Consensus size: 9
6157774 AAATAAAAAT
6157784 ACAAAATAA
1 ACAAAATAA
6157793 ACAAAATAA
1 ACAAAATAA
*
6157802 AC-AAACAA
1 ACAAAATAA
6157810 ACAAAATAA
1 ACAAAATAA
6157819 A-AAACATTAA
1 ACAAA-A-TAA
* *
6157829 AAAAAACAA
1 ACAAAATAA
6157838 A-ACAAA-AA
1 ACA-AAATAA
6157846 ACAAAATA
1 ACAAAATA
6157854 GCAAAAAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
8 17 0.33
9 26 0.51
10 5 0.10
11 3 0.06
ACGTcount: A:0.79, C:0.13, G:0.00, T:0.09
Consensus pattern (9 bp):
ACAAAATAA
Done.