Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold6
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: 1308201
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
File 9 of 11
Found at i:838041 original size:39 final size:39
Alignment explanation
Indices: 837987--838080 Score: 152
Period size: 39 Copynumber: 2.4 Consensus size: 39
837977 GTATCGATAC
837987 ATTGTATCGATACATGTTCATACTATCGATACACATTGA
1 ATTGTATCGATACATGTTCATACTATCGATACACATTGA
* *
838026 ATTGTATCGATACATGTTCATAGTATCGATATACATTGA
1 ATTGTATCGATACATGTTCATACTATCGATACACATTGA
**
838065 ATTGTATTAATACATG
1 ATTGTATCGATACATG
838081 AAACTGACAG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (39 bp):
ATTGTATCGATACATGTTCATACTATCGATACACATTGA
Found at i:840573 original size:20 final size:20
Alignment explanation
Indices: 840548--840622 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
840538 TTTTACCCAG
840548 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
840568 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
840588 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
*
840608 ATCTATCGATACATT
1 ATGTATCGATACATT
840623 CTAGTCTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:842985 original size:97 final size:96
Alignment explanation
Indices: 842819--843059 Score: 358
Period size: 97 Copynumber: 2.5 Consensus size: 96
842809 AAATTTTTAT
* * * * *
842819 TCATCGGGGATACTCAAACCCTATTCCTCCGAGGGGATACTCCAACCCCGGTTTTAAACTTGTTA
1 TCATC-GGGACACTCCAACCCTATTCCTCCAAGGGGATACTCCAACCCCGCTTTTAAACTTGTCA
*
842884 AGATTCAAATCTTATTCTCGCTTAAATTGTCA
65 AGATTCAAATCTTATTCTCGCTTAAATTATCA
*
842916 TCATCAGGGACACTCCAACCCTATTCCTCCAAGGGGATACTCCAACCCTGCTTTTAAACTTGTCA
1 TCATC-GGGACACTCCAACCCTATTCCTCCAAGGGGATACTCCAACCCCGCTTTTAAACTTGTCA
*
842981 AGATTGAAATCTTATTCTCGCTTAAATTATCA
65 AGATTCAAATCTTATTCTCGCTTAAATTATCA
*
843013 TCATCGGAGACACTCCAACCCCATTCCTCCGAA-GGGATACTCCAACC
1 TCATCGG-GACACTCCAACCCTATTCCTCC-AAGGGGATACTCCAACC
843060 TCTTTTTTTT
Statistics
Matches: 132, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
96 2 0.02
97 128 0.97
98 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (96 bp):
TCATCGGGACACTCCAACCCTATTCCTCCAAGGGGATACTCCAACCCCGCTTTTAAACTTGTCAA
GATTCAAATCTTATTCTCGCTTAAATTATCA
Found at i:849076 original size:16 final size:16
Alignment explanation
Indices: 849052--849082 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
849042 ATTATTATTT
*
849052 AATAGATTATTTAATG
1 AATACATTATTTAATG
849068 AATACATTATTTAAT
1 AATACATTATTTAAT
849083 AATTCAAAAT
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:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (16 bp):
AATACATTATTTAATG
Found at i:852441 original size:12 final size:12
Alignment explanation
Indices: 852424--852452 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
852414 AAAATTTGCC
852424 TACATGTATCGA
1 TACATGTATCGA
852436 TACATGTATCGA
1 TACATGTATCGA
852448 TACAT
1 TACAT
852453 CTGGGTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (12 bp):
TACATGTATCGA
Found at i:852507 original size:13 final size:13
Alignment explanation
Indices: 852489--852513 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
852479 TACAAAGATC
852489 AATGTATCGATAG
1 AATGTATCGATAG
852502 AATGTATCGATA
1 AATGTATCGATA
852514 CATTGAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (13 bp):
AATGTATCGATAG
Found at i:852512 original size:33 final size:33
Alignment explanation
Indices: 852470--852533 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
852460 AAATTCCCAG
852470 ATGTATCGATACAAAG-ATCAATGTATCGATAGA
1 ATGTATCGATACAAAGAAT-AATGTATCGATAGA
**
852503 ATGTATCGATACATTGAATAATGTATCGATA
1 ATGTATCGATACAAAGAATAATGTATCGATA
852534 CATTTCCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATAGA
Found at i:852616 original size:21 final size:19
Alignment explanation
Indices: 852566--852619 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
852556 TAGCGATACA
852566 TTGTATCGATACAATACTT
1 TTGTATCGATACAATACTT
* *
852585 ATGTAAT-GATACATTTACTGT
1 TTGT-ATCGATACA-ATACT-T
852606 TTGTATCGATACAA
1 TTGTATCGATACAA
852620 ATTGTTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
19 9 0.33
20 8 0.30
21 10 0.37
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (19 bp):
TTGTATCGATACAATACTT
Found at i:853018 original size:2 final size:2
Alignment explanation
Indices: 853011--853041 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
853001 TTGGTTAATT
*
853011 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
853042 CTTAAGTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:857996 original size:34 final size:34
Alignment explanation
Indices: 857931--858114 Score: 262
Period size: 34 Copynumber: 5.4 Consensus size: 34
857921 TTCACAATAT
* *
857931 TTGTTGATTAAAT-GGTGATTTGGTAGTTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
* *
857964 TTGTTGACTAAATGGGAAATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
857998 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
* * * *
858032 TTATTGATTAAATGGGTGATTTGGTGGTTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
* * *
858066 TTGTTGACTAAATGGGAGATTTGGTAGGTTGCCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
858100 TTGTTGATTAAATGG
1 TTGTTGATTAAATGG
858115 TGGTTTTTAC
Statistics
Matches: 133, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 12 0.09
34 121 0.91
ACGTcount: A:0.26, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
Found at i:858475 original size:19 final size:19
Alignment explanation
Indices: 858419--858481 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
858409 TGGTTGTCGA
* **
858419 GGTACTATTTACGTATATA
1 GGTACTATTCACGTATACG
858438 GGTACTATTCACGTATACG
1 GGTACTATTCACGTATACG
*
858457 GGTACTATTCAAGTATACG
1 GGTACTATTCACGTATACG
*
858476 GTTACT
1 GGTACT
858482 GTACACGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (19 bp):
GGTACTATTCACGTATACG
Found at i:862613 original size:34 final size:34
Alignment explanation
Indices: 862547--862731 Score: 264
Period size: 34 Copynumber: 5.5 Consensus size: 34
862537 AAGTGGGAGA
* *
862547 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
862580 ATTGTTGACTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
862614 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
862648 ATTATTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
862682 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
862716 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
862732 TGGTTTTTAC
Statistics
Matches: 134, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 13 0.10
34 121 0.90
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:866223 original size:23 final size:22
Alignment explanation
Indices: 866181--866226 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
866171 TAAATAAATA
866181 AATAAATTTATTTACTAAATTTT
1 AATAAATTTATTTAC-AAATTTT
866204 AATAAGATTTATTGTA-AAATTTT
1 AATAA-ATTTATT-TACAAATTTT
866227 TCTTACTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 12 0.57
24 7 0.33
25 2 0.10
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (22 bp):
AATAAATTTATTTACAAATTTT
Found at i:868421 original size:15 final size:17
Alignment explanation
Indices: 868386--868422 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
868376 CAACTTTATC
*
868386 TATATTCGTAATATTTA
1 TATATTCGCAATATTTA
868403 TATATTCGCAATATTTA
1 TATATTCGCAATATTTA
868420 TAT
1 TAT
868423 GTTAGATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (17 bp):
TATATTCGCAATATTTA
Found at i:869544 original size:20 final size:20
Alignment explanation
Indices: 869519--869557 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
869509 GACTCTAGAT
*
869519 TATATATTGTTTAGATATAA
1 TATATACTGTTTAGATATAA
*
869539 TATATACTGTTTATATATA
1 TATATACTGTTTAGATATA
869558 GCCTATGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (20 bp):
TATATACTGTTTAGATATAA
Found at i:883145 original size:15 final size:15
Alignment explanation
Indices: 883102--883147 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
883092 TTGACTTTTT
*
883102 ATATTTTCAAATTAA
1 ATATTTTCAAATTCA
*
883117 ATATTTTGAAATTCA
1 ATATTTTCAAATTCA
* *
883132 TTATTTTCATATTCA
1 ATATTTTCAAATTCA
883147 A
1 A
883148 ATTCATTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (15 bp):
ATATTTTCAAATTCA
Found at i:886449 original size:21 final size:22
Alignment explanation
Indices: 886409--886507 Score: 76
Period size: 23 Copynumber: 4.3 Consensus size: 22
886399 ACGATTACAT
*
886409 AAATATAATACAATAA-ATAATTA
1 AAATATAATATAA-AATA-AATTA
* *
886432 AAATATGATATAAAATAAAAATA
1 AAATATAATATAAAAT-AAATTA
*
886455 AAATATAAATATATAATAAATTA
1 AAATAT-AATATAAAATAAATTA
*
886478 AAAT-TTATATAAAATTAATTATTA
1 AAATATAATATAAAA-TAA--ATTA
886502 AAATAT
1 AAATAT
886508 CAAAATTAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
21 7 0.11
22 6 0.10
23 30 0.49
24 17 0.28
25 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (22 bp):
AAATATAATATAAAATAAATTA
Found at i:886472 original size:24 final size:25
Alignment explanation
Indices: 886420--886507 Score: 80
Period size: 23 Copynumber: 3.7 Consensus size: 25
886410 AATATAATAC
*
886420 AATAAATAATTAAAATATGATATAA
1 AATAAATAATTAAAATATAATATAA
886445 AATAAA-AA-TAAAATATAA-AT-A
1 AATAAATAATTAAAATATAATATAA
* *
886466 TAT-AATAAATTAAAAT-TTATATAA
1 AATAAAT-AATTAAAATATAATATAA
* *
886490 AATTAATTATTAAAATAT
1 AATAAATAATTAAAATAT
886508 CAAAATTAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
20 2 0.04
21 3 0.06
22 6 0.12
23 17 0.33
24 13 0.25
25 10 0.20
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (25 bp):
AATAAATAATTAAAATATAATATAA
Found at i:888097 original size:36 final size:36
Alignment explanation
Indices: 888047--888116 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
888037 AAAGATTTCT
*
888047 TAATATTCTTATTACAATTATAGGATCATAATCTCC
1 TAATATTCTGATTACAATTATAGGATCATAATCTCC
* *
888083 TAATATTCTGATTACGATTATTGGATCATAATCT
1 TAATATTCTGATTACAATTATAGGATCATAATCT
888117 TCATAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (36 bp):
TAATATTCTGATTACAATTATAGGATCATAATCTCC
Found at i:889868 original size:43 final size:43
Alignment explanation
Indices: 889820--889904 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
889810 TCATAGATAG
*
889820 TCAAGCCAATGGTAAAGATAAGGCAAATGCTTTGATTTTTCTC
1 TCAAGCCAATGGCAAAGATAAGGCAAATGCTTTGATTTTTCTC
889863 TCAAGCCAATGGCAAAGATAAGGCAAATGCTTTGATTTTTCT
1 TCAAGCCAATGGCAAAGATAAGGCAAATGCTTTGATTTTTCT
889905 AAGGCAACAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (43 bp):
TCAAGCCAATGGCAAAGATAAGGCAAATGCTTTGATTTTTCTC
Found at i:899363 original size:36 final size:36
Alignment explanation
Indices: 899307--899406 Score: 121
Period size: 36 Copynumber: 2.8 Consensus size: 36
899297 ACTTCCTAAC
* *
899307 ATTTTGGTTAAGATTACAAGATCGTAGTCTCTTAAT
1 ATTTTGATTAAGATTACAAGATCGTAATCTCTTAAT
* *
899343 ATTTTGATTATGATTGCAAGATCGTAATCTCTTAAT
1 ATTTTGATTAAGATTACAAGATCGTAATCTCTTAAT
* * *
899379 ATTTTAATTACA-ATTATATGATCGTAAT
1 ATTTTGATTA-AGATTACAAGATCGTAAT
899407 TTTCGTAATT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (36 bp):
ATTTTGATTAAGATTACAAGATCGTAATCTCTTAAT
Found at i:900926 original size:15 final size:15
Alignment explanation
Indices: 900906--900935 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
900896 AAAATAATAA
*
900906 AATATTTTTATATTT
1 AATATTTATATATTT
900921 AATATTTATATATTT
1 AATATTTATATATTT
900936 TATAATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
AATATTTATATATTT
Found at i:902181 original size:20 final size:18
Alignment explanation
Indices: 902156--902209 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 18
902146 ATTATACACG
902156 TAATATTTAATATTAAAAAA
1 TAATATTTAATA-T-AAAAA
*
902176 TAATATATGAATATAAAAA
1 TAATAT-TTAATATAAAAA
902195 TATATATTT-ATATAA
1 TA-ATATTTAATATAA
902210 TTTTTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 6 0.20
19 8 0.27
20 11 0.37
21 5 0.17
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
TAATATTTAATATAAAAA
Found at i:902547 original size:36 final size:36
Alignment explanation
Indices: 902498--902578 Score: 137
Period size: 36 Copynumber: 2.2 Consensus size: 36
902488 TGCAATTTGG
*
902498 AAATCGCCATATCAGGTGGCGATTCTCAAAGTTCGA
1 AAATCGCCATATCAGGTGGCGATTCCCAAAGTTCGA
902534 AAATCGTCC-TATCAGGTGGCGATTCCCAAAGTTCGA
1 AAATCG-CCATATCAGGTGGCGATTCCCAAAGTTCGA
902570 AAATCGCCA
1 AAATCGCCA
902579 CCTGATATGG
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
35 2 0.05
36 38 0.90
37 2 0.05
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (36 bp):
AAATCGCCATATCAGGTGGCGATTCCCAAAGTTCGA
Found at i:902700 original size:27 final size:27
Alignment explanation
Indices: 902629--902705 Score: 68
Period size: 31 Copynumber: 2.8 Consensus size: 27
902619 AATTAATTAA
*
902629 ATTTAA-TAAATTTAATAAATAATAAT
1 ATTTAATTAAATTTAATAAAAAATAAT
* *
902655 GTATTAATTATTATTTTTAATAAAAAATAAT
1 AT-TTAATTA--A-ATTTAATAAAAAATAAT
*
902686 ATTTAATTAACTTTAA-AAAA
1 ATTTAATTAAATTTAATAAAA
902706 TTTACATTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
26 5 0.12
27 9 0.22
28 3 0.07
30 8 0.20
31 16 0.39
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (27 bp):
ATTTAATTAAATTTAATAAAAAATAAT
Found at i:904964 original size:36 final size:36
Alignment explanation
Indices: 904923--905050 Score: 122
Period size: 36 Copynumber: 3.6 Consensus size: 36
904913 TATCAATTAC
*
904923 AAAAATAATATATGTACAATATTAATTAATTTTAAT
1 AAAAATAATACATGTACAATATTAATTAATTTTAAT
** * * *
904959 AAAAATAA-ATTTGTA-AA-ATTTA-TAA-ATAAAT
1 AAAAATAATACATGTACAATATTAATTAATTTTAAT
*
904990 AAAAGGTAATAATACATGTACAATATTAATTAATTTTAAC
1 -AAA---AATAATACATGTACAATATTAATTAATTTTAAT
905030 AAAAATAATACATGTACAATA
1 AAAAATAATACATGTACAATA
905051 AATTTTTTCT
Statistics
Matches: 73, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
31 4 0.05
32 6 0.08
33 4 0.05
34 2 0.03
35 11 0.15
36 31 0.42
37 2 0.03
38 4 0.05
39 6 0.08
40 3 0.04
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (36 bp):
AAAAATAATACATGTACAATATTAATTAATTTTAAT
Found at i:905257 original size:46 final size:44
Alignment explanation
Indices: 905206--905335 Score: 117
Period size: 46 Copynumber: 2.9 Consensus size: 44
905196 TAATTATAAA
905206 AATAATACATGAATAATATTAATTAATTTTAATAAAAATAAATTTGT
1 AATAATACATGAATAATATTAATTAATTTTAATAAAAATAAA---GT
** * *
905253 -ATAATTTATAAATAA-ATTAA-AAATAATTT-ATAAATAA-AAAGT
1 AATAATACATGAATAATATTAATTAAT--TTTAATAAA-AATAAAGT
* *
905295 AATAATACATGTACAATATTAATTAATTTTAATAAAAATAA
1 AATAATACATGAATAATATTAATTAATTTTAATAAAAATAA
905336 TATATGTACA
Statistics
Matches: 65, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
42 2 0.03
43 15 0.23
44 15 0.23
45 16 0.25
46 17 0.26
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (44 bp):
AATAATACATGAATAATATTAATTAATTTTAATAAAAATAAAGT
Found at i:905476 original size:22 final size:22
Alignment explanation
Indices: 905434--905476 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
905424 AATTTAATAA
* *
905434 AAATAAATTAAATTAATTTTAT
1 AAATAAATAAAATTAACTTTAT
905456 AAATAAA-AAAATTATACTTTA
1 AAATAAATAAAATTA-ACTTTA
905477 AAAAAGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATAAATAAAATTAACTTTAT
Found at i:905651 original size:19 final size:19
Alignment explanation
Indices: 905627--905663 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
905617 TAATGTATTA
905627 TTAATTAAATT-TATTAAAT
1 TTAATT-AATTCTATTAAAT
905646 TTAATTAATTCTATTAAA
1 TTAATTAATTCTATTAAA
905664 AAAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAATTAATTCTATTAAAT
Found at i:905712 original size:24 final size:24
Alignment explanation
Indices: 905685--905737 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
905675 AAACCCTTTT
* *
905685 TAATTTAATTTTTTATTTTAAAAA
1 TAATTTAATATTTTAATTTAAAAA
**
905709 TAA-TTAATATTTTAATTTATTAA
1 TAATTTAATATTTTAATTTAAAAA
905732 TAATTT
1 TAATTT
905738 TTTAAAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TAATTTAATATTTTAATTTAAAAA
Found at i:905777 original size:66 final size:64
Alignment explanation
Indices: 905694--905817 Score: 155
Period size: 65 Copynumber: 1.9 Consensus size: 64
905684 TTAATTTAAT
**
905694 TTTTTATTTTAAAAATAATTAAT-ATT-TTAATTTATTAATAATTTTTTAAAA-TTAATTAAATA
1 TTTTTATTAAAAAAATAATTAATAATTATT-ATTTATT-A-AA-TTTTTAAAATTTAATTAAATA
905756 TTA
62 TTA
905759 TTTTTATTAAAAATAATAATTAATAAATTATTATTTATTAAATTTTTAAAATTTAATTA
1 TTTTTATTAAAAA-AATAATTAAT-AATTATTATTTATTAAATTTTTAAAATTTAATTA
905818 GTTTATAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
65 20 0.38
66 19 0.37
67 1 0.02
68 10 0.19
69 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (64 bp):
TTTTTATTAAAAAAATAATTAATAATTATTATTTATTAAATTTTTAAAATTTAATTAAATATTA
Found at i:905919 original size:16 final size:18
Alignment explanation
Indices: 905898--905939 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
905888 ACATATTCAT
905898 AAAAAAAT-TATTTA-AA
1 AAAAAAATCTATTTACAA
905914 AAAAAAATCTATTTACAA
1 AAAAAAATCTATTTACAA
905932 AAATAAAA
1 AAA-AAAA
905940 CAAATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.35
17 6 0.26
18 5 0.22
19 4 0.17
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAAAATCTATTTACAA
Found at i:905920 original size:17 final size:18
Alignment explanation
Indices: 905898--905939 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
905888 ACATATTCAT
905898 AAAAAAAT-TATTT-AAA
1 AAAAAAATCTATTTCAAA
905914 AAAAAAATCTATTTACAAA
1 AAAAAAATCTATTT-CAAA
*
905933 AATAAAA
1 AAAAAAA
905940 CAAATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 8 0.36
17 5 0.23
19 9 0.41
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAAAATCTATTTCAAA
Found at i:906149 original size:26 final size:26
Alignment explanation
Indices: 906113--906167 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
906103 AAATCCACCG
**
906113 ATACCTTTTCCTCGATCTCCTCTTTC
1 ATACCTTTTCCTCGATCAACTCTTTC
906139 ATACCTTTTCCTCGATCAACTCTTTC
1 ATACCTTTTCCTCGATCAACTCTTTC
906165 ATA
1 ATA
906168 TTTTTCAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.18, C:0.35, G:0.04, T:0.44
Consensus pattern (26 bp):
ATACCTTTTCCTCGATCAACTCTTTC
Found at i:906885 original size:26 final size:28
Alignment explanation
Indices: 906827--906885 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
906817 AACTGTTCAA
906827 TCTTTTCTCATTTATATATTTTTTAATC
1 TCTTTTCTCATTTATATATTTTTTAATC
*
906855 T-TTTTCTCATTT-TATA-TTTTTAATT
1 TCTTTTCTCATTTATATATTTTTTAATC
906880 TCTTTT
1 TCTTTT
906886 TAAATTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 9 0.31
26 8 0.28
27 11 0.38
28 1 0.03
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.69
Consensus pattern (28 bp):
TCTTTTCTCATTTATATATTTTTTAATC
Found at i:906886 original size:27 final size:27
Alignment explanation
Indices: 906825--906875 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
906815 CTAACTGTTC
906825 AATC-TTTTCTCATTTATATATTTTTT
1 AATCTTTTTCTCATTTATATATTTTTT
906851 AATCTTTTTCTCATTT-TATATTTTT
1 AATCTTTTTCTCATTTATATATTTTT
906876 AATTTCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.67
Consensus pattern (27 bp):
AATCTTTTTCTCATTTATATATTTTTT
Found at i:907132 original size:6 final size:6
Alignment explanation
Indices: 907121--907189 Score: 58
Period size: 6 Copynumber: 12.2 Consensus size: 6
907111 ATTTAATATT
* *
907121 TTTATA TTTATA -TTATA TTTATA TATTTTA TTT-TA -TTATA ATTATA
1 TTTATA TTTATA TTTATA TTTATA T-TTATA TTTATA TTTATA TTTATA
**
907167 TTTA-A AATAT- TTTATA TTTATA T
1 TTTATA TTTATA TTTATA TTTATA T
907190 AAATTTAGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
4 2 0.04
5 15 0.29
6 29 0.57
7 5 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TTTATA
Found at i:907165 original size:23 final size:25
Alignment explanation
Indices: 907116--907167 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 25
907106 GTTAGATTTA
* *
907116 ATATTTTTATATTTATATTATATTT
1 ATATATTTATATTTATATTATAATT
907141 ATATATTT-TATTT-TATTATAATT
1 ATATATTTATATTTATATTATAATT
907164 ATAT
1 ATAT
907168 TTAAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 13 0.52
24 5 0.20
25 7 0.28
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
ATATATTTATATTTATATTATAATT
Found at i:907670 original size:19 final size:18
Alignment explanation
Indices: 907636--907702 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 18
907626 AAAGAAAATC
907636 ATAAATTTCTTTTAAAAA
1 ATAAATTTCTTTTAAAAA
*
907654 ATAATTTTCTTTGT-AAAA
1 ATAAATTTCTTT-TAAAAA
* *
907672 ATAGAAATTCTTTAAAAAA
1 ATA-AATTTCTTTTAAAAA
*
907691 AGTAATTTTCTT
1 A-TAAATTTCTT
907703 CGTCAAAATC
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
18 18 0.46
19 19 0.49
20 2 0.05
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (18 bp):
ATAAATTTCTTTTAAAAA
Found at i:908861 original size:35 final size:35
Alignment explanation
Indices: 908820--908887 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
908810 GGCGAAATCT
908820 ATGTTAGAACATTTTGAAATTATTATGAAAAGTCA
1 ATGTTAGAACATTTTGAAATTATTATGAAAAGTCA
908855 ATGTTAGAACATTTTGAAATTATTATGAAAAGT
1 ATGTTAGAACATTTTGAAATTATTATGAAAAGT
908888 TATGCCTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.38
Consensus pattern (35 bp):
ATGTTAGAACATTTTGAAATTATTATGAAAAGTCA
Found at i:911454 original size:24 final size:23
Alignment explanation
Indices: 911404--911455 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
911394 ATATTTTTTT
* * * *
911404 ATTTTTTAAAACAAATAAAGATC
1 ATTTTTTAAAAAAAAAAAACATA
911427 ATTTTTTAAAAAAAAAAAACATA
1 ATTTTTTAAAAAAAAAAAACATA
*
911450 AATTTT
1 ATTTTT
911456 GAACTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (23 bp):
ATTTTTTAAAAAAAAAAAACATA
Found at i:911998 original size:12 final size:13
Alignment explanation
Indices: 911981--912015 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
911971 CCATTTCATA
911981 TTTTTTCTTTTT-
1 TTTTTTCTTTTTC
911993 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
912006 TTTCTTTCTT
1 TTT-TTTCTT
912016 CTTCATCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.57
13 3 0.14
14 6 0.29
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:913312 original size:32 final size:32
Alignment explanation
Indices: 913263--914027 Score: 1327
Period size: 32 Copynumber: 23.8 Consensus size: 32
913253 AAAATGGTGA
* * *
913263 TTTGAAAAGGGTTGCCACTGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
913295 TTTTAAATGGGTTGCCACCGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
913327 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
**
913359 TTTGAAAAAGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
913391 TTTGAAATGGGTTGCCACCTACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
913423 TTT-AGAATGGGTTGCCACCGACCTGTGTGGGC
1 TTTGA-AATGGGTTGCCACCGACTTGTGTGGGC
913455 TTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 -TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
913488 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
913520 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
913552 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
913584 TTTGAAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
*
913617 TTTGAAATGGGTTACCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
913649 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
913681 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
913713 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
913745 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
913777 TTTGAAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
913810 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
913842 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
913874 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
913906 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
913938 TTTGAAATGGGTTACCACCGACTTGTGTAGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
913970 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
914002 TTTGAAATGGG-TGCCACAGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
914028 GATTTAAAAG
Statistics
Matches: 703, Mismatches: 25, Indels: 11
0.95 0.03 0.01
Matches are distributed among these distances:
31 14 0.02
32 595 0.85
33 93 0.13
34 1 0.00
ACGTcount: A:0.17, C:0.19, G:0.33, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:913655 original size:193 final size:192
Alignment explanation
Indices: 913263--914027 Score: 1327
Period size: 193 Copynumber: 4.0 Consensus size: 192
913253 AAAATGGTGA
* * * * *
913263 TTTGAAAAGGGTTGCCACTGACTTGCGTGGGCTTTTAAATGGGTTGCCACCGACTTGCGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
* **
913328 TTTAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAAGGTTGCCACCGACTTGTGTGGGCTT
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTT
* *
913393 TGAAATGGGTTGCCACCTACTTGTGTGGGCTTT-AGAATGGGTTGCCACCGACCTGTGTGGGC
131 TGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGA-AATGGGTTGCCACCGACTTGTGTGGGC
913455 TTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 -TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
913520 TTTTAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
65 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
*
913585 TTGAAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTACCACCGACTTGTGTGGGC
130 TTG-AAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
913649 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
913714 TTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTT
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTT
913779 TGAAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
131 TG-AAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
913842 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
* *
913907 TTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTACCACCGACTTGTGTAGGCTT
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTT
* * *
913972 TGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGG-TGCCACAGAGTTGTG
131 TGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTG
914028 GATTTAAAAG
Statistics
Matches: 553, Mismatches: 17, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
191 13 0.02
192 38 0.07
193 446 0.81
194 55 0.10
195 1 0.00
ACGTcount: A:0.17, C:0.19, G:0.33, T:0.31
Consensus pattern (192 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
TTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTT
TGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:914045 original size:27 final size:27
Alignment explanation
Indices: 914010--914692 Score: 1087
Period size: 27 Copynumber: 25.0 Consensus size: 27
914000 GCTTTGAAAT
* *
914010 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
914037 GGACGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
914064 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
914091 GGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
914118 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
914146 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
914173 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
914201 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
914228 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
914255 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
914282 GGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
914309 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
914337 GGGTGCGACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
914364 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
914392 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
914419 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
914446 GGGTGCCACGGAGTTGTGGTCTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
914474 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
914501 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
914528 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
914555 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
914582 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
914609 GGGTGCCACAGAGTTGTGGACTAAAAAA
1 GGGTGCCACGGAGTTGTGGACT-TAAAA
*
914637 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
914664 GGATGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
914692 G
1 G
914693 AAAATGCCAC
Statistics
Matches: 611, Mismatches: 38, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
27 456 0.75
28 155 0.25
ACGTcount: A:0.29, C:0.14, G:0.35, T:0.22
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:914692 original size:191 final size:191
Alignment explanation
Indices: 914010--914685 Score: 1158
Period size: 191 Copynumber: 3.5 Consensus size: 191
914000 GCTTTGAAAT
* **
914010 GGGTGCCACAGAGTTGTGGATTTAAAAGGACGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
914075 AGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACT
66 AGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACT
914140 TTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAA
131 TTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAA
* *
914201 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGG
1 GGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
914266 AGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACT
66 AGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACT
*
914331 TTAAAAGGGTGCGACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAA
131 TTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAA
*
914392 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * * *
914457 AGTTGTGGTCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGAC
66 AGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGAC
* * *
914522 -TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAA
130 TTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAA
* * *
914582 GGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAAAGGGTGCCACA
1 GGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT-TAAAAGGGTGCCACG
*
914647 GAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACT
65 GAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACT
914686 TTAAAAGAAA
Statistics
Matches: 461, Mismatches: 22, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
190 97 0.21
191 313 0.68
192 51 0.11
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.22
Consensus pattern (191 bp):
GGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACT
TTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAA
Found at i:915764 original size:14 final size:14
Alignment explanation
Indices: 915745--915772 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
915735 AGGGTGAAAA
915745 GGTTTTTTTTTTTT
1 GGTTTTTTTTTTTT
915759 GGTTTTTTTTTTTT
1 GGTTTTTTTTTTTT
915773 TTTTAGGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (14 bp):
GGTTTTTTTTTTTT
Found at i:921981 original size:24 final size:23
Alignment explanation
Indices: 921931--921982 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
921921 ATATTTTTTT
* * * *
921931 ATTTTTTAAAACAAATAAAGATC
1 ATTTTTTAAAAAAAAAAAACATA
921954 ATTTTTTAAAAAAAAAAAACATA
1 ATTTTTTAAAAAAAAAAAACATA
*
921977 AATTTT
1 ATTTTT
921983 GAACTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (23 bp):
ATTTTTTAAAAAAAAAAAACATA
Found at i:922128 original size:2 final size:2
Alignment explanation
Indices: 922121--922151 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
922111 GATTTTCAAA
*
922121 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
922152 AATAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:922538 original size:14 final size:14
Alignment explanation
Indices: 922514--922549 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
922504 CCATTTCATA
922514 TTTTTTCTTTTT-T
1 TTTTTTCTTTTTCT
922527 TTTTTTCTTTTTCT
1 TTTTTTCTTTTTCT
*
922541 TTCTTTCTT
1 TTTTTTCTT
922550 CTTCATCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTTCTTTTTCT
Found at i:924253 original size:16 final size:17
Alignment explanation
Indices: 924221--924256 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
924211 ATTTATTACC
924221 ATAAGATTATTACGTGA
1 ATAAGATTATTACGTGA
*
924238 ATAAGA-TATTATGTGA
1 ATAAGATTATTACGTGA
924254 ATA
1 ATA
924257 CAAAAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.36
Consensus pattern (17 bp):
ATAAGATTATTACGTGA
Found at i:930314 original size:25 final size:26
Alignment explanation
Indices: 930281--930330 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
930271 TTCAAAGAAT
* *
930281 TAAAAATTATTTTTAAA-TTTAATAA
1 TAAAAATTAATATTAAATTTTAATAA
*
930306 TAAATATTAATATTAAATTTTAATA
1 TAAAAATTAATATTAAATTTTAATA
930331 TTATTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
TAAAAATTAATATTAAATTTTAATAA
Found at i:930331 original size:13 final size:13
Alignment explanation
Indices: 930293--930333 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
930283 AAAATTATTT
930293 TTAAA-TTTAATA
1 TTAAATTTTAATA
* *
930305 ATAAATATTAATA
1 TTAAATTTTAATA
930318 TTAAATTTTAATA
1 TTAAATTTTAATA
930331 TTA
1 TTA
930334 TTTTAAATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TTAAATTTTAATA
Found at i:942074 original size:23 final size:23
Alignment explanation
Indices: 942048--942102 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
942038 GTAAGCTCTT
942048 TTTTTTTTCTTTTTCTTTCTTTC
1 TTTTTTTTCTTTTTCTTTCTTTC
** *
942071 TTTTTTGCCTTTTTTTTTCTTTC
1 TTTTTTTTCTTTTTCTTTCTTTC
**
942094 AGTTTTTTC
1 TTTTTTTTC
942103 AAGATGATTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.78
Consensus pattern (23 bp):
TTTTTTTTCTTTTTCTTTCTTTC
Found at i:942631 original size:20 final size:21
Alignment explanation
Indices: 942596--942634 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
942586 TATTTTTATT
*
942596 TAAATTTAATTATAAAAATTA
1 TAAATATAATTATAAAAATTA
942617 TAAATATAA-TATAAAAAT
1 TAAATATAATTATAAAAAT
942635 AATTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAATATAATTATAAAAATTA
Found at i:947715 original size:47 final size:47
Alignment explanation
Indices: 947646--947739 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
947636 CACTAAGGAG
947646 AAGACAAAAGTCAAAAGTAGCTTAACTTTTATGGGATTTAACTTCTT
1 AAGACAAAAGTCAAAAGTAGCTTAACTTTTATGGGATTTAACTTCTT
947693 AAGACTAAAA-TCAAAAGTAGCTTAACTTTTATGGGATTTAACTTCTT
1 AAGAC-AAAAGTCAAAAGTAGCTTAACTTTTATGGGATTTAACTTCTT
947740 TTTTTGTTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 42 0.91
48 4 0.09
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (47 bp):
AAGACAAAAGTCAAAAGTAGCTTAACTTTTATGGGATTTAACTTCTT
Found at i:948697 original size:38 final size:39
Alignment explanation
Indices: 948655--948744 Score: 96
Period size: 38 Copynumber: 2.4 Consensus size: 39
948645 AGTTCGGAAT
*
948655 AAAAATCACTATTCTAAATC-GATGGCACTATTTAATAC
1 AAAAATCACTATTCTAAATCTGATGGCACGATTTAATAC
* ** * *
948693 AAAAATCATTATT-TTTATCTGGTGGCACGATTTATTAC
1 AAAAATCACTATTCTAAATCTGATGGCACGATTTAATAC
*
948731 -AAAACCACTATTCT
1 AAAAATCACTATTCT
948745 TATTTGGTAG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
37 14 0.33
38 28 0.67
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (39 bp):
AAAAATCACTATTCTAAATCTGATGGCACGATTTAATAC
Found at i:956046 original size:39 final size:39
Alignment explanation
Indices: 956002--956132 Score: 133
Period size: 38 Copynumber: 3.4 Consensus size: 39
955992 ACAAGCTATG
* *
956002 AACAAAAATTACTATTTTAACCTCGGTGGCACATTTCAA
1 AACAAAAACTACTATTTTAAACTCGGTGGCACATTTCAA
* * * * *
956041 AACAAAAACTACTATTCTAAAC-CGATGGAACGTTTCGA
1 AACAAAAACTACTATTTTAAACTCGGTGGCACATTTCAA
* *
956079 AACGAAAACGACTATTTTAAACT-GGTGGCACGA-TTCAA
1 AACAAAAACTACTATTTTAAACTCGGTGGCAC-ATTTCAA
* *
956117 TACAAAAACTATTATT
1 AACAAAAACTACTATT
956133 CTTATTCGCT
Statistics
Matches: 72, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
38 53 0.74
39 19 0.26
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.27
Consensus pattern (39 bp):
AACAAAAACTACTATTTTAAACTCGGTGGCACATTTCAA
Found at i:956148 original size:38 final size:37
Alignment explanation
Indices: 956106--956227 Score: 120
Period size: 38 Copynumber: 3.2 Consensus size: 37
956096 TAAACTGGTG
* * *
956106 GCACGATTCAATACAAAAA-CTATTATTCTTATTCGCT
1 GCACGGTTCAATACAAAAATC-ACTATTCTTATCCGCT
* * *
956143 AGCACGGTTTATTACAAAAATCACTATTCTTATCCGGT
1 -GCACGGTTCAATACAAAAATCACTATTCTTATCCGCT
* * *
956181 GACACGGTTCAATACAAAAATCACTATTTTTAACCGGT
1 G-CACGGTTCAATACAAAAATCACTATTCTTATCCGCT
956219 GGCACGGTT
1 -GCACGGTT
956228 TGAAACCGGT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
37 1 0.01
38 68 0.96
39 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (37 bp):
GCACGGTTCAATACAAAAATCACTATTCTTATCCGCT
Found at i:958221 original size:79 final size:78
Alignment explanation
Indices: 958089--958262 Score: 242
Period size: 79 Copynumber: 2.2 Consensus size: 78
958079 GCAATTAGGT
* * *
958089 AGTATAGCTAATTGAAAAAAAAAAAGAACAATTTTAATGTTAATTATGTGCCTAATATTACATCT
1 AGTAAAGCCAATTGAAAAAAAAAAAGAACAATTTTAATGTTAATCATGTGCCTAATATTACATCT
* *
958154 AATTTATAGCTAT
66 AATTTACAGCTAC
* * *
958167 AGTAATGCCAATTGAAAAAAAAAAAGGAA-AACTTTTTATGTTAATCATGTGCCTATTATTACAT
1 AGTAAAGCCAATTGAAAAAAAAAAA-GAACAA-TTTTAATGTTAATCATGTGCCTAATATTACAT
958231 CTAATTTACAGCTAC
64 CTAATTTACAGCTAC
*
958246 AGTAAAGTCAATTGAAA
1 AGTAAAGCCAATTGAAA
958263 GGGACAAAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
78 24 0.29
79 60 0.71
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (78 bp):
AGTAAAGCCAATTGAAAAAAAAAAAGAACAATTTTAATGTTAATCATGTGCCTAATATTACATCT
AATTTACAGCTAC
Found at i:961263 original size:14 final size:15
Alignment explanation
Indices: 961244--961272 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
961234 ATTTTTTAAT
961244 TTTTTTA-AAAATAA
1 TTTTTTACAAAATAA
961258 TTTTTTACAAAATAA
1 TTTTTTACAAAATAA
961273 ATGAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTTTTACAAAATAA
Found at i:966133 original size:20 final size:19
Alignment explanation
Indices: 966108--966161 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
966098 CTACCACTGT
966108 TTGTATCGATACAT-AGCATA
1 TTGTATCGATACATAAG-A-A
966128 TTGTATCGATACATGAAGAA
1 TTGTATCGATACAT-AAGAA
966148 TTGTATCGATACAT
1 TTGTATCGATACAT
966162 TATCTCAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.91
21 1 0.03
22 2 0.06
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATAAGAA
Found at i:967745 original size:15 final size:15
Alignment explanation
Indices: 967725--967759 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
967715 AAGCATCAAA
967725 GATGATGAAT-ATAAT
1 GATGATG-ATGATAAT
967740 GATGATGATGATAAT
1 GATGATGATGATAAT
967755 GATGA
1 GATGA
967760 AGTTGACTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.43, C:0.00, G:0.26, T:0.31
Consensus pattern (15 bp):
GATGATGATGATAAT
Found at i:973088 original size:14 final size:14
Alignment explanation
Indices: 973069--973097 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
973059 AAGAAGAGCA
973069 ACAAGTAATGGAAG
1 ACAAGTAATGGAAG
973083 ACAAGTAATGGAAG
1 ACAAGTAATGGAAG
973097 A
1 A
973098 TGATACGCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.28, T:0.14
Consensus pattern (14 bp):
ACAAGTAATGGAAG
Found at i:974033 original size:21 final size:21
Alignment explanation
Indices: 973996--974062 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
973986 TTTCAATATC
* *
973996 AATAAAT-ATTTTAAGCTATG
1 AATAAATGTTTTTAAGCTATA
* *
974016 AATAAATGTTTTTGAGCTTTA
1 AATAAATGTTTTTAAGCTATA
*
974037 AATAGAATGTTTTTAAG-TAAA
1 AATA-AATGTTTTTAAGCTATA
974058 AATAA
1 AATAA
974063 TTCAAAGTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 8 0.21
21 19 0.50
22 11 0.29
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (21 bp):
AATAAATGTTTTTAAGCTATA
Found at i:974234 original size:20 final size:19
Alignment explanation
Indices: 974188--974244 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
974178 TTGTATGGAT
*
974188 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
*
974207 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
974226 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
974245 AAACTGGTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:974334 original size:33 final size:33
Alignment explanation
Indices: 974274--974336 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
974264 TACCACTGTT
*
974274 TGTATCGATACATGACACATTGGATCGATAGAA
1 TGTATCGATACATGACAAATTGGATCGATAGAA
*
974307 TGTATCGATACATGA-AGAATTGTATCGATA
1 TGTATCGATACATGACA-AATTGGATCGATA
974337 CATTGTCCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 1 0.04
33 26 0.96
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (33 bp):
TGTATCGATACATGACAAATTGGATCGATAGAA
Found at i:975672 original size:48 final size:48
Alignment explanation
Indices: 975601--975699 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
975591 TCGGTTTTAA
975601 TGCACAAATGTTAAAATGATCTTAAATGGATATGTGTTGACTTGAAAG
1 TGCACAAATGTTAAAATGATCTTAAATGGATATGTGTTGACTTGAAAG
975649 TGCACAAATGTTAAAATGATCTTAAATGGATATGTGTTGACTTGAAAG
1 TGCACAAATGTTAAAATGATCTTAAATGGATATGTGTTGACTTGAAAG
975697 TGC
1 TGC
975700 TTACATGACC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.33
Consensus pattern (48 bp):
TGCACAAATGTTAAAATGATCTTAAATGGATATGTGTTGACTTGAAAG
Found at i:976488 original size:7 final size:7
Alignment explanation
Indices: 976476--976510 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
976466 GAAGATGATG
976476 AAATAAA
1 AAATAAA
976483 AAATAAA
1 AAATAAA
976490 AAATAAA
1 AAATAAA
976497 AAATAAA
1 AAATAAA
976504 AAATAAA
1 AAATAAA
976511 TAGGTAGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAATAAA
Found at i:977922 original size:13 final size:13
Alignment explanation
Indices: 977904--977928 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
977894 ATATAAGTTT
977904 TGTATCGATACAG
1 TGTATCGATACAG
977917 TGTATCGATACA
1 TGTATCGATACA
977929 AAATCACCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:992194 original size:20 final size:20
Alignment explanation
Indices: 992165--992218 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
992155 AGAATGAAAA
* * *
992165 TGTATTGATATATTTTTCAT
1 TGTATCGATACATTCTTCAT
992185 TGTATCGATACATTCTTCAT
1 TGTATCGATACATTCTTCAT
* *
992205 TATATCGACACATT
1 TGTATCGATACATT
992219 TTGGGTTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.48
Consensus pattern (20 bp):
TGTATCGATACATTCTTCAT
Found at i:995792 original size:21 final size:21
Alignment explanation
Indices: 995768--995819 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
995758 TTATAATTTG
* *
995768 TATCGATACAATTAGTGTATA
1 TATCGATACAATAAGTGGATA
*
995789 TATCGATAC-ATAAGTGGATG
1 TATCGATACAATAAGTGGATA
995809 TATCGATACAA
1 TATCGATACAA
995820 GACCATATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (21 bp):
TATCGATACAATAAGTGGATA
Found at i:1000795 original size:32 final size:33
Alignment explanation
Indices: 1000759--1000854 Score: 131
Period size: 32 Copynumber: 2.9 Consensus size: 33
1000749 GTGACAATCC
*
1000759 TTTTCAAAGCTCACACAAGTCGATGGCAACC-A
1 TTTTCAAAGCCCACACAAGTCGATGGCAACCTA
* * * *
1000791 TTTTCAAAACCCACACAAGTCGGTGGTAACCTT
1 TTTTCAAAGCCCACACAAGTCGATGGCAACCTA
*
1000824 TTTTCAAAGCCCACATAAGTCGATGGCAACC
1 TTTTCAAAGCCCACACAAGTCGATGGCAACC
1000855 CCTTCTAAAG
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 27 0.50
33 27 0.50
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (33 bp):
TTTTCAAAGCCCACACAAGTCGATGGCAACCTA
Found at i:1000887 original size:65 final size:63
Alignment explanation
Indices: 1000727--1000910 Score: 183
Period size: 65 Copynumber: 2.9 Consensus size: 63
1000717 CCAAATATTT
* * *
1000727 TTCTCAAAGCCCA-AATAAGTTGGTGACAATCCTTTTCAAAGCTCACACAAGTCGATGGCAACCA
1 TTCTCAAAACCCACAA-AAGTTGGTGACAA-CCTTTTCAAAGCCCACATAAGTCGATGGCAACCA
* * * **
1000791 TTTTCAAAACCCACACAAGTCGGTGGTAACCTTTTTTCAAAGCCCACATAAGTCGATGGCAACCC
1 TTCTCAAAACCCACAAAAGTTGGTGACAACC--TTTTCAAAGCCCACATAAGTCGATGGCAA-CC
*
1000856 C
63 A
* * * *
1000857 TTCT-AAAGCTCACAAAAGTTGGTGACAACCTTCTCAAAAGCCCGCATAAGTCGA
1 TTCTCAAAACCCACAAAAGTTGGTGACAACCTTTTC-AAAGCCCACATAAGTCGA
1000911 CGACGTCTCC
Statistics
Matches: 97, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
63 6 0.06
64 38 0.39
65 48 0.49
66 5 0.05
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (63 bp):
TTCTCAAAACCCACAAAAGTTGGTGACAACCTTTTCAAAGCCCACATAAGTCGATGGCAACCA
Found at i:1000908 original size:97 final size:98
Alignment explanation
Indices: 1000724--1000909 Score: 216
Period size: 97 Copynumber: 1.9 Consensus size: 98
1000714 CCTCCAAATA
* * * * * *
1000724 TTTTTCTCAAAGCCCAAATAAGTTGGTGACAATCCTTTTCAAAGCTCACACAAGTCGATGGCAAC
1 TTTTTCTCAAAGCCCAAATAAGTCGATGACAACCCTTCTCAAAGCTCACAAAAGTCGATGACAAC
*
1000789 CATTTTCAAAACCCACACAAGTCGGTGGTAACC
66 CATTCTCAAAACCCACACAAGTCGGTGGTAACC
* * * *
1000822 TTTTT-TCAAAGCCCACATAAGTCGATGGCAACCCCTTCT-AAAGCTCACAAAAGTTGGTGACAA
1 TTTTTCTCAAAGCCCAAATAAGTCGATGACAA-CCCTTCTCAAAGCTCACAAAAGTCGATGACAA
* *
1000885 CC-TTCTCAAAAGCCCGCATAAGTCG
65 CCATTCTCAAAA-CCCACACAAGTCG
1000910 ACGACGTCTC
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
96 8 0.11
97 55 0.75
98 10 0.14
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (98 bp):
TTTTTCTCAAAGCCCAAATAAGTCGATGACAACCCTTCTCAAAGCTCACAAAAGTCGATGACAAC
CATTCTCAAAACCCACACAAGTCGGTGGTAACC
Found at i:1001244 original size:111 final size:110
Alignment explanation
Indices: 1001108--1001345 Score: 386
Period size: 111 Copynumber: 2.2 Consensus size: 110
1001098 GTTGCTGGCC
** *
1001108 TTGAATCAGCACATTCATACCTATCAAACTTTCTTTCTTAAGTCCAACGTCACTGGCCTTGAATT
1 TTGAATCAGCACATTGGTACCTATCAAACTTTCTTTCTCAAGTCCAACGTCACTGGCCTTGAATT
* * *
1001173 AGCACCTTGGCACCCTGTATCATTTCTAGAACTAGTGTCGCTAGCT
66 AGCACCTTGGCACCC-ATATCATCTCTAGAACCAGTGTCGCTAGCT
*
1001219 TTGAATCAGCACATTGGTACCTATCAAACTTTCTTTCTCAAGTCCAATGTCACTGGCCTTGAATT
1 TTGAATCAGCACATTGGTACCTATCAAACTTTCTTTCTCAAGTCCAACGTCACTGGCCTTGAATT
*
1001284 AGCACCTTGGCACCCATATCATCTCTAGAACCAGTGTCGCTGGCT
66 AGCACCTTGGCACCCATATCATCTCTAGAACCAGTGTCGCTAGCT
*
1001329 TTGAATCAGCATATTGG
1 TTGAATCAGCACATTGG
1001346 CCTCTCTACC
Statistics
Matches: 118, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
110 42 0.36
111 76 0.64
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (110 bp):
TTGAATCAGCACATTGGTACCTATCAAACTTTCTTTCTCAAGTCCAACGTCACTGGCCTTGAATT
AGCACCTTGGCACCCATATCATCTCTAGAACCAGTGTCGCTAGCT
Found at i:1002344 original size:17 final size:17
Alignment explanation
Indices: 1002318--1002350 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1002308 TTGACCCAAA
*
1002318 TGTATTGATACATTCTT
1 TGTATCGATACATTCTT
1002335 TGTATCGATACATTCT
1 TGTATCGATACATTCT
1002351 GGGTTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (17 bp):
TGTATCGATACATTCTT
Found at i:1002354 original size:48 final size:49
Alignment explanation
Indices: 1002263--1002383 Score: 163
Period size: 49 Copynumber: 2.4 Consensus size: 49
1002253 TTTTGGAATA
* *
1002263 AAAATGTATCGATACATTTTTCATTGTATCGATACATTTTGGG-TTTTGACC
1 AAAATGTATCGATACA---TTCTTTGTATCGATACATTCTGGGTTTTTGACC
* * *
1002314 CAAATGTATTGATACATTCTTTGTATCGATACATTCTGGGTTTTTGATC
1 AAAATGTATCGATACATTCTTTGTATCGATACATTCTGGGTTTTTGACC
1002363 AAAATGTATCGATACATTCTT
1 AAAATGTATCGATACATTCTT
1002384 CAATGTATCG
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
48 22 0.35
49 26 0.42
51 14 0.23
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (49 bp):
AAAATGTATCGATACATTCTTTGTATCGATACATTCTGGGTTTTTGACC
Found at i:1004687 original size:69 final size:69
Alignment explanation
Indices: 1004551--1004699 Score: 176
Period size: 69 Copynumber: 2.2 Consensus size: 69
1004541 AGGGGATATG
* * * ** *
1004551 CCAACCCTATTTTTAAACTTATCAACTTTTAATTCTTATTTTGCATAAATTTTCATCATTTGGGA
1 CCAACCCCATTTTTAAACTTATCAACTTTTAAATCTTATTTTGCATAAATTCTCATCATCAGAGA
1004616 TACT
66 TACT
**
1004620 CCAACCCCATTTTTAAACTTATCAA-TATTTAAATCTTATTTTGTTTAAATTGCT-ATCATCAGA
1 CCAACCCCATTTTTAAACTTATCAACT-TTTAAATCTTATTTTGCATAAATT-CTCATCATCAGA
1004683 GATACT
64 GATACT
* *
1004689 TCAACCACATT
1 CCAACCCCATT
1004700 CTTCCGAGGG
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
68 1 0.01
69 66 0.97
70 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (69 bp):
CCAACCCCATTTTTAAACTTATCAACTTTTAAATCTTATTTTGCATAAATTCTCATCATCAGAGA
TACT
Found at i:1004783 original size:97 final size:96
Alignment explanation
Indices: 1004615--1004854 Score: 304
Period size: 97 Copynumber: 2.5 Consensus size: 96
1004605 ATCATTTGGG
* * *
1004615 ATACTCCAACCCCATTTTTAAACTTATCAATATTTAAATCTTATTTTGTTTAAATTGCTATCATC
1 ATACTCCAACCCCGTTTTTAAACTTATCAAGATTTAAATCTTATTTTGCTTAAATTGCTATCATC
**
1004680 AGAGATACTTCAAC-CACATTCTTCCGAGGGA
66 AGAGATACCCCAACTC-CATTCTTCCGAGGGA
* *
1004711 ATACTCCAACCCCGTTTTTAAAAATTATCAAGATTTAAATCTTATTTTGCTTAAATTGTTATCAT
1 ATACTCCAACCCCGTTTTT-AAACTTATCAAGATTTAAATCTTATTTTGCTTAAATTGCTATCAT
* ** *
1004776 C-GAAGATACCCCAACTCCATTTTTTTGAGGGG
65 CAG-AGATACCCCAACTCCATTCTTCCGAGGGA
* * * *
1004808 ATACTCTAACCTCGTTTTTAAACTAAACAAGATTTAAATCTTATTTT
1 ATACTCCAACCCCGTTTTTAAACTTATCAAGATTTAAATCTTATTTT
1004855 TACCTGAATT
Statistics
Matches: 125, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
96 44 0.35
97 80 0.64
98 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.39
Consensus pattern (96 bp):
ATACTCCAACCCCGTTTTTAAACTTATCAAGATTTAAATCTTATTTTGCTTAAATTGCTATCATC
AGAGATACCCCAACTCCATTCTTCCGAGGGA
Found at i:1009613 original size:13 final size:13
Alignment explanation
Indices: 1009597--1009621 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1009587 TTTAATTAAA
1009597 TTTTTTATTTTAC
1 TTTTTTATTTTAC
1009610 TTTTTTATTTTA
1 TTTTTTATTTTA
1009622 TTGATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTATTTTAC
Found at i:1010073 original size:22 final size:22
Alignment explanation
Indices: 1010021--1010074 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
1010011 CAGGTTTACG
*
1010021 TATTTATATGTTTAATTTAATTA
1 TATTTATATGTTTAA-TAAATTA
1010044 T-TTATATATGTTTTAA-AAATTA
1 TATT-TATATG-TTTAATAAATTA
1010066 TATTTATAT
1 TATTTATAT
1010075 TAATATATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
22 13 0.48
23 9 0.33
24 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (22 bp):
TATTTATATGTTTAATAAATTA
Found at i:1010855 original size:62 final size:62
Alignment explanation
Indices: 1010758--1010882 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
1010748 AAATATAAAC
*
1010758 ATAACAAAAATATATTTTATAGTTATTTGTCCAAAGTAACCCCAAACACTAATTTAAGACCA
1 ATAACAAAAATATATTTTATAGTTATTTATCCAAAGTAACCCCAAACACTAATTTAAGACCA
*
1010820 ATAACGAAAATATATTTTATAGTTATTTATCCAAAGTAACCCCAAACACTAATTTAAGACCA
1 ATAACAAAAATATATTTTATAGTTATTTATCCAAAGTAACCCCAAACACTAATTTAAGACCA
1010882 A
1 A
1010883 GTGTAGTTGT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.30
Consensus pattern (62 bp):
ATAACAAAAATATATTTTATAGTTATTTATCCAAAGTAACCCCAAACACTAATTTAAGACCA
Found at i:1013631 original size:310 final size:313
Alignment explanation
Indices: 1013241--1013937 Score: 1213
Period size: 315 Copynumber: 2.2 Consensus size: 313
1013231 AGTGAATCAA
1013241 ATTTTATTATTTTTTAAA-AGATAAAATGTTTACATGTCCTACTAGATGGCTCGGTGAAACATGA
1 ATTTTATTATTTTTTAAAGAGATAAAATGTTTACATGTCCTACTAGATGGCTCGGTGAAACATGA
1013305 AATTTTAAGTGTTATGAAACCCTT-G-GCCCTCGAAAATGAATTCCAAAATTTGCTTATAAACCA
66 AATTTTAAGTGTTATGAAACCCTTAGAGCCCTCGAAAATGAATTCCAAAATTTGCTTATAAACCA
1013368 AGAAAAATAAGGTTTGGATTCTATTGCATATAGGAAGGATTAGCATTCCATAATACCTAAAAATT
131 AGAAAAATAAGGTTTGGATTCTATTGCATATAGGAAGGATTAGCATTCCATAATACCTAAAAATT
*
1013433 GATAACTTTAAATTATGTGTTATTTTAAATTTTGATTAAAATTTATTTTAA-TTTTGGTATTCAA
196 GATAACTTTAAATTATGTGTTATCTTAAATTTTGATTAAAATTTATTTTAATTTTTGGTATTCAA
1013497 AAAAAATTCTCCCGCTTTAAAATTTTTTCTCACTATTATTTAATATTTCTTTT
261 AAAAAATTCTCCCGCTTTAAAATTTTTTCTCACTATTATTTAATATTTCTTTT
1013550 ATTTTATTATTTTTTAAAGAGATAAAATGTTTACATGTCCTACTAGATGGCTCGGTGAAACATGA
1 ATTTTATTATTTTTTAAAGAGATAAAATGTTTACATGTCCTACTAGATGGCTCGGTGAAACATGA
*
1013615 AATTTTAAGTGTTATGAAACCCTTGAAGAAGCCCTCGAAAATGGATTCCAAAATTTGCTTATAAA
66 AATTTTAAGTGTTATGAAACCCTT--AG-AGCCCTCGAAAATGAATTCCAAAATTTGCTTATAAA
*
1013680 CCAAGAAAAATAAGGTTTGGATTCTATTGCGTATAGGAAGGATTAGCATTCCATAATACCTAAAA
128 CCAAGAAAAATAAGGTTTGGATTCTATTGCATATAGGAAGGATTAGCATTCCATAATACCTAAAA
1013745 ATTGATAACTTTAAATTATGTGTTATCTTAAATTTTGATTAAAATTTATTTTAATTTTTGGTATT
193 ATTGATAACTTTAAATTATGTGTTATCTTAAATTTTGATTAAAATTTATTTTAATTTTTGGTATT
* * *
1013810 TAAAAATAATTCTCCTGCTTTAAAATTTTTTCTCACTATTATTTAATATTTCTTTT
258 CAAAAAAAATTCTCCCGCTTTAAAATTTTTTCTCACTATTATTTAATATTTCTTTT
** * * * ** *
1013866 ATTTTATTATTTTTTAAAGAGATAAAATGTTTTGATGTCCTATTGGATGGCCCAATAAAACATGA
1 ATTTTATTATTTTTTAAAGAGATAAAATGTTTACATGTCCTACTAGATGGCTCGGTGAAACATGA
1013931 AATTTTA
66 AATTTTA
1013938 TTCTTTGAGG
Statistics
Matches: 367, Mismatches: 14, Indels: 7
0.95 0.04 0.02
Matches are distributed among these distances:
309 18 0.05
310 70 0.19
313 1 0.00
315 151 0.41
316 127 0.35
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.41
Consensus pattern (313 bp):
ATTTTATTATTTTTTAAAGAGATAAAATGTTTACATGTCCTACTAGATGGCTCGGTGAAACATGA
AATTTTAAGTGTTATGAAACCCTTAGAGCCCTCGAAAATGAATTCCAAAATTTGCTTATAAACCA
AGAAAAATAAGGTTTGGATTCTATTGCATATAGGAAGGATTAGCATTCCATAATACCTAAAAATT
GATAACTTTAAATTATGTGTTATCTTAAATTTTGATTAAAATTTATTTTAATTTTTGGTATTCAA
AAAAAATTCTCCCGCTTTAAAATTTTTTCTCACTATTATTTAATATTTCTTTT
Found at i:1015467 original size:13 final size:14
Alignment explanation
Indices: 1015449--1015481 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1015439 TTTTGCAAGC
1015449 TCTTTTCCTTT-TT
1 TCTTTTCCTTTCTT
*
1015462 TCTTTTTCTTTCTT
1 TCTTTTCCTTTCTT
1015476 TCTTTT
1 TCTTTT
1015482 TATTCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TCTTTTCCTTTCTT
Found at i:1015482 original size:21 final size:21
Alignment explanation
Indices: 1015456--1015507 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
1015446 AGCTCTTTTC
1015456 CTTTTTTCT-TTTTCTTTCTTT
1 CTTTTTTCTCTTTT-TTTCTTT
1015477 CTTTTTAT-TCTTTTTTTCTTT
1 CTTTTT-TCTCTTTTTTTCTTT
1015498 CAGTTTTTTC
1 C--TTTTTTC
1015508 AAGATGATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
21 15 0.58
22 6 0.23
23 5 0.19
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (21 bp):
CTTTTTTCTCTTTTTTTCTTT
Found at i:1015489 original size:9 final size:8
Alignment explanation
Indices: 1015451--1015497 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
1015441 TTGCAAGCTC
*
1015451 TTTTCCTT
1 TTTTCTTT
1015459 TTTTC--T
1 TTTTCTTT
1015465 TTTTCTTT
1 TTTTCTTT
*
1015473 CTTTCTTT
1 TTTTCTTT
1015481 TTATTCTTT
1 TT-TTCTTT
1015490 TTTTCTTT
1 TTTTCTTT
1015498 CAGTTTTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 6 0.18
8 20 0.59
9 8 0.24
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTCTTT
Found at i:1019061 original size:17 final size:17
Alignment explanation
Indices: 1019041--1019081 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
1019031 TTAAGTTTAT
1019041 TTAATAAGTAAATA-TTC
1 TTAATAA-TAAATAGTTC
1019058 TTAATAATAAATAGTTC
1 TTAATAATAAATAGTTC
1019075 TTAATAA
1 TTAATAA
1019082 ATCAGAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (17 bp):
TTAATAATAAATAGTTC
Found at i:1022944 original size:20 final size:21
Alignment explanation
Indices: 1022919--1022968 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
1022909 ATTAAATCTA
1022919 TCAAATATAGTATGAATTG-C
1 TCAAATATAGTATGAATTGAC
* *
1022939 TCAAATAAATTATGAATTGATC
1 TCAAATATAGTATGAATTGA-C
1022961 TCAAATAT
1 TCAAATAT
1022969 GAAAAGTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.68
22 8 0.32
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (21 bp):
TCAAATATAGTATGAATTGAC
Found at i:1023927 original size:19 final size:20
Alignment explanation
Indices: 1023898--1023936 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
1023888 AAATTAAATA
1023898 TATTCATATTAATTTATACT
1 TATTCATATTAATTTATACT
*
1023918 TATTCA-ATTATTTTATACT
1 TATTCATATTAATTTATACT
1023937 GAATTCAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTCATATTAATTTATACT
Found at i:1023942 original size:20 final size:19
Alignment explanation
Indices: 1023899--1023949 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
1023889 AATTAAATAT
*
1023899 ATTCATATTAATTTATACTT
1 ATTCA-ATTAATTTATACTA
*
1023919 ATTCAATTATTTTATACTGA
1 ATTCAATTAATTTATACT-A
*
1023939 ATTCAAGTAAT
1 ATTCAATTAAT
1023950 ATATTCTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (19 bp):
ATTCAATTAATTTATACTA
Found at i:1026877 original size:10 final size:9
Alignment explanation
Indices: 1026814--1026875 Score: 69
Period size: 9 Copynumber: 7.1 Consensus size: 9
1026804 GATATAAACA
1026814 TAAAATTTT
1 TAAAATTTT
1026823 TAAAATTTT
1 TAAAATTTT
1026832 TAAAATTTTT
1 TAAAA-TTTT
1026842 TAAAA-TTT
1 TAAAATTTT
*
1026850 T-AAATATAT
1 TAAAAT-TTT
1026859 T--AATTTT
1 TAAAATTTT
1026866 TAAAATTTT
1 TAAAATTTT
1026875 T
1 T
1026876 TATATAAATC
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
7 6 0.13
8 7 0.15
9 24 0.52
10 9 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TAAAATTTT
Found at i:1027074 original size:19 final size:19
Alignment explanation
Indices: 1027050--1027087 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1027040 ATACGAATAT
*
1027050 AAATTTAATAATATTTTAA
1 AAATTTAATAATATCTTAA
1027069 AAATTTAATAATATCTTAA
1 AAATTTAATAATATCTTAA
1027088 GTTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATTTAATAATATCTTAA
Found at i:1027172 original size:3 final size:3
Alignment explanation
Indices: 1027164--1027189 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1027154 CTTTTTTCCA
1027164 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1027190 AACATTGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1027831 original size:23 final size:23
Alignment explanation
Indices: 1027800--1027862 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
1027790 TTTTAAAAAA
1027800 TAATATTTAATAATTATAAACTTT
1 TAAT-TTTAATAATTATAAACTTT
* *
1027824 TAATTTTAATATTTATAAATTTT
1 TAATTTTAATAATTATAAACTTT
* *
1027847 TTATTTTTA-AATTATA
1 TAATTTTAATAATTATA
1027863 TTTTTTAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 6 0.18
23 24 0.71
24 4 0.12
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TAATTTTAATAATTATAAACTTT
Found at i:1027861 original size:22 final size:22
Alignment explanation
Indices: 1027811--1027871 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 22
1027801 AATATTTAAT
*
1027811 AATTATAAA-CTTTTAATTTTA
1 AATTATAAATTTTTTAATTTTA
*
1027832 ATATTTATAAATTTTTTATTTTTA
1 A-A-TTATAAATTTTTTAATTTTA
1027856 AATTAT--ATTTTTTAAT
1 AATTATAAATTTTTTAAT
1027872 AAAAATAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 9 0.26
21 1 0.03
22 5 0.15
23 8 0.24
24 11 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
AATTATAAATTTTTTAATTTTA
Found at i:1029817 original size:17 final size:17
Alignment explanation
Indices: 1029789--1029829 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
1029779 CAGAGGAATA
1029789 TAAAAT-TTTTCAAGGC
1 TAAAATGTTTTCAAGGC
1029805 TAAAATGTTTTCAAGGC
1 TAAAATGTTTTCAAGGC
1029822 TAAAATGT
1 TAAAATGT
1029830 CTTTTGTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (17 bp):
TAAAATGTTTTCAAGGC
Found at i:1031835 original size:13 final size:13
Alignment explanation
Indices: 1031817--1031842 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1031807 ACATAAGTGT
1031817 TGTATCGATACAA
1 TGTATCGATACAA
1031830 TGTATCGATACAA
1 TGTATCGATACAA
1031843 AAGCTACCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1035170 original size:14 final size:14
Alignment explanation
Indices: 1035151--1035180 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1035141 TTTTTTGTAC
1035151 ATCCTTGCAGCTCG
1 ATCCTTGCAGCTCG
1035165 ATCCTTGCAGCTCG
1 ATCCTTGCAGCTCG
1035179 AT
1 AT
1035181 TCCCCCTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.17, C:0.33, G:0.20, T:0.30
Consensus pattern (14 bp):
ATCCTTGCAGCTCG
Found at i:1035838 original size:21 final size:21
Alignment explanation
Indices: 1035794--1035848 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
1035784 CATTTCATGA
1035794 TTGATTTTT-TTT-TT-ACTT
1 TTGATTTTTATTTATTAACTT
*
1035812 TT-ATTTTTATTTATTAATTT
1 TTGATTTTTATTTATTAACTT
* *
1035832 TTGATTTCTAATTATTA
1 TTGATTTTTATTTATTA
1035849 TTATATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 6 0.20
18 5 0.17
19 2 0.07
20 5 0.17
21 12 0.40
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.71
Consensus pattern (21 bp):
TTGATTTTTATTTATTAACTT
Found at i:1036390 original size:43 final size:43
Alignment explanation
Indices: 1036336--1037284 Score: 993
Period size: 43 Copynumber: 22.2 Consensus size: 43
1036326 TAGATGAAGT
* * * * *
1036336 AGTCTTCAGGGTTAAAGCCGACACGCAGACTGAGGGATAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * *
1036379 AATCTCCAGGGTCAAAGCTGACAGGCAGATTAAGAGATAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * *
1036422 AGTCTCCAAGATCAAAGCTGACAAGG-AGACTAAGGGA-AGGAA
1 AGTCTCCAGGGTCAAAGCCGAC-AGGCAGACTAAGGGATAGGAA
* *
1036464 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAGGGA-AAGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* *
1036506 AGTCTCCAAGGTCAAAGCCGATAGGCAGACTAAGGGA-AGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * *
1036548 AGTCTCCAGGGTTAAAGCTGATAGGCAGACTAAGGGATAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * *
1036591 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAGGGATAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* *
1036634 AGTCTCCAAGGTCAAAGCCGATAGGCAGACTAAGGGATAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* *
1036677 AGTCTCTAGGGTCAAAGCCGACAGGTAGACTAAGGGATAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* *
1036720 AGTCTCCGGGGGTCAAAGCC-AGCAGGCAGACTAAGAGATAGGAA
1 AGTCTCC-AGGGTCAAAGCCGA-CAGGCAGACTAAGGGATAGGAA
* * * * *
1036764 AGTCTCCAAGGTCAAAACCGATAGGCAGACTGAGGGATAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * ** *
1036807 AGTCTCCAAGGTCAAAGCCGACAAGTGGACTGAGGGATAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * *
1036850 AGTCTCTAGGGTCAAAGCCGACAAGCAGACTGAGGGAAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * *
1036893 AGTCTCCAAGGTCAAAGCCGACAAGCAGACTGAA-GGACAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACT-AAGGGATAGGAA
* * * * *
1036936 AGTCTCTAGGGTCAAAGCCGATAGGTAGACTGAGGGACAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * * * * *
1036979 AGTCTCTAAGGTCAAAGTCGATAGGCAAATTGAGGGATAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * * *
1037022 AATCTCTAAGGTCAAAGCCGATAGGCAGACTAAGGGA-AGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * *
1037064 AGTCTCTAGGGTCAAAGCCGATAGACAGACTAAGGGATAAGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * * * *
1037107 AGTCTCTAGGATCAAAGCTGACAGACAGACTGAGGGATTGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * * *
1037150 AGTCTCTAGGGTCAAAGTCAACAGGTAGACTAA-GGA-AAGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * *
1037191 AGTCTCTAGGGAT-AAAGCCAACAGGCAGAATAAGGGATAGGAA
1 AGTCTCCAGGG-TCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * * *
1037234 AGTCTCTAAGGTCAAAACCGATAAGCAGACTAAGGGA-AGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
1037276 AGTCTCCAG
1 AGTCTCCAG
1037285 AAGTTTAATG
Statistics
Matches: 776, Mismatches: 117, Indels: 27
0.84 0.13 0.03
Matches are distributed among these distances:
41 34 0.04
42 169 0.22
43 530 0.68
44 43 0.06
ACGTcount: A:0.38, C:0.17, G:0.30, T:0.15
Consensus pattern (43 bp):
AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
Found at i:1050002 original size:11 final size:11
Alignment explanation
Indices: 1049976--1050011 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
1049966 GAAAAAGAAT
1049976 TTTTGTTATTTTA
1 TTTTGTTA--TTA
1049989 TTTTGTTATTA
1 TTTTGTTATTA
1050000 TTTTGTTATTA
1 TTTTGTTATTA
1050011 T
1 T
1050012 ATATTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 15 0.65
13 8 0.35
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (11 bp):
TTTTGTTATTA
Found at i:1051948 original size:19 final size:20
Alignment explanation
Indices: 1051910--1051955 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
1051900 TTATTTAAAT
1051910 TTAATTATAAAAATATATATA
1 TTAA-TATAAAAATATATATA
* *
1051931 TTAATATAAAATTA-ATATT
1 TTAATATAAAAATATATATA
1051950 TTAATA
1 TTAATA
1051956 ATTTTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 9 0.39
21 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAATATAAAAATATATATA
Found at i:1053229 original size:26 final size:26
Alignment explanation
Indices: 1053175--1053230 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
1053165 TAGAATCTCT
* * * * *
1053175 GATAAAGTTGAATTTTATTAATTCTA
1 GATAAAGTTAAACTTTATCAATACCA
1053201 GATAAAGTTAAACTTTATCAATACCA
1 GATAAAGTTAAACTTTATCAATACCA
1053227 GATA
1 GATA
1053231 CTTTATCAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.38
Consensus pattern (26 bp):
GATAAAGTTAAACTTTATCAATACCA
Found at i:1060077 original size:26 final size:27
Alignment explanation
Indices: 1060028--1060084 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 27
1060018 ATTTTTATAT
1060028 TATATTAAGAAAAAAGAATGTATATTTG
1 TATATTAAG-AAAAAGAATGTATATTTG
1060056 TATATTAAG-AAAAG-ATGTTATATTTG
1 TATATTAAGAAAAAGAATG-TATATTTG
1060082 TAT
1 TAT
1060085 TTTTTATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 3 0.11
26 16 0.57
28 9 0.32
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (27 bp):
TATATTAAGAAAAAGAATGTATATTTG
Found at i:1061416 original size:150 final size:149
Alignment explanation
Indices: 1061089--1061531 Score: 557
Period size: 150 Copynumber: 2.9 Consensus size: 149
1061079 AAAACTATTG
* * * *
1061089 TTCTCTACATTACATCTTGAGTTAAAATTTTGAAATATATAT-TTAGAATATTTGATTATTTTTG
1 TTCTCTACATAAAATCTTGAGTTAAAATTTTGAAATATACATCTTAGAACATTTGATTATTTTTG
* * * *
1061153 AATTTCTTAGATAAATATTTTTATAATTTTGTTAAAATTAAAAATTTGATAAAAAAAGATTTTTT
66 AATTTTTTAGATAAATATTTTGATAATTTTGTTAAAATTTAGAATTTGAT--AAAAA-ATTTTTT
* ** *
1061218 TTCGTTTAAAATATGGTATATT
128 TTTGTTTAAAATACAGTACATT
* * * * *
1061240 TTCTCTACA-ATAAATCTTCAGTTAAAATTTTGTAATATACATCTTAAAAGATTTGATTTTTTTT
1 TTCTCTACATA-AAATCTTGAGTTAAAATTTTGAAATATACATCTTAGAACATTTGA-TTATTTT
* * * * * *
1061304 TGAATTTTTTAGACAAATGTTTCGATAATTTTGTTAAATTTTAGAATTTGATGAACAATTTTTTT
64 TGAATTTTTTAGATAAATATTTTGATAATTTTGTTAAAATTTAGAATTTGATAAAAAATTTTTTT
1061369 TTGTTTAAAATACAGTACATT
129 TTGTTTAAAATACAGTACATT
* *
1061390 TTCTCTACATAAAACCTTGAGTTAAAATTTTGAAATATACATCTTAGAACATTTGATTGTTTTTG
1 TTCTCTACATAAAATCTTGAGTTAAAATTTTGAAATATACATCTTAGAACATTTGATTATTTTTG
* **
1061455 AATTTTGTAGATAAATATTTTGATAATTTTGTTAAAATTTAGAATTTGATAAAAAAGGATTTTTT
66 AATTTTTTAGATAAATATTTTGATAATTTTGTTAAAATTTAGAATTTGATAAAAAA-TTTTTTTT
1061520 TGATTTAAAATA
130 TG-TTTAAAATA
1061532 TGGTATATTT
Statistics
Matches: 249, Mismatches: 37, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
149 57 0.23
150 82 0.33
151 49 0.20
152 11 0.04
153 50 0.20
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.48
Consensus pattern (149 bp):
TTCTCTACATAAAATCTTGAGTTAAAATTTTGAAATATACATCTTAGAACATTTGATTATTTTTG
AATTTTTTAGATAAATATTTTGATAATTTTGTTAAAATTTAGAATTTGATAAAAAATTTTTTTTT
GTTTAAAATACAGTACATT
Found at i:1061577 original size:149 final size:142
Alignment explanation
Indices: 1061111--1061577 Score: 359
Period size: 149 Copynumber: 3.1 Consensus size: 142
1061101 CATCTTGAGT
* * * * *
1061111 TAAAATTTTGAAATATATAT-TTAGAATATTTGATTATTTTTGAATTTCTTAGATAAATATTTTT
1 TAAATTTTTTAAATATACATCTTAGAACATTTGATTATTTTTGAATTT-TTAGATAAATATTTTG
* *
1061175 ATAATTTTGTTAAAATTAAAAATTTGATAAAAAAAGATTTTTTTTCGTTTAAAATATGGTATATT
65 ATAATTTTGTTAAAATTTAGAATTTGAT-AAAAAAGA-TTTTTTT-GTTTAAAATATGGTATA--
* ** *
1061240 TTCTCTACAATAAATCT-TCAGT
125 -T-T-TA-AATTAAT-TAAAAGA
* * * * * *
1061262 TAAAATTTTGT-AATATACATCTTAAAAGATTTGATTTTTTTTTGAATTTTTTAGACAAATGTTT
1 T-AAATTTTTTAAATATACATCTTAGAACATTTGA-TTATTTTTGAA-TTTTTAGATAAATATTT
* * * * ** ** *
1061326 CGATAATTTTGTTAAATTTTAGAATTTGATGAACAATTTTTTTTTGTTTAAAATACAGTACATTT
63 TGATAATTTTGTTAAAATTTAGAATTTGATAAAAAAGATTTTTTTGTTTAAAATATGGTATATTT
**
1061391 -TCTCTACA-TAAAACCTTGA
128 AAAT-TA-ATTAAAA----GA
* * *
1061410 GTTAAAATTTTGAAATATACATCTTAGAACATTTGATTGTTTTTGAATTTTGTAGATAAATATTT
1 --TAAATTTTTTAAATATACATCTTAGAACATTTGATTATTTTTGAATTTT-TAGATAAATATTT
1061475 TGATAATTTTGTTAAAATTTAGAATTTGATAAAAAAGGATTTTTTTGATTTAAAATATGGTATAT
63 TGATAATTTTGTTAAAATTTAGAATTTGATAAAAAA-GATTTTTTTG-TTTAAAATATGGTATAT
1061540 TTGAAAATTAATTAAAAGA
126 TT--AAATTAATTAAAAGA
1061559 TAAGATTTTTTAATATATA
1 TAA-ATTTTTTAA-ATATA
1061578 AGAGTAAATA
Statistics
Matches: 245, Mismatches: 48, Indels: 48
0.72 0.14 0.14
Matches are distributed among these distances:
143 2 0.01
144 2 0.01
145 2 0.01
146 1 0.00
147 4 0.02
148 12 0.05
149 66 0.27
150 44 0.18
151 32 0.13
152 22 0.09
153 54 0.22
154 4 0.02
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (142 bp):
TAAATTTTTTAAATATACATCTTAGAACATTTGATTATTTTTGAATTTTTAGATAAATATTTTGA
TAATTTTGTTAAAATTTAGAATTTGATAAAAAAGATTTTTTTGTTTAAAATATGGTATATTTAAA
TTAATTAAAAGA
Found at i:1061742 original size:4 final size:4
Alignment explanation
Indices: 1061735--1061765 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
1061725 TATATATATA
1061735 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
1061766 TTATACGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:1061862 original size:15 final size:15
Alignment explanation
Indices: 1061842--1061870 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1061832 TAATATTGAT
1061842 AGAATATAATAATTA
1 AGAATATAATAATTA
1061857 AGAATATAATAATT
1 AGAATATAATAATT
1061871 CTATTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (15 bp):
AGAATATAATAATTA
Found at i:1062792 original size:26 final size:26
Alignment explanation
Indices: 1062745--1062821 Score: 68
Period size: 26 Copynumber: 2.8 Consensus size: 26
1062735 AATTTTAATA
* **
1062745 AATAAAAATATATTAATTATTATTTTT
1 AATAAAAATATATT-ATAATTAACTTT
1062772 AATAAAAATAATATT-TAATTAACTTT
1 AATAAAAAT-ATATTATAATTAACTTT
1062798 AA-AAAAATTATATTAATAAATTAA
1 AATAAAAA-TATATT-AT-AATTAA
1062822 AAAATTAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
25 10 0.24
26 11 0.26
27 10 0.24
28 11 0.26
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (26 bp):
AATAAAAATATATTATAATTAACTTT
Found at i:1062824 original size:23 final size:25
Alignment explanation
Indices: 1062770--1062825 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
1062760 ATTATTATTT
* *
1062770 TTAATAAAAATAATATTTAATTAAC
1 TTAAAAAAAATAATATTTAATTAAA
* *
1062795 TTTAAAAAAATTATA-TTAA-TAAA
1 TTAAAAAAAATAATATTTAATTAAA
1062818 TTAAAAAA
1 TTAAAAAA
1062826 TTAATTATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 10 0.38
24 4 0.15
25 12 0.46
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
TTAAAAAAAATAATATTTAATTAAA
Found at i:1062831 original size:25 final size:25
Alignment explanation
Indices: 1062803--1062854 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
1062793 ACTTTAAAAA
*
1062803 AATTATATTAATAAATTAAAAAATT
1 AATTATATTAATAAAATAAAAAATT
* **
1062828 AATTATTTTTTTAAAATAAAAAATT
1 AATTATATTAATAAAATAAAAAATT
1062853 AA
1 AA
1062855 ACTAAAAAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
AATTATATTAATAAAATAAAAAATT
Found at i:1062913 original size:116 final size:116
Alignment explanation
Indices: 1062774--1063008 Score: 400
Period size: 117 Copynumber: 2.0 Consensus size: 116
1062764 TTATTTTTAA
*
1062774 TAAAAATAATATTTAATTAACTTTAAAAAAA-TTATATTAATAAATTAAAAAATTAATTATTTTT
1 TAAAAATAATATTTAATTAACTTTAAAAAAATTTACATTAATAAATTAAAAAATTAATTATTTTT
*
1062838 TTAAAATAAAAAATTAAACTAAAAAGCGTTTATTATTATTTTTTAATAAAAT
66 TTAAAATAAAAAATTAAACTAAAAAGAGTTTATTATTA-TTTTTAATAAAAT
* *
1062890 TAAAAATAATATTTAATTAACTTTAAAAAAATTTACATTAATAAATTAAAATATTCATTATTTTT
1 TAAAAATAATATTTAATTAACTTTAAAAAAATTTACATTAATAAATTAAAAAATTAATTATTTTT
* *
1062955 TTAAAATAAAAAATTAAATTAAAAAGAGTTTATTATTATTTTTAATTAAAT
66 TTAAAATAAAAAATTAAACTAAAAAGAGTTTATTATTATTTTTAATAAAAT
1063006 TAA
1 TAA
1063009 TTAAATTTAA
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
116 46 0.41
117 66 0.59
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.43
Consensus pattern (116 bp):
TAAAAATAATATTTAATTAACTTTAAAAAAATTTACATTAATAAATTAAAAAATTAATTATTTTT
TTAAAATAAAAAATTAAACTAAAAAGAGTTTATTATTATTTTTAATAAAAT
Found at i:1063011 original size:41 final size:39
Alignment explanation
Indices: 1062926--1063015 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 39
1062916 AAAAATTTAC
*
1062926 ATTAA-TAAATTAAAATATTCATTATTTTTTTAAAATAA
1 ATTAATTAAATTAAAAGATTCATTATTTTTTTAAAATAA
* * *
1062964 A-AAATTAAATTAAAAAGAGTTTATTATTATTTTT-AATTAA
1 ATTAATTAAATT-AAAAGA-TTCATTATT-TTTTTAAAATAA
1063004 ATTAATTAAATT
1 ATTAATTAAATT
1063016 TAATAAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
37 2 0.05
38 7 0.17
39 5 0.12
40 14 0.33
41 14 0.33
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (39 bp):
ATTAATTAAATTAAAAGATTCATTATTTTTTTAAAATAA
Found at i:1063074 original size:31 final size:33
Alignment explanation
Indices: 1063020--1063084 Score: 98
Period size: 31 Copynumber: 2.0 Consensus size: 33
1063010 TAAATTTAAT
* *
1063020 AAATAATATATTAATTATTATTTTATAAAATTA
1 AAATAATATATTAATTATAATTTTAAAAAATTA
1063053 AAATAATAT-TTAATTA-AATTTTAAAAAATTA
1 AAATAATATATTAATTATAATTTTAAAAAATTA
1063084 A
1 A
1063085 GCTATGATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 14 0.47
32 7 0.23
33 9 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (33 bp):
AAATAATATATTAATTATAATTTTAAAAAATTA
Found at i:1063379 original size:11 final size:11
Alignment explanation
Indices: 1063363--1063399 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
1063353 TTATTACTTT
1063363 TTATTTATAAA
1 TTATTTATAAA
* *
1063374 TTATTTTTAAT
1 TTATTTATAAA
1063385 TTATTTATAAA
1 TTATTTATAAA
1063396 TTAT
1 TTAT
1063400 ACAAATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTTATAAA
Found at i:1063677 original size:11 final size:11
Alignment explanation
Indices: 1063661--1063697 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
1063651 TTATTACTTT
1063661 TTATTTATAAA
1 TTATTTATAAA
* *
1063672 TTATTTTTAAT
1 TTATTTATAAA
1063683 TTATTTATAAA
1 TTATTTATAAA
1063694 TTAT
1 TTAT
1063698 ACAAATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTTATAAA
Found at i:1063890 original size:291 final size:291
Alignment explanation
Indices: 1063243--1063893 Score: 1027
Period size: 291 Copynumber: 2.2 Consensus size: 291
1063233 TACATGTATT
* * * *
1063243 ATTTTTCGGTAACGACTTATATACAAGTTTTCCTTTATATGTAAAATGACCAAGAAAAAATTTAT
1 ATTTTTCGGTAACGACTTAAATACGAGTTTTCTTTTATCTGTAAAATGACCAAGAAAAAATTTAT
1063308 TGTACATGATTATTTTTATTAAAATTAATTAATATTATACATGAATTATTACTTTTTATTTATAA
66 TGTACATGATTATTTTTATTAAAATTAATTAATATTATACATGAATTATTACTTTTTATTTATAA
*
1063373 ATTATTTTTAATTTATTTATAAATTATACAAATTTATTTTTATTAAAATTAATTAATATTGTACA
131 ATTATTTTTAATTTATTTATAAATTATACAAATTTATTTTTATAAAAATTAATTAATATTGTACA
* ** *
1063438 TGTATTATTTTTATAATTGATAGAACTTAAATTTATGTTAGCCAACAATATTTTACTTTTTTCGA
196 TG------TTTTATAATTGATAGAACTTAAATTTATATTAGCCAACAATAAATTACTTTTTTCAA
** * *
1063503 TAATGACTTATTTTGGATTTACAGACGCACACATTTT
255 TAACAACTTATTTCGGATTTACAGACGCACACATTTC
* *
1063540 ATTTTTTGGTAACGACTTAAATACGAGTTTTCTTTTATCTGTAAAATGACCATGAAAAAATTTAT
1 ATTTTTCGGTAACGACTTAAATACGAGTTTTCTTTTATCTGTAAAATGACCAAGAAAAAATTTAT
* *
1063605 TGTACATGTATTATTTTTATTAAAATTAATTAATATTGTGCATGAATTATTACTTTTTATTTATA
66 TGTACATG-ATTATTTTTATTAAAATTAATTAATATTATACATGAATTATTACTTTTTATTTATA
1063670 AATTATTTTTAATTTATTTATAAATTATACAAATTTATTTTT-TAAAAAATTAATTAATATTGTA
130 AATTATTTTTAATTTATTTATAAATTATACAAATTTATTTTTAT-AAAAATTAATTAATATTGTA
*
1063734 CATG-TTTATAATTTATAGAACTTAAATTTATATTAGCCAACAATAAATTACTTTTTTCAATAAC
194 CATGTTTTATAATTGATAGAACTTAAATTTATATTAGCCAACAATAAATTACTTTTTTCAATAAC
1063798 AACTTATTTCGGATTTACAGACGCACACATTTC
259 AACTTATTTCGGATTTACAGACGCACACATTTC
* * *
1063831 ATTTTTCGGTAATGACTTAAAAACGAGCTTTCTTTTATCTGTAAAATGACCAAGAAAAAATTT
1 ATTTTTCGGTAACGACTTAAATACGAGTTTTCTTTTATCTGTAAAATGACCAAGAAAAAATTT
1063894 TCCTCAACTT
Statistics
Matches: 329, Mismatches: 23, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
291 142 0.43
297 68 0.21
298 119 0.36
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (291 bp):
ATTTTTCGGTAACGACTTAAATACGAGTTTTCTTTTATCTGTAAAATGACCAAGAAAAAATTTAT
TGTACATGATTATTTTTATTAAAATTAATTAATATTATACATGAATTATTACTTTTTATTTATAA
ATTATTTTTAATTTATTTATAAATTATACAAATTTATTTTTATAAAAATTAATTAATATTGTACA
TGTTTTATAATTGATAGAACTTAAATTTATATTAGCCAACAATAAATTACTTTTTTCAATAACAA
CTTATTTCGGATTTACAGACGCACACATTTC
Found at i:1064155 original size:13 final size:13
Alignment explanation
Indices: 1064137--1064166 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1064127 TAATGCTTAC
*
1064137 AAAAAAAAATCAT
1 AAAAAAAAATAAT
1064150 AAAAAAAAATAAT
1 AAAAAAAAATAAT
1064163 AAAA
1 AAAA
1064167 TTTTATAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAAAAAATAAT
Found at i:1067583 original size:92 final size:91
Alignment explanation
Indices: 1067420--1068387 Score: 959
Period size: 92 Copynumber: 10.9 Consensus size: 91
1067410 TCCTTGTAGT
* * * * * *
1067420 CTTTCTTTCTTCTTAT--AAAAAAATCCGATTCTTAGATATAATTCATACATTAGTCTAATCCTT
1 CTTTCTTTTTTTTTATAAAAAAAAATTCGATTCTCAGATATAATTCATGCATTAGTCTAATTCTT
* *
1067483 ACAGTCTGACATTTACAATCAATCAGT
66 GCAGTCTGACATTTACAATCAATCA-A
1067510 CTTTCTTTTTTTTTATAAAAAAAAATTCGATTCTCAGATATAATTCATGCATTAGTCTAATTCTT
1 CTTTCTTTTTTTTTATAAAAAAAAATTCGATTCTCAGATATAATTCATGCATTAGTCTAATTCTT
* *
1067575 GCAATCTGACATTTACAATCAATTAA
66 GCAGTCTGACATTTACAATCAATCAA
** *
1067601 CTTTTCTTTTTTTCCATAAAAAAGAA-TCTGATTCTCAGATATAATTCATGCATTAGTCTAA-TC
1 C-TTTCTTTTTTTTTATAAAAAAAAATTC-GATTCTCAGATATAATTCATGCATTAGTCTAATTC
1067664 TTTGCAGTCTGACATTTACAATCAATCAA
64 -TTGCAGTCTGACATTTACAATCAATCAA
* * * *
1067693 C--T-TTTTTTTCTAT--AAAAAAATT-GATTCTCACATATAATTTATACATTAGTCTAA-TCTT
1 CTTTCTTTTTTTTTATAAAAAAAAATTCGATTCTCAGATATAATTCATGCATTAGTCTAATTC-T
* * *
1067751 TGCAATCTCACATTTACAATCAAT-TA
65 TGCAGTCTGACATTTACAATCAATCAA
* * * * * *
1067777 GTCT-TTTTTTTTTATAAAAAAGAA-TCTGATTCTCAAATATAATTCATGTATTAGTCTAATCCT
1 CTTTCTTTTTTTTTATAAAAAAAAATTC-GATTCTCAGATATAATTCATGCATTAGTCTAATTCT
1067840 TGCAGTCTGACATTTACAATCAATCAA
65 TGCAGTCTGACATTTACAATCAATCAA
* * * * *
1067867 ----CTTTTTTTTTAT-AAAAAGAATCCAATTCTCAGATATAATTCATGCATTAATCTAATCCTT
1 CTTTCTTTTTTTTTATAAAAAAAAATTCGATTCTCAGATATAATTCATGCATTAGTCTAATTCTT
* *
1067927 AG-AGTATGACATTTACAATCAGTCAA
66 -GCAGTCTGACATTTACAATCAATCAA
* * *
1067953 ------TTTTTTTTATAAAAAAGAAA-CCGATTCTCAGATATAATTCATGCATTAATCTAATCCT
1 CTTTCTTTTTTTTTATAAAAAA-AAATTCGATTCTCAGATATAATTCATGCATTAGTCTAATTCT
* * *
1068011 TACAGTCTGATATTTATAATCAATCAA
65 TGCAGTCTGACATTTACAATCAATCAA
* * * *
1068038 CTTTTCTTTTTTTCTATAAAAAAGAATT-GATTTTCATATATAATTCATGCATTAGTCTAA-TCT
1 C-TTTCTTTTTTTTTATAAAAAAAAATTCGATTCTCAGATATAATTCATGCATTAGTCTAATTC-
* *
1068101 TTGTAGTCTGACATTTACAATCGATCAA
64 TTGCAGTCTGACATTTACAATCAATCAA
* * *
1068129 CTTTTCATTTTTTTTATAAAAAAGAA-TCTGATTCTCAGATATAATTCATACATTAGTCTAA-TC
1 C-TTTCTTTTTTTTTATAAAAAAAAATTC-GATTCTCAGATATAATTCATGCATTAGTCTAATTC
*
1068192 TTTGCAGTCTGACATTTATAATCAATCAA
64 -TTGCAGTCTGACATTTACAATCAATCAA
* * ** *
1068221 CTTTTCTTTTTTTTCTAGAAAAAATAATT-GATTCTCAGATATAATTCATATATTAGTCTAATCC
1 C-TTTCTTTTTTTT-TATAAAAAAAAATTCGATTCTCAGATATAATTCATGCATTAGTCTAATTC
*
1068285 TTACAGTCTGACATTTACAATCAATCAA
64 TTGCAGTCTGACATTTACAATCAATCAA
* * * * *
1068313 ----C-TTTTTTTAATAAAAAAAAA-TCTGATTCTCAGATATAATCCATACATTAATCTATTTCT
1 CTTTCTTTTTTTTTATAAAAAAAAATTC-GATTCTCAGATATAATTCATGCATTAGTCTAATTCT
** *
1068372 TATAGTCTAACATTTA
65 TGCAGTCTGACATTTA
1068388 TAATTTATAC
Statistics
Matches: 757, Mismatches: 85, Indels: 76
0.82 0.09 0.08
Matches are distributed among these distances:
84 12 0.02
85 127 0.17
86 134 0.18
87 16 0.02
88 16 0.02
89 52 0.07
90 18 0.02
91 83 0.11
92 287 0.38
93 11 0.01
94 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (91 bp):
CTTTCTTTTTTTTTATAAAAAAAAATTCGATTCTCAGATATAATTCATGCATTAGTCTAATTCTT
GCAGTCTGACATTTACAATCAATCAA
Done.