Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008206.1 Hibiscus syriacus cultivar Beakdansim tig00110828_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1504526
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 9
Found at i:685248 original size:18 final size:19
Alignment explanation
Indices: 685209--685248 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
685199 AATATTAAAT
*
685209 ATTTTTTATATTTAATACA
1 ATTTTTTATATATAATACA
*
685228 ATTTTTTATCTATAATA-A
1 ATTTTTTATATATAATACA
685246 ATT
1 ATT
685249 CTCAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTTTTATATATAATACA
Found at i:689105 original size:40 final size:40
Alignment explanation
Indices: 689050--689133 Score: 150
Period size: 40 Copynumber: 2.1 Consensus size: 40
689040 CCTACGGTCG
* *
689050 TGTTCTTTGGTTACTTACTAGAAAGTTGAAAGAGTTGCAT
1 TGTTCTTTGGTTACTTAATAGAAAGTTGAAAGAGTTGCAC
689090 TGTTCTTTGGTTACTTAATAGAAAGTTGAAAGAGTTGCAC
1 TGTTCTTTGGTTACTTAATAGAAAGTTGAAAGAGTTGCAC
689130 TGTT
1 TGTT
689134 ACAGAGTTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (40 bp):
TGTTCTTTGGTTACTTAATAGAAAGTTGAAAGAGTTGCAC
Found at i:694348 original size:28 final size:28
Alignment explanation
Indices: 694316--694378 Score: 126
Period size: 28 Copynumber: 2.2 Consensus size: 28
694306 CATAATAAAT
694316 AGTCGAGTGACGTTTTATAACTTTTAAC
1 AGTCGAGTGACGTTTTATAACTTTTAAC
694344 AGTCGAGTGACGTTTTATAACTTTTAAC
1 AGTCGAGTGACGTTTTATAACTTTTAAC
694372 AGTCGAG
1 AGTCGAG
694379 GGACTAAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.37
Consensus pattern (28 bp):
AGTCGAGTGACGTTTTATAACTTTTAAC
Found at i:699807 original size:83 final size:83
Alignment explanation
Indices: 699720--699879 Score: 259
Period size: 83 Copynumber: 1.9 Consensus size: 83
699710 ATATATGTTT
* * * *
699720 AATATTTTAAATTTAAAAGATATTCTTAT-CTGTTTAAATTTAGATATTAAAAGATATTTGGTTG
1 AATATTTTAAATTTAAAAGATATTATTATCCT-TTTAAATTTAGATATTAAAAGAGATTTAGATG
*
699784 GAGTAAATCTCTCAAATTG
65 GAGTAAAACTCTCAAATTG
699803 AATATTTTAAATTTAAAAGATATTATTATCCTTTTAAATTTAGATATTAAAAGAGATTTAGATGG
1 AATATTTTAAATTTAAAAGATATTATTATCCTTTTAAATTTAGATATTAAAAGAGATTTAGATGG
699868 AGTAAAACTCTC
66 AGTAAAACTCTC
699880 TCGAAATTCC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
83 69 0.97
84 2 0.03
ACGTcount: A:0.41, C:0.06, G:0.11, T:0.42
Consensus pattern (83 bp):
AATATTTTAAATTTAAAAGATATTATTATCCTTTTAAATTTAGATATTAAAAGAGATTTAGATGG
AGTAAAACTCTCAAATTG
Found at i:699998 original size:22 final size:22
Alignment explanation
Indices: 699955--699998 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
699945 TATTCTCTTG
699955 AAAATATTTTATCTCCTTCTTAA
1 AAAATATTTTATCTCC-TCTTAA
*
699978 AAAATATTATTTTCTCC-CTTA
1 AAAATATT-TTATCTCCTCTTA
699999 GTGATATTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 8 0.42
24 7 0.37
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.48
Consensus pattern (22 bp):
AAAATATTTTATCTCCTCTTAA
Found at i:706490 original size:23 final size:22
Alignment explanation
Indices: 706459--706504 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
706449 TCACATTTAA
706459 TATTAAATGATTAAGAATTATT
1 TATTAAATGATTAAGAATTATT
*
706481 TATTCAAATGATTAAGAGTTATT
1 TATT-AAATGATTAAGAATTATT
706504 T
1 T
706505 TGAATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (22 bp):
TATTAAATGATTAAGAATTATT
Found at i:706540 original size:2 final size:2
Alignment explanation
Indices: 706533--706557 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
706523 TATTTATTTC
706533 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
706558 CACACACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:707809 original size:22 final size:22
Alignment explanation
Indices: 707784--707834 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
707774 CTACGGCGAC
707784 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
*
707806 ATCCGTCCCCATCTCCGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
707828 ATCCGTC
1 ATCCGTC
707835 TATCTCCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.20
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:709394 original size:20 final size:20
Alignment explanation
Indices: 709369--709480 Score: 84
Period size: 20 Copynumber: 5.5 Consensus size: 20
709359 AATAAAACCT
709369 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTCGAAAATCGA
* ** *
709389 GTTGCGATTTTCCTAATTCGCA
1 GTTGCGA-ATTCGAAAATCG-A
709411 -TTGCGAATTC-AGAAATCGA
1 GTTGCGAATTCGA-AAATCGA
* * *
709430 GTTGCGAATTTGAAATTCAGT
1 GTTGCGAATTCGAAAATC-GA
* *
709451 GTTGCGAATTCGGAAATCGC
1 GTTGCGAATTCGAAAATCGA
*
709471 TTTGCGAATT
1 GTTGCGAATT
709481 TGACTTATGT
Statistics
Matches: 71, Mismatches: 15, Indels: 12
0.72 0.15 0.12
Matches are distributed among these distances:
19 1 0.01
20 38 0.54
21 31 0.44
22 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (20 bp):
GTTGCGAATTCGAAAATCGA
Found at i:709456 original size:41 final size:39
Alignment explanation
Indices: 709368--709483 Score: 124
Period size: 41 Copynumber: 2.8 Consensus size: 39
709358 AAATAAAACC
* **
709368 TGTTGCGAATTCGAAAATCGAGTTGCGATTTTCCTAATTCG
1 TGTTGCGAATTCG-AAATCGAGTTGCGAATTT-GAAATTCG
**
709409 CATTGCGAATTCAGAAATCGAGTTGCGAATTTGAAATTCAG
1 TGTTGCGAATTC-GAAATCGAGTTGCGAATTTGAAATTC-G
**
709450 TGTTGCGAATTCGGAAATCGCTTTGCGAATTTGA
1 TGTTGCGAATTC-GAAATCGAGTTGCGAATTTGA
709484 CTTATGTGTT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 5 0.08
41 57 0.90
42 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (39 bp):
TGTTGCGAATTCGAAATCGAGTTGCGAATTTGAAATTCG
Found at i:709514 original size:20 final size:20
Alignment explanation
Indices: 709491--709534 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
709481 TGACTTATGT
709491 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAGATTCGC
* *
709511 GTTGCGATTTATATATTCGC
1 GTTGCGATTTACAGATTCGC
709531 GTTG
1 GTTG
709535 TGAATTTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.18, C:0.16, G:0.25, T:0.41
Consensus pattern (20 bp):
GTTGCGATTTACAGATTCGC
Found at i:709793 original size:2 final size:2
Alignment explanation
Indices: 709786--709830 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
709776 ATGCTAACCA
709786 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
709828 AT A
1 AT A
709831 GGGATAATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:710067 original size:2 final size:2
Alignment explanation
Indices: 710060--710099 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
710050 TAACCCATAC
*
710060 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
710100 GGTTTACGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:710890 original size:20 final size:20
Alignment explanation
Indices: 710867--710918 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
710857 TGCGATTTTC
* *
710867 CAAATTCGCAATACAGAAGT
1 CAAATTCGCAACACAAAAGT
710887 CAAATTCGCAACACAAAAGT
1 CAAATTCGCAACACAAAAGT
*
710907 TAAATTCGCAAC
1 CAAATTCGCAAC
710919 GCGGAATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.46, C:0.23, G:0.12, T:0.19
Consensus pattern (20 bp):
CAAATTCGCAACACAAAAGT
Found at i:710946 original size:19 final size:19
Alignment explanation
Indices: 710908--710996 Score: 90
Period size: 19 Copynumber: 4.5 Consensus size: 19
710898 CACAAAAGTT
*
710908 AAATTCGCAACGCGGAATTTC
1 AAATTCGCAA--CTGAATTTC
710929 AAATTCGCAACTGAATTTC
1 AAATTCGCAACTGAATTTC
* *
710948 AAATTTGCAATTGAATTTC
1 AAATTCGCAACTGAATTTC
*
710967 AAATTTGCAACT-ATATTTTC
1 AAATTCGCAACTGA-A-TTTC
*
710987 GAATTCGCAA
1 AAATTCGCAA
710997 TACGAATTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
18 1 0.02
19 37 0.62
20 12 0.20
21 10 0.17
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (19 bp):
AAATTCGCAACTGAATTTC
Found at i:711826 original size:12 final size:12
Alignment explanation
Indices: 711805--711838 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
711795 ACCACATTTC
*
711805 CAATACCAAACA
1 CAATATCAAACA
711817 CAATATCAAACA
1 CAATATCAAACA
*
711829 CAATCTCAAA
1 CAATATCAAA
711839 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:711991 original size:24 final size:24
Alignment explanation
Indices: 711964--712017 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
711954 GTATTCGAAA
711964 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
711988 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
712012 TTTGAT
1 TTTGAT
712018 GATGTGATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:712200 original size:3 final size:3
Alignment explanation
Indices: 712192--712231 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
712182 ATATAACCCT
*
712192 GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
712232 TCCCCAAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:713000 original size:24 final size:24
Alignment explanation
Indices: 712973--713047 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
712963 GTTCGTGAAC
* * *
712973 GTTCGGTTATGTTCATTTGGTTAT
1 GTTCGTTTATGTTCATTCGATTAT
*
712997 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCATTCGATTAT
713021 GTTCGTTTATGTTCATTC-ATTTAT
1 GTTCGTTTATGTTCATTCGA-TTAT
713045 GTT
1 GTT
713048 TAACACAATC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
23 1 0.02
24 44 0.98
ACGTcount: A:0.13, C:0.11, G:0.20, T:0.56
Consensus pattern (24 bp):
GTTCGTTTATGTTCATTCGATTAT
Found at i:713014 original size:14 final size:14
Alignment explanation
Indices: 712997--713027 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
712987 ATTTGGTTAT
*
712997 GTTCGTTTATGTTC
1 GTTCGATTATGTTC
713011 GTTCGATTATGTTC
1 GTTCGATTATGTTC
713025 GTT
1 GTT
713028 TATGTTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.13, G:0.23, T:0.55
Consensus pattern (14 bp):
GTTCGATTATGTTC
Found at i:713785 original size:10 final size:10
Alignment explanation
Indices: 713770--713844 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
713760 GGGTCTCCAA
713770 CGTTTATGTT
1 CGTTTATGTT
713780 CGTTTATGTT
1 CGTTTATGTT
713790 CG----TGTT
1 CGTTTATGTT
*
713796 CATTTATGTT
1 CGTTTATGTT
713806 CGTGTT-TGTTT
1 CGT-TTATG-TT
* **
713817 ATGTTCGTGTT
1 -CGTTTATGTT
713828 CGTTTATGTT
1 CGTTTATGTT
713838 CGTTTAT
1 CGTTTAT
713845 TTATTAAATG
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
6 5 0.10
10 34 0.68
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.11, G:0.21, T:0.59
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:713801 original size:16 final size:16
Alignment explanation
Indices: 713776--713840 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
713766 CCAACGTTTA
713776 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
713792 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
*
713808 TGTTTGTTTATGTTCG
1 TGTTCGTTTATGTTCG
713824 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
713840 T
1 T
713841 TTATTTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.08, C:0.11, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:713931 original size:16 final size:16
Alignment explanation
Indices: 713910--713942 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
713900 AAAAAATTTT
713910 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
713926 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
713942 T
1 T
713943 TTATTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:716312 original size:24 final size:24
Alignment explanation
Indices: 716261--716313 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
716251 TTTCATATGT
* * *
716261 AATTGGAGTTTGAATTTAAATTTT
1 AATTTGAGTTTGAATTTAAATATA
*
716285 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
716309 AATTT
1 AATTT
716314 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:717645 original size:20 final size:20
Alignment explanation
Indices: 717517--717638 Score: 85
Period size: 20 Copynumber: 6.4 Consensus size: 20
717507 AAATCGCGAC
*
717517 GCGAATTTGACTTCCGCGTT
1 GCGAATTTGACTTTCGCGTT
** ** **
717537 GCGAATGCGAAATAAGCGTT
1 GCGAATTTGACTTTCGCGTT
*
717557 GCGAATTTGACTTTTGCGTT
1 GCGAATTTGACTTTCGCGTT
* *
717577 GCGAATTTGACTATCGC--A
1 GCGAATTTGACTTTCGCGTT
* *
717595 ACG--CTT-A-TTTCGCGTT
1 GCGAATTTGACTTTCGCGTT
*
717611 GTGAATTTGACTTTCGCGTT
1 GCGAATTTGACTTTCGCGTT
717631 GCGAATTT
1 GCGAATTT
717639 ACCTTTCAAA
Statistics
Matches: 73, Mismatches: 23, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
14 5 0.07
15 1 0.01
16 3 0.04
18 4 0.05
19 1 0.01
20 59 0.81
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (20 bp):
GCGAATTTGACTTTCGCGTT
Found at i:717768 original size:64 final size:66
Alignment explanation
Indices: 717645--717804 Score: 227
Period size: 65 Copynumber: 2.4 Consensus size: 66
717635 ATTTACCTTT
717645 CAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATTAAACAAATCAACTTTT
1 CAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATTAAACAAATCAACTTTT
717710 A
66 A
* *
717711 CAAATCAATTAAACAAG-AAAAAAATAATTCTTATTTCCTCATC-AATTAAACAAATCAACTTTC
1 CAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATTAAACAAATCAAC-TT-
717774 AATGTA
64 --T-TA
717780 -AAATTCAATTAAACAAGCAAAAAAA
1 CAAA-TCAATTAAACAAGCAAAAAAA
717805 GTGTACCCCA
Statistics
Matches: 85, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
64 16 0.19
65 26 0.31
66 17 0.20
68 4 0.05
69 15 0.18
70 7 0.08
ACGTcount: A:0.54, C:0.16, G:0.03, T:0.28
Consensus pattern (66 bp):
CAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATTAAACAAATCAACTTTT
A
Found at i:719229 original size:21 final size:20
Alignment explanation
Indices: 719149--719245 Score: 72
Period size: 21 Copynumber: 4.7 Consensus size: 20
719139 GTGGGCGGGA
*
719149 CCTCTTGAACGAT-GATAGGG
1 CCTCTTGAACGATGGA-GGGG
* *
719169 CCTCTTGAACGGTGGGATGGG
1 CCTCTTGAACGAT-GGAGGGG
* *
719190 CTTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAACGATG-GAGGGG
*
719211 CCTCTTGAACGATAGGAGGCG
1 CCTCTTGAACGAT-GGAGGGG
*
719232 CCTCTTGAATGATG
1 CCTCTTGAACGATG
719246 ATAGGTGCAT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
20 15 0.25
21 42 0.69
22 4 0.07
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.26
Consensus pattern (20 bp):
CCTCTTGAACGATGGAGGGG
Found at i:719244 original size:42 final size:41
Alignment explanation
Indices: 719149--719246 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 41
719139 GTGGGCGGGA
* * * *
719149 CCTCTTGAACGATGATAGGGCCTCTTGAACGGTGGGATGGG
1 CCTCTTGAATGATGAGAGGGCCTCTTGAACGATAGGATGGG
*
719190 CTTCTTCG-ATGATGAGAGGGGCCTCTTGAACGATAGGA-GGCG
1 CCTCTT-GAATGATGAGA-GGGCCTCTTGAACGATAGGATGG-G
719232 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
719247 TAGGTGCATC
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
41 15 0.32
42 32 0.68
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.26
Consensus pattern (41 bp):
CCTCTTGAATGATGAGAGGGCCTCTTGAACGATAGGATGGG
Found at i:719681 original size:21 final size:21
Alignment explanation
Indices: 719656--719696 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
719646 CATTATCTTC
*
719656 ATGTAAAGTACCGACCTCATG
1 ATGTAAAGCACCGACCTCATG
*
719677 ATGTAAAGCGCCGACCTCAT
1 ATGTAAAGCACCGACCTCAT
719697 CACGTAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (21 bp):
ATGTAAAGCACCGACCTCATG
Found at i:721416 original size:34 final size:34
Alignment explanation
Indices: 721371--721437 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
721361 AAAATTAAAT
*
721371 TCGCAACGCGAAAATGAAAATCGTAACGAGAAAA
1 TCGCAACGCGAAAATGAAAATCGCAACGAGAAAA
* *
721405 TCGCAATGCGAAAATGAAAATCGCAACGCGAAA
1 TCGCAACGCGAAAATGAAAATCGCAACGAGAAA
721438 CTAAAATCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.48, C:0.19, G:0.21, T:0.12
Consensus pattern (34 bp):
TCGCAACGCGAAAATGAAAATCGCAACGAGAAAA
Found at i:721423 original size:20 final size:20
Alignment explanation
Indices: 721360--721437 Score: 78
Period size: 20 Copynumber: 4.2 Consensus size: 20
721350 AGTAGTTTCT
* *
721360 GAAAATTAAATTCGCAACGC
1 GAAAATGAAAATCGCAACGC
*
721380 GAAAATGAAAATCGTAA--C
1 GAAAATGAAAATCGCAACGC
*
721398 G---A-GAAAATCGCAATGC
1 GAAAATGAAAATCGCAACGC
721414 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACGC
721434 GAAA
1 GAAA
721438 CTAAAATCAC
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
14 10 0.21
15 1 0.02
16 2 0.04
18 2 0.04
19 1 0.02
20 31 0.66
ACGTcount: A:0.50, C:0.17, G:0.19, T:0.14
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACGC
Found at i:721499 original size:20 final size:20
Alignment explanation
Indices: 721460--721499 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
721450 TGTGATTTTG
* * *
721460 GTGTTGCGATTTTTATTTTC
1 GTGTTGCGAATTTAAGTTTC
721480 GTGTTGCGAATTTAAGTTTC
1 GTGTTGCGAATTTAAGTTTC
721500 AAAAACTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.10, G:0.23, T:0.53
Consensus pattern (20 bp):
GTGTTGCGAATTTAAGTTTC
Found at i:721861 original size:22 final size:22
Alignment explanation
Indices: 721834--721890 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
721824 GATGGAGATA
721834 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
* *
721856 GACGGATTTTGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
721878 GACGGATGTCGCC
1 GACGGATTTCGCC
721891 ATAGAGAGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.18, C:0.18, G:0.44, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:722045 original size:20 final size:20
Alignment explanation
Indices: 722018--722245 Score: 160
Period size: 20 Copynumber: 11.4 Consensus size: 20
722008 TTGAAATTCC
722018 GCGTTGCGAATTTGACTTTT
1 GCGTTGCGAATTTGACTTTT
* * *
722038 GTGTTGCGAATTT-AGCTATC
1 GCGTTGCGAATTTGA-CTTTT
*
722058 GCGTTGCGAATTTGACTTAT
1 GCGTTGCGAATTTGACTTTT
* * *
722078 GTG-CGCGAATTTGA-TTATC
1 GCGTTGCGAATTTGACTT-TT
722097 GCGTTGCGAATTTGACTTTT
1 GCGTTGCGAATTTGACTTTT
** * * *
722117 ATGTTACGAATTTGACTATC
1 GCGTTGCGAATTTGACTTTT
* *
722137 GCGTTGCAAATTTGACTTCT
1 GCGTTGCGAATTTGACTTTT
* * *
722157 GTGTTGCG-ATTT-ACAAATTC
1 GCGTTGCGAATTTGAC--TTTT
* *
722177 GCGTTGCGAATCTGACTATT
1 GCGTTGCGAATTTGACTTTT
* * *
722197 GCGTTGTGAATTTGACTATC
1 GCGTTGCGAATTTGACTTTT
* *
722217 GCATTGCGAATTTGACTTCT
1 GCGTTGCGAATTTGACTTTT
*
722237 GTGTTGCGA
1 GCGTTGCGA
722246 TTTACAGATT
Statistics
Matches: 153, Mismatches: 46, Indels: 18
0.71 0.21 0.08
Matches are distributed among these distances:
18 4 0.03
19 17 0.11
20 124 0.81
21 6 0.04
22 2 0.01
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (20 bp):
GCGTTGCGAATTTGACTTTT
Found at i:722062 original size:40 final size:40
Alignment explanation
Indices: 722017--722270 Score: 286
Period size: 40 Copynumber: 6.4 Consensus size: 40
722007 TTTGAAATTC
722017 CGCGTTGCGAATTTGACTTTTGTGTTGCGAATTT-AGCTAT
1 CGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGA-CTAT
* * *
722057 CGCGTTGCGAATTTGACTTATGTG-CGCGAATTTGATTAT
1 CGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTAT
* *
722096 CGCGTTGCGAATTTGACTTTTATGTTACGAATTTGACTAT
1 CGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTAT
* * *
722136 CGCGTTGCAAATTTGACTTCTGTGTTGCG-ATTT-ACAAATT
1 CGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGAC-TA-T
* * * *
722176 CGCGTTGCGAATCTGACTATTGCGTTGTGAATTTGACTAT
1 CGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTAT
* * *
722216 CGCATTGCGAATTTGACTTCTGTGTTGCG-ATTT-ACAGATT
1 CGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGAC-TA-T
722256 CGCGTTGCGAATTTG
1 CGCGTTGCGAATTTG
722271 GAAAATCGCA
Statistics
Matches: 178, Mismatches: 28, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
38 4 0.02
39 43 0.24
40 124 0.70
41 5 0.03
42 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.40
Consensus pattern (40 bp):
CGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTAT
Found at i:722208 original size:80 final size:80
Alignment explanation
Indices: 722011--722270 Score: 339
Period size: 80 Copynumber: 3.2 Consensus size: 80
722001 TGTGAATTTG
722011 AAATTCCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTT-AGCTATCGCGTTGCGAATTTGACT
1 AAATT-CGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGA-CTATCGCGTTGCGAATTTGACT
* *
722075 TATGTG-CGCGAATTT--
64 TCTGTGTTGCG-ATTTAC
* * * * *
722090 GATTATCGCGTTGCGAATTTGACTTTTATGTTACGAATTTGACTATCGCGTTGCAAATTTGACTT
1 AAAT-TCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTT
722155 CTGTGTTGCGATTTAC
65 CTGTGTTGCGATTTAC
* * * * *
722171 AAATTCGCGTTGCGAATCTGACTATTGCGTTGTGAATTTGACTATCGCATTGCGAATTTGACTTC
1 AAATTCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTC
722236 TGTGTTGCGATTTAC
66 TGTGTTGCGATTTAC
*
722251 AGATTCGCGTTGCGAATTTG
1 AAATTCGCGTTGCGAATTTG
722271 GAAAATCGCA
Statistics
Matches: 157, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
79 64 0.41
80 91 0.58
81 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.40
Consensus pattern (80 bp):
AAATTCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTC
TGTGTTGCGATTTAC
Found at i:722279 original size:21 final size:21
Alignment explanation
Indices: 722255--722393 Score: 95
Period size: 21 Copynumber: 6.8 Consensus size: 21
722245 ATTTACAGAT
722255 TCGCGTTGCGAATTTGGAAAA
1 TCGCGTTGCGAATTTGGAAAA
***
722276 TCGCAACGCGAATTTGGAAAA
1 TCGCGTTGCGAATTTGGAAAA
***
722297 TCGCAACGCGAATTTGGAAAA
1 TCGCGTTGCGAATTTGGAAAA
** ** * *
722318 TCGCAATGCG-ATTTACATAT
1 TCGCGTTGCGAATTTGGAAAA
* *
722338 TCGCGTTGCGAAATTGGAAAC
1 TCGCGTTGCGAATTTGGAAAA
* * **
722359 T-GGGTTGCGAAATTGG-AGT
1 TCGCGTTGCGAATTTGGAAAA
722378 TCGCGTTGCGAATTTG
1 TCGCGTTGCGAATTTG
722394 TTGGTCATTT
Statistics
Matches: 96, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
19 2 0.02
20 40 0.42
21 54 0.56
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (21 bp):
TCGCGTTGCGAATTTGGAAAA
Found at i:722385 original size:20 final size:19
Alignment explanation
Indices: 722336--722389 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
722326 CGATTTACAT
722336 ATTCGCGTTGCGAAATTGG
1 ATTCGCGTTGCGAAATTGG
** *
722355 AAACTGGGTTGCGAAATTGG
1 ATTC-GCGTTGCGAAATTGG
722375 AGTTCGCGTTGCGAA
1 A-TTCGCGTTGCGAA
722390 TTTGTTGGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.89
21 1 0.04
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.28
Consensus pattern (19 bp):
ATTCGCGTTGCGAAATTGG
Found at i:730298 original size:19 final size:19
Alignment explanation
Indices: 730276--730342 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
730266 ATTATATTCC
730276 ATTTATTTTTTAGTATTTT
1 ATTTATTTTTTAGTATTTT
* *
730295 ATTTAATTATT-GTATTTT
1 ATTTATTTTTTAGTATTTT
**
730313 -TAAATTGTTTTAGTATTTT
1 ATTTATT-TTTTAGTATTTT
730332 ATTTATTTTTT
1 ATTTATTTTTT
730343 TTGCAGTTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
17 3 0.08
18 10 0.27
19 20 0.54
20 4 0.11
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (19 bp):
ATTTATTTTTTAGTATTTT
Found at i:736215 original size:18 final size:16
Alignment explanation
Indices: 736194--736226 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
736184 TCAAATAATC
736194 ATATA-TAAAAAATATT
1 ATATATTAAAAAA-ATT
736210 ATATATTAAAAAAATT
1 ATATATTAAAAAAATT
736226 A
1 A
736227 CCTTACAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATATTAAAAAAATT
Found at i:736304 original size:30 final size:29
Alignment explanation
Indices: 736268--736325 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
736258 ATTAAAGATA
* *
736268 AGAGGATTGCCGTGTGATGTTTACGGGTTG
1 AGAGGATTGACGTGTGAT-TTTAAGGGTTG
*
736298 AGAGGATTGATGTGTGATTTTAAGGGTT
1 AGAGGATTGACGTGTGATTTTAAGGGTT
736326 AAATGTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.21, C:0.05, G:0.38, T:0.36
Consensus pattern (29 bp):
AGAGGATTGACGTGTGATTTTAAGGGTTG
Found at i:737239 original size:18 final size:18
Alignment explanation
Indices: 737216--737261 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
737206 ACCGGTCACA
737216 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
737234 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
737252 ACCCGACCCG
1 ACCCGACCCG
737262 TTGACCATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.17, C:0.52, G:0.22, T:0.09
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:737276 original size:15 final size:13
Alignment explanation
Indices: 737238--737282 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
737228 CCGTTGACCC
737238 GACCCGACCCGTT
1 GACCCGACCCGTT
737251 GACCCGACCCGTT
1 GACCCGACCCGTT
*
737264 GACCATTGACCCGTT
1 GACC--CGACCCGTT
737279 GACC
1 GACC
737283 GGAGTTGACC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 17 0.59
15 12 0.41
ACGTcount: A:0.18, C:0.42, G:0.22, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:739823 original size:24 final size:24
Alignment explanation
Indices: 739754--739842 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
739744 TCCGACTTGA
* *
739754 ATTCTGTTATGAT-CCTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
*
739777 A-TCTGATATGATA-TTGACATGG
1 ATTCTGATATGATACTTGACCTGG
* *
739799 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGATACTTGACCTGG
739823 ATTCTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
739843 TTGAATTATG
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
22 18 0.33
23 12 0.22
24 25 0.45
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:742040 original size:18 final size:18
Alignment explanation
Indices: 742017--742060 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
742007 CGGTCACAAA
742017 CCGACCCGACCCGTTGAC
1 CCGACCCGACCCGTTGAC
742035 CCGACCCGACCCGTTGAC
1 CCGACCCGACCCGTTGAC
742053 CCGACCCG
1 CCGACCCG
742061 TTGACCATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.16, C:0.52, G:0.23, T:0.09
Consensus pattern (18 bp):
CCGACCCGACCCGTTGAC
Found at i:742075 original size:15 final size:13
Alignment explanation
Indices: 742037--742081 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
742027 CCGTTGACCC
742037 GACCCGACCCGTT
1 GACCCGACCCGTT
742050 GACCCGACCCGTT
1 GACCCGACCCGTT
*
742063 GACCATTGACCCGTT
1 GACC--CGACCCGTT
742078 GACC
1 GACC
742082 GGAGTTGACC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 17 0.59
15 12 0.41
ACGTcount: A:0.18, C:0.42, G:0.22, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:744546 original size:24 final size:24
Alignment explanation
Indices: 744476--744565 Score: 121
Period size: 23 Copynumber: 3.8 Consensus size: 24
744466 TCCGACTTGA
* *
744476 ATTCTGTTATGAT-CCTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
*
744499 ATTCTGATATGATA-TTGACATGG
1 ATTCTGATATGATACTTGACCTGG
* *
744522 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGATACTTGACCTGG
744546 ATTCTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
744566 TTGAATTATG
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
23 32 0.56
24 25 0.44
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.38
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:754835 original size:23 final size:23
Alignment explanation
Indices: 754805--754850 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
754795 CGGTGAGGGA
754805 AAACAGAGTAACTTCGACATTTT
1 AAACAGAGTAACTTCGACATTTT
754828 AAACAGAGTAACTTCGACATTTT
1 AAACAGAGTAACTTCGACATTTT
754851 GATGTCTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (23 bp):
AAACAGAGTAACTTCGACATTTT
Found at i:754933 original size:21 final size:21
Alignment explanation
Indices: 754909--754952 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
754899 TAGACAATGA
754909 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
754930 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
754951 AG
1 AG
754953 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:755023 original size:33 final size:33
Alignment explanation
Indices: 754986--755051 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
754976 AAATAGATGG
* *
754986 AGTGGTGAAAGAAGTAGAGGTGTTGAGGAGTGA
1 AGTGGTGAAAGAAATAGAGGTGTTAAGGAGTGA
* *
755019 AGTGGTGAAAGAAATTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAATAGAGGTGTTAAGGAGTGA
755052 TCTTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.44, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAATAGAGGTGTTAAGGAGTGA
Found at i:757479 original size:201 final size:201
Alignment explanation
Indices: 757156--757873 Score: 1265
Period size: 201 Copynumber: 3.6 Consensus size: 201
757146 ACATATGCAT
* ** * *
757156 CCATAAGTATAATGTAATAGGTAAATTTTTAATGTAACTGGTATAAATATACCGGTTTTATGAGA
1 CCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGA
*
757221 GAATAGGTCTACAATATGTATCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGG
66 GAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGG
*
757286 ATGCCAAAAAGGGTGAACGCATAAAGTGTCAATACATTTTCAAAAAGTGTCGATCCTAGAAACAT
131 ATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCTAGAAACAT
757351 CGAAAC
196 CGAAAC
* *
757357 CCATAATTATAATGTAATAAGTAAATTTACAATGTAACCGGTATAAATACACCGATTTTATGAGA
1 CCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGA
757422 GAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGG
66 GAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGG
*
757487 ATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTAGATCCTAGAAACAT
131 ATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCTAGAAACAT
757552 CGAAAC
196 CGAAAC
757558 CCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGA
1 CCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGA
*
757623 GATTAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGG
66 GAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGG
* *
757688 ATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACAT
131 ATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCTAGAAACAT
757753 CGAAAC
196 CGAAAC
* * * *
757759 CCATAATTATAATATAATAGGTAAATTTTCAATGTAACCGGTATAAATATACTGGTTTTATGAGA
1 CCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGA
* *
757824 GAATAGGTCTACAACATGTATCGACACGTTTTTAATTTTGCGTCGATACT
66 GAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACT
757874 AATTTAAATA
Statistics
Matches: 494, Mismatches: 23, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
201 494 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.32
Consensus pattern (201 bp):
CCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGA
GAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGG
ATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCTAGAAACAT
CGAAAC
Found at i:762181 original size:200 final size:196
Alignment explanation
Indices: 761779--762481 Score: 743
Period size: 200 Copynumber: 3.5 Consensus size: 196
761769 GCCTAAATAT
* * * * *
761779 GTGTCGATACATTTTATACAAGTATC-AACCCAAAAAAACATCAAAACCAATAATTATAATGTAA
1 GTGTAGATACAT-TTATAAAAGTATCGATCCC--AAAAACATCGAAACCGATAATTATAATGTAA
* * * *
761843 TAGGTAAATTAACAATGTAACCGGTATAAATATACCAG-TTAATTAGAAAACATGTCAACATAAT
63 TAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATATGTC-ACATAAT
* * * * *
761907 GTATCGACACTTGTGTAATTTGTATCGATACTTATTGTCCATG-ATGAATGCACAAACGAGGTGC
127 GTATCGACACTTGT-TAATTTGTGTCGATACTT-TTGTCTA-GAATGAATACAAAAAAG-GGTGC
* *
761971 ATGTATAAA
188 AAGCATAAA
*
761980 GTGTAGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTATTA
1 GTGTAGATACATTTA-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * *
762045 GGTAAATTTACAATGTAACCGATATAAATACACCAGTTTTATGATAAAATATGTCAGCATAAAGT
65 GGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATATGTCA-CATAATGT
* *
762110 ATCGACACTTGATAAATTTGTGTCGATACTTTTGGTCTAGAATGAATACAAAAAAGGGTGCAACC
129 ATCGACACTTG-TTAATTTGTGTCGATACTTTT-GTCTAGAATGAATACAAAAAAGGGTGCAAGC
762175 ATAAA
192 ATAAA
* ** * *
762180 GTGTCGATACATTTATAAAAAGTATCGATCCCGGAAACATCGAAACCCATAAGTATAATGTAATA
1 GTGTAGATACATTTAT-AAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * *
762245 GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTAAATAATGT
65 GGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATATGTC-ACATAATGT
* * *
762310 ATCGACACGTTGTTAGTTTGTGTCGATACTTTT-TCTAGAATGAAATATGAATGCCCAACCA-GG
129 ATCGACAC-TTGTTAATTTGTGTCGATACTTTTGTCTAGAATG-AATA-CAA-----AA-AAGGG
762373 TGCAAGCATAAA
185 TGCAAGCATAAA
* * * ** * *
762385 GTGTTGATATATTTA-AAATTGTATCGATCTAAAAAACATCGTAACCGATAATAATAATGTAATA
1 GTGTAGATACATTTATAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* *
762449 GGTAAATTTGCAATGTTACCGGTATAAATATAC
65 GGTAAATTTACAATGTAACCGGTATAAATATAC
762482 TGGTTTACTT
Statistics
Matches: 427, Mismatches: 56, Indels: 35
0.82 0.11 0.07
Matches are distributed among these distances:
198 9 0.02
199 5 0.01
200 221 0.52
201 88 0.21
202 5 0.01
203 3 0.01
204 67 0.16
205 28 0.07
206 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (196 bp):
GTGTAGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATATGTCACATAATGTAT
CGACACTTGTTAATTTGTGTCGATACTTTTGTCTAGAATGAATACAAAAAAGGGTGCAAGCATAA
A
Found at i:766541 original size:25 final size:25
Alignment explanation
Indices: 766507--766561 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
766497 GCTAAAATAG
* *
766507 GTATCATGGTGCGATTGAGGGTTTT
1 GTATCATGGTGCAATTGAGGGTTCT
766532 GTATCATGGTGCAATTGAGGGTTCT
1 GTATCATGGTGCAATTGAGGGTTCT
766557 GTATC
1 GTATC
766562 TCGAAGCTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.18, C:0.11, G:0.33, T:0.38
Consensus pattern (25 bp):
GTATCATGGTGCAATTGAGGGTTCT
Found at i:778312 original size:41 final size:41
Alignment explanation
Indices: 778258--778641 Score: 443
Period size: 41 Copynumber: 9.4 Consensus size: 41
778248 CAAAATGGTA
**
778258 ACTTTAGCAGCGTTTTTATACAAACGCCGCTATAGACTCGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* * * * *
778299 ACTTTAGTGGCGTTTTTATATAAAACGCTGCGATAGAGTAGT
1 ACTTTAGTGGCGTTTTTATA-CAAACGCCGCTATAGACTCGT
**
778341 ACTTTAGCAGCGTTTTTATACAAACGCCGCTATAGACTCG-
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* * * * *
778381 ACTTTAGTGGCGTTTTTAAACAAAATGCCGCAATAGAGTAGT
1 ACTTTAGTGGCGTTTTTATAC-AAACGCCGCTATAGACTCGT
**
778423 ACTTTAGTGGCGTTTTTATACAAACGCTACTATAGACTCGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* * *
778464 ACTTTTGTGGCG-TTTTATACAAATGCCGCTATAGACTTGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* * * * * *
778504 AATTTTGTGGCGTTTGTGTTTACAAACGTCGCTATAGGCTTGT
1 ACTTTAGTGGCGTTT-T-TATACAAACGCCGCTATAGACTCGT
* *
778547 ACTTTAGTGGCGTTTTTGTACAAACGTCGCTATAGACTCGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* *
778588 ACATTAGTGGCGTTTTTATATAAACGCCGC--TAGACTCGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
778627 ACTTTAGTGGCGTTT
1 ACTTTAGTGGCGTTT
778642 GTTTTTTAAA
Statistics
Matches: 289, Mismatches: 48, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
39 23 0.08
40 53 0.18
41 123 0.43
42 56 0.19
43 34 0.12
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (41 bp):
ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
Found at i:778436 original size:124 final size:123
Alignment explanation
Indices: 778258--778641 Score: 447
Period size: 124 Copynumber: 3.1 Consensus size: 123
778248 CAAAATGGTA
** * * *
778258 ACTTTAGCAGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATATAAA
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAGTAGTACTTTAGTGGCGTTTTTATA-CAA
* * * **
778323 ACGCTGCGATAGAGTAGTACTTTAGCAGCGTTTTTATACAAACGCCGCTATAGACTCG-
65 ACGCTGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* * *
778381 ACTTTAGTGGCGTTTTTAAACAAAATGCCGCAATAGAGTAGTACTTTAGTGGCGTTTTTATACAA
1 ACTTTAGTGGCGTTTTTATAC-AAACGCCGCTATAGAGTAGTACTTTAGTGGCGTTTTTATACAA
* * * *
778446 ACGCTACTATAGACTCGTACTTTTGTGGCG-TTTTATACAAATGCCGCTATAGACTTGT
65 ACGCTGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* * * * * *
778504 AATTTTGTGGCGTTTGTGTTTACAAACGTCGCTATAG-GCTTGTACTTTAGTGGCGTTTTTGTAC
1 ACTTTAGTGGCGTTT-T-TATACAAACGCCGCTATAGAG-TAGTACTTTAGTGGCGTTTTTATAC
* *
778568 AAACG-TCGCTATAGACTCGTACATTAGTGGCGTTTTTATATAAACGCCGC--TAGACTCGT
63 AAACGCT-GCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
778627 ACTTTAGTGGCGTTT
1 ACTTTAGTGGCGTTT
778642 GTTTTTTAAA
Statistics
Matches: 220, Mismatches: 34, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
122 25 0.11
123 79 0.36
124 98 0.45
125 18 0.08
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (123 bp):
ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAGTAGTACTTTAGTGGCGTTTTTATACAAA
CGCTGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
Found at i:778530 original size:165 final size:162
Alignment explanation
Indices: 778258--778641 Score: 430
Period size: 165 Copynumber: 2.3 Consensus size: 162
778248 CAAAATGGTA
**
778258 ACTTTAGCAGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATATAAA
1 ACTTTAGTGGCGTTTTTATACAAACG-C-CTATAGACTCGTACTTTAGTGGCG-TTTTATATAAA
* * *
778323 ACGCTGCGATAGAGTAGTACTTTAGCAGCGTTTTTATACAAACGCCGCTATAGACTCG-ACTTTA
63 ACGCCGCGATAGACTAGTAATTTAGCAGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTA
* *
778387 GTGGCGTTTTTAAACAAAATGCCGCAATAGAGTAGT
128 GTGGCGTTTTTAAAC-AAACGCCGCAATAGACTAGT
* *
778423 ACTTTAGTGGCGTTTTTATACAAACGCTACTATAGACTCGTACTTTTGTGGCGTTTTATA-CAAA
1 ACTTTAGTGGCGTTTTTATACAAACGC--CTATAGACTCGTACTTTAGTGGCGTTTTATATAAAA
* * * * ** * * * *
778487 TGCCGCTATAGACTTGTAATTTTGTGGCGTTTGTGTTTACAAACGTCGCTATAGGCTTGTACTTT
64 CGCCGCGATAGACTAGTAATTTAGCAGCGTTT-T-TATACAAACGCCGCTATAGACTCGTACTTT
** * * *
778552 AGTGGCGTTTTTGTACAAACGTCGCTATAGACTCGT
127 AGTGGCGTTTTTAAACAAACGCCGCAATAGACTAGT
* * **
778588 ACATTAGTGGCGTTTTTATATAAACGCCGCTAGACTCGTACTTTAGTGGCGTTT
1 ACTTTAGTGGCGTTTTTATACAAACGCCTATAGACTCGTACTTTAGTGGCGTTT
778642 GTTTTTTAAA
Statistics
Matches: 185, Mismatches: 30, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
163 50 0.27
164 9 0.05
165 107 0.58
166 19 0.10
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (162 bp):
ACTTTAGTGGCGTTTTTATACAAACGCCTATAGACTCGTACTTTAGTGGCGTTTTATATAAAACG
CCGCGATAGACTAGTAATTTAGCAGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTG
GCGTTTTTAAACAAACGCCGCAATAGACTAGT
Found at i:781187 original size:36 final size:36
Alignment explanation
Indices: 781147--781226 Score: 133
Period size: 36 Copynumber: 2.2 Consensus size: 36
781137 TGAACGGATG
* *
781147 GGAATTTAATCAACATTCTACTGTTGATGTTCAAGT
1 GGAATTTAATCAACATTATACTGCTGATGTTCAAGT
*
781183 GGAATTTAATTAACATTATACTGCTGATGTTCAAGT
1 GGAATTTAATCAACATTATACTGCTGATGTTCAAGT
781219 GGAATTTA
1 GGAATTTA
781227 GTTACATTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (36 bp):
GGAATTTAATCAACATTATACTGCTGATGTTCAAGT
Found at i:784079 original size:44 final size:43
Alignment explanation
Indices: 783910--784161 Score: 272
Period size: 43 Copynumber: 5.8 Consensus size: 43
783900 AAAACAACAT
* * *
783910 AATTAGCGTCGTTTGTGGC-AAAAACGCCACTAAAGATTAGAG
1 AATTAGCGGCGTTTGTGGCAAAAAATGCCACTAAAGATAAGAG
* * * * * *
783952 AATTAGCGGTGTTTATGGCTATAAACGCCACTAAAGAGAAGAG
1 AATTAGCGGCGTTTGTGGCAAAAAATGCCACTAAAGATAAGAG
* * * * *
783995 AATTAGTGGTGTTTATGGCCAAAAATGCCACTAAAAATAAGAG
1 AATTAGCGGCGTTTGTGGCAAAAAATGCCACTAAAGATAAGAG
784038 AATTAGCGGCGTTTGTGGCAAAAAAATGCCACTAAAGATAAGAG
1 AATTAGCGGCGTTTGTGGC-AAAAAATGCCACTAAAGATAAGAG
* * *
784082 AATTAGAGGCGTTTGTGGCAAAAAAAATGCTACTAAAAATAAGAG
1 AATTAGCGGCGTTTGTGGC--AAAAAATGCCACTAAAGATAAGAG
* * * * *
784127 AATTAGTGGTGTTTGTGCCCAAAAATGCCGCTAAA
1 AATTAGCGGCGTTTGTGGCAAAAAATGCCACTAAA
784162 AACAAGACAA
Statistics
Matches: 181, Mismatches: 26, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
42 16 0.09
43 86 0.48
44 40 0.22
45 39 0.22
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.24
Consensus pattern (43 bp):
AATTAGCGGCGTTTGTGGCAAAAAATGCCACTAAAGATAAGAG
Found at i:784153 original size:132 final size:128
Alignment explanation
Indices: 783893--784168 Score: 354
Period size: 132 Copynumber: 2.1 Consensus size: 128
783883 TATTACAAAC
* * * *
783893 GCCACTAAAAACAACATAATTAGCGTCGTTTGTGGCAAAAACGCCACTAAAGATTAGAGAATTAG
1 GCCACTAAAAACAAGAGAATTAGCGGCGTTTGTGGCAAAAACGCCACTAAAGATAAGAGAATTAG
* * * * * *
783958 CGGTGTTTATGGCTATAAACGCCACTAAAGAGAAGAGAATTAGTGGTGTTTATGGCCAAAAAT
66 AGGCGTTTATGGCAAAAAACGCCACTAAAAAGAAGAGAATTAGTGGTGTTTATGCCCAAAAAT
* *
784021 GCCACTAAAAATAAGAGAATTAGCGGCGTTTGTGGCAAAAAAATGCCACTAAAGATAAGAGAATT
1 GCCACTAAAAACAAGAGAATTAGCGGCGTTTGTGGC--AAAAACGCCACTAAAGATAAGAGAATT
* * * * *
784086 AGAGGCGTTTGTGGCAAAAAAAATGCTACTAAAAATAAGAGAATTAGTGGTGTTTGTGCCCAAAA
64 AGAGGCGTTTATGGC--AAAAAACGCCACTAAAAAGAAGAGAATTAGTGGTGTTTATGCCCAAAA
784151 AT
127 AT
*
784153 GCCGCTAAAAACAAGA
1 GCCACTAAAAACAAGA
784169 CAATAATTTT
Statistics
Matches: 125, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
128 32 0.26
130 37 0.30
132 56 0.45
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.22
Consensus pattern (128 bp):
GCCACTAAAAACAAGAGAATTAGCGGCGTTTGTGGCAAAAACGCCACTAAAGATAAGAGAATTAG
AGGCGTTTATGGCAAAAAACGCCACTAAAAAGAAGAGAATTAGTGGTGTTTATGCCCAAAAAT
Found at i:784268 original size:42 final size:44
Alignment explanation
Indices: 784202--784327 Score: 141
Period size: 44 Copynumber: 2.9 Consensus size: 44
784192 CTTTGTGTTA
*
784202 TTTAGCGGCGTTTGTATCAC-AAAAA-GCCGCTATGTACCA-ACT
1 TTTAGCGGCGTTTGTATC-CTAAAAACGCCGCTATATACCAGACT
* * * *
784244 TTTAGCGGCGTTTGTATCCTAAAAATGCTGCTATATATCAGGCT
1 TTTAGCGGCGTTTGTATCCTAAAAACGCCGCTATATACCAGACT
* * * *
784288 TATCGTGGCGTTTGTATCCTAAAAACGCCGCTAAATACCA
1 TTTAGCGGCGTTTGTATCCTAAAAACGCCGCTATATACCA
784328 TACCTATTGC
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.01
42 23 0.33
43 11 0.16
44 35 0.50
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
TTTAGCGGCGTTTGTATCCTAAAAACGCCGCTATATACCAGACT
Found at i:790487 original size:17 final size:17
Alignment explanation
Indices: 790456--790503 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
790446 TTTTTTATTA
790456 TTTAATATAAAAATAAT
1 TTTAATATAAAAATAAT
*
790473 TTTAA-ATAAATAATAAA
1 TTTAATATAAA-AATAAT
*
790490 ATTAATACTAAAAA
1 TTTAATA-TAAAAA
790504 ATATCATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 5 0.19
17 14 0.54
18 3 0.12
19 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
TTTAATATAAAAATAAT
Found at i:790867 original size:22 final size:25
Alignment explanation
Indices: 790830--790881 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
790820 CTTCTCACTC
* *
790830 TTATTTTGGTCACT-AA-TTTTTTT
1 TTATTTTGCTCACTAAACTTTTGTT
790853 TTATTTT-CTCACTAAACTTTTGTT
1 TTATTTTGCTCACTAAACTTTTGTT
790877 TTATT
1 TTATT
790882 CCTATTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.20
23 9 0.36
24 11 0.44
ACGTcount: A:0.19, C:0.12, G:0.06, T:0.63
Consensus pattern (25 bp):
TTATTTTGCTCACTAAACTTTTGTT
Found at i:792311 original size:17 final size:18
Alignment explanation
Indices: 792291--792326 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
792281 TCTTTTAAAA
792291 AATTTAAAT-TTTTATAT
1 AATTTAAATATTTTATAT
*
792308 AATTTAAATATTTTTTAT
1 AATTTAAATATTTTATAT
792326 A
1 A
792327 TTTTTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
AATTTAAATATTTTATAT
Found at i:799511 original size:10 final size:10
Alignment explanation
Indices: 799496--799521 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
799486 ATTGAAAATT
799496 TTTTGGGTAA
1 TTTTGGGTAA
799506 TTTTGGGTAA
1 TTTTGGGTAA
799516 TTTTGG
1 TTTTGG
799522 TAGGAATCAA
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:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (10 bp):
TTTTGGGTAA
Found at i:800248 original size:105 final size:106
Alignment explanation
Indices: 800060--800267 Score: 233
Period size: 105 Copynumber: 2.0 Consensus size: 106
800050 TTCGACACAA
* ** * * *
800060 TTATCAATATAAATTGAGATGATGTTTTTTTGACACTGAAAATATATTTTGTGACCATAAATATT
1 TTATCAATAGAAATTGAGATGAAATTTATTTGACACTGAAAATATATTTTGTGACCACAAACATT
*
800125 ATCACACTAAATATTTTTTAGTGACCAAATGTTTGATATTG
66 ATCACACTAAATATTTTTTAGTGACCAAATGTTCGATATTG
* * *
800166 TTATCAATAGAAATTGTGAT-AAATTTATTTGACACTGAAAGA-ATATTTTGTGACCACCAACGT
1 TTATCAATAGAAATTGAGATGAAATTTATTTGACACTGAAA-ATATATTTTGTGACCACAAACAT
* * * * * *
800229 TGTCGCAGTAAGTGA-TTTTTAGTGTCCAGATGTTCGATA
65 TATCACACTAAAT-ATTTTTTAGTGACCAAATGTTCGATA
800268 CTATTAACAA
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
105 64 0.76
106 20 0.24
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.39
Consensus pattern (106 bp):
TTATCAATAGAAATTGAGATGAAATTTATTTGACACTGAAAATATATTTTGTGACCACAAACATT
ATCACACTAAATATTTTTTAGTGACCAAATGTTCGATATTG
Found at i:802002 original size:42 final size:42
Alignment explanation
Indices: 801941--802043 Score: 170
Period size: 42 Copynumber: 2.5 Consensus size: 42
801931 GTCATGGATC
* *
801941 ACTAAGACTAATGAAAAAAATAATTATCGTCACAAATCACCA
1 ACTAAGACTAGTGACAAAAATAATTATCGTCACAAATCACCA
* *
801983 ACTAAGATTAGTGACAAAAATAATTATCTTCACAAATCACCA
1 ACTAAGACTAGTGACAAAAATAATTATCGTCACAAATCACCA
802025 ACTAAGACTAGTGACAAAA
1 ACTAAGACTAGTGACAAAA
802044 TGTTTTCATC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.50, C:0.18, G:0.09, T:0.22
Consensus pattern (42 bp):
ACTAAGACTAGTGACAAAAATAATTATCGTCACAAATCACCA
Found at i:805536 original size:64 final size:63
Alignment explanation
Indices: 805432--805551 Score: 168
Period size: 64 Copynumber: 1.9 Consensus size: 63
805422 CTATTTTGGA
* * *
805432 TAGAGTATTACCCAAAGAAAACAACAAATGAAATAATTTTTTTCAGATAAGACCCTATTTCAGG
1 TAGAGTATTACCCAAAGAAAACAACAAACGAAA-GATTTTTTTCAGATAAAACCCTATTTCAGG
* ** *
805496 TAGATTATTACCCAAAGAAAACAACATGCGAAAGATTTTTTTCATATAAAACCCTA
1 TAGAGTATTACCCAAAGAAAACAACAAACGAAAGATTTTTTTCAGATAAAACCCTA
805552 AAATGATTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
63 20 0.41
64 29 0.59
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (63 bp):
TAGAGTATTACCCAAAGAAAACAACAAACGAAAGATTTTTTTCAGATAAAACCCTATTTCAGG
Found at i:806066 original size:28 final size:29
Alignment explanation
Indices: 806033--806088 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
806023 TAGTTTACCC
*
806033 TTTATTTTATT-TATGTTTTA-TGTTTTAT
1 TTTATTTTATTGTA-CTTTTAGTGTTTTAT
806061 TTTATTTTATTGTACTTTTAGTGTTTTA
1 TTTATTTTATTGTACTTTTAGTGTTTTA
806089 GGTTTGGACC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.18, C:0.02, G:0.09, T:0.71
Consensus pattern (29 bp):
TTTATTTTATTGTACTTTTAGTGTTTTAT
Found at i:807605 original size:28 final size:27
Alignment explanation
Indices: 807583--807650 Score: 118
Period size: 28 Copynumber: 2.5 Consensus size: 27
807573 TATAATTTAA
807583 AAATATAAAAAATGAAATTATAAAAAT
1 AAATATAAAAAATGAAATTATAAAAAT
*
807610 AAATATAAAAATATTAAATTATAAAAAT
1 AAATATAAAAA-ATGAAATTATAAAAAT
807638 AAATATAAAAAAT
1 AAATATAAAAAAT
807651 ATTAAGTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 13 0.33
28 26 0.67
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (27 bp):
AAATATAAAAAATGAAATTATAAAAAT
Found at i:807662 original size:28 final size:28
Alignment explanation
Indices: 807583--807663 Score: 107
Period size: 28 Copynumber: 2.9 Consensus size: 28
807573 TATAATTTAA
807583 AAATATAAAAAATGA--AATTATAAAAAT
1 AAATATAAAAAAT-ATTAATTATAAAAAT
807610 AAATAT-AAAAATATTAAATTATAAAAAT
1 AAATATAAAAAATATT-AATTATAAAAAT
807638 AAATATAAAAAATATTAAGTT-TAAAA
1 AAATATAAAAAATATTAA-TTATAAAA
807664 TTTACAACAA
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
25 1 0.02
26 6 0.12
27 6 0.12
28 25 0.51
29 11 0.22
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (28 bp):
AAATATAAAAAATATTAATTATAAAAAT
Found at i:807795 original size:28 final size:27
Alignment explanation
Indices: 807739--807793 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
807729 ATTATAAAAA
*
807739 TAAATATACAAATATTAAATTTAGTTT
1 TAAATATAAAAATATTAAATTTAGTTT
807766 TAAAGTATAAAAATATTAAATTT-GTTT
1 TAAA-TATAAAAATATTAAATTTAGTTT
807793 T
1 T
807794 TATTGTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.45
Consensus pattern (27 bp):
TAAATATAAAAATATTAAATTTAGTTT
Found at i:809859 original size:13 final size:13
Alignment explanation
Indices: 809841--809865 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
809831 AATTTTAATT
809841 TTCTTTTTATTTC
1 TTCTTTTTATTTC
809854 TTCTTTTTATTT
1 TTCTTTTTATTT
809866 ATAAGCTTTT
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:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (13 bp):
TTCTTTTTATTTC
Found at i:811242 original size:22 final size:22
Alignment explanation
Indices: 811217--811262 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
811207 GAGCCCTCAC
811217 ACCAGTCGCCGTTATTCAC-GCA
1 ACCA-TCGCCGTTATTCACGGCA
* *
811239 ACCATGGCCGTTTTTCACGGCA
1 ACCATCGCCGTTATTCACGGCA
811261 AC
1 AC
811263 ACTTCAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.24
Consensus pattern (22 bp):
ACCATCGCCGTTATTCACGGCA
Found at i:812186 original size:18 final size:18
Alignment explanation
Indices: 812151--812184 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
812141 CCCTACTATT
*
812151 ATTATATATTATATTTTC
1 ATTATATATTACATTTTC
812169 ATTAT-TATTACATTTT
1 ATTATATATTACATTTT
812185 TCCCTTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTATATATTACATTTTC
Found at i:812288 original size:2 final size:2
Alignment explanation
Indices: 812281--812335 Score: 73
Period size: 2 Copynumber: 29.5 Consensus size: 2
812271 ATTTTTAACG
*
812281 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TT TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
812321 T- TA T- TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
812336 TCTTTCTATT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
1 4 0.09
2 43 0.91
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:816149 original size:52 final size:52
Alignment explanation
Indices: 816085--816188 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
816075 GCACCCGGAG
816085 TAGGTGTATCTGAGGGGATAACCATACCACCGACCCCACAAGTGGTTGTCTC
1 TAGGTGTATCTGAGGGGATAACCATACCACCGACCCCACAAGTGGTTGTCTC
816137 TAGGTGTATCTGAGGGGATAACCATACCACCGACCCCACAAGTGGTTGTCTC
1 TAGGTGTATCTGAGGGGATAACCATACCACCGACCCCACAAGTGGTTGTCTC
816189 ATCCGGGATC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (52 bp):
TAGGTGTATCTGAGGGGATAACCATACCACCGACCCCACAAGTGGTTGTCTC
Found at i:822779 original size:9 final size:8
Alignment explanation
Indices: 822764--822808 Score: 56
Period size: 9 Copynumber: 5.4 Consensus size: 8
822754 CCCTAAATTG
822764 AAAAAAGA
1 AAAAAAGA
822772 ACAAAAAGA
1 A-AAAAAGA
822781 GAAAAAAGAA
1 -AAAAAAG-A
822791 AAAAAAGA
1 AAAAAAGA
822799 AAAAAA-A
1 AAAAAAGA
822806 AAA
1 AAA
822809 GAGAAAAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
7 4 0.12
8 8 0.24
9 20 0.59
10 2 0.06
ACGTcount: A:0.87, C:0.02, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:822784 original size:18 final size:16
Alignment explanation
Indices: 822763--822808 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 16
822753 ACCCTAAATT
822763 GAAAAAAGAACAAAAAGA
1 GAAAAAAGAA-AAAAA-A
822781 GAAAAAAGAAAAAAAA
1 GAAAAAAGAAAAAAAA
822797 GAAAAAA-AAAAA
1 GAAAAAAGAAAAA
822809 GAGAAAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.18
16 8 0.29
17 5 0.18
18 10 0.36
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (16 bp):
GAAAAAAGAAAAAAAA
Found at i:822801 original size:14 final size:15
Alignment explanation
Indices: 822766--822821 Score: 71
Period size: 14 Copynumber: 3.7 Consensus size: 15
822756 CTAAATTGAA
822766 AAAAGAACAAAAAGAG
1 AAAAGAA-AAAAAGAG
822782 AAAAAAGAAAAAAA-AG
1 --AAAAGAAAAAAAGAG
822798 AAAA-AAAAAAAGAG
1 AAAAGAAAAAAAGAG
822812 AAAAGAAAAA
1 AAAAGAAAAA
822822 TAAGGTGGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.19
14 10 0.28
15 5 0.14
16 2 0.06
17 5 0.14
18 7 0.19
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAGAG
Found at i:824147 original size:111 final size:110
Alignment explanation
Indices: 823943--824230 Score: 450
Period size: 111 Copynumber: 2.6 Consensus size: 110
823933 GCTTCCCAGT
* *
823943 TTCATAGCCCATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
** *
824008 CAGTGAAGGCGCGACTGAATGTCAACAAACAACTTTTTCAGTTTCA
66 CAACGAAGGCGCGACTGAATGTCAACAAACAAC-TTTTCAGCTTCA
824054 TTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
* * *
824119 CAACGAAGGGGCGACTGATTTTCAACAAACAACTTTTCAGCTTCA
66 CAACGAAGGCGCGACTGAATGTCAACAAACAACTTTTCAGCTTCA
* ** * *
824164 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGATAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
824229 CA
66 CA
824231 GCAAAGAGGC
Statistics
Matches: 164, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
110 73 0.45
111 91 0.55
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (110 bp):
TTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
CAACGAAGGCGCGACTGAATGTCAACAAACAACTTTTCAGCTTCA
Found at i:824254 original size:110 final size:110
Alignment explanation
Indices: 823943--824260 Score: 449
Period size: 110 Copynumber: 2.9 Consensus size: 110
823933 GCTTCCCAGT
* *
823943 TTCATAGCCCATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
* *
824008 CAGTGAAGGCGCGACTGAATGTCAACAAACAACTTTTTCAGTTTCA
66 CAGCGAAGG-GCGACTGAATGTCAACAAACAACTTTTTCAGCTTCA
824054 TTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
* * *
824119 CAACGAAGGGGCGACTGATTTTCAACAAACAAC-TTTTCAGCTTCA
66 CAGCGAA-GGGCGACTGAATGTCAACAAACAACTTTTTCAGCTTCA
* ** * *
824164 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGATAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
* ** **
824229 CAGCAAAGAGGCGGTTGGCTGTCAACAAACAA
66 CAGCGAAG-GGCGACTGAATGTCAACAAACAA
824261 TTTCCCAATT
Statistics
Matches: 186, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
109 1 0.01
110 94 0.51
111 89 0.48
112 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (110 bp):
TTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
CAGCGAAGGGCGACTGAATGTCAACAAACAACTTTTTCAGCTTCA
Found at i:826480 original size:24 final size:23
Alignment explanation
Indices: 826453--826497 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
826443 ATTCTTTCTA
826453 TTTATT-TCGTTTACTTTATTTTTT
1 TTTATTGT-GTTTACTTT-TTTTTT
826477 TTTATTGTGTTTACTTTTTTT
1 TTTATTGTGTTTACTTTTTTT
826498 CCTTTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 4 0.20
24 15 0.75
25 1 0.05
ACGTcount: A:0.11, C:0.07, G:0.07, T:0.76
Consensus pattern (23 bp):
TTTATTGTGTTTACTTTTTTTTT
Found at i:826558 original size:25 final size:23
Alignment explanation
Indices: 826530--826576 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
826520 TATATGTTTT
* *
826530 ATTTTTATTTCTTTGTTTCTATATA
1 ATTTTCATTCCTTT-TTT-TATATA
826555 ATTTTCATTCCTTTTTTTATAT
1 ATTTTCATTCCTTTTTTTATAT
826577 GTTTGCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 3 0.15
25 12 0.60
ACGTcount: A:0.19, C:0.11, G:0.02, T:0.68
Consensus pattern (23 bp):
ATTTTCATTCCTTTTTTTATATA
Found at i:829511 original size:18 final size:18
Alignment explanation
Indices: 829488--829527 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
829478 CTGAATGAAA
829488 AAGATGTTGAAGAAGAAG
1 AAGATGTTGAAGAAGAAG
* *
829506 AAGATGTTGATGAAGATG
1 AAGATGTTGAAGAAGAAG
829524 AAGA
1 AAGA
829528 CTTTGTTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.20
Consensus pattern (18 bp):
AAGATGTTGAAGAAGAAG
Found at i:835589 original size:3 final size:3
Alignment explanation
Indices: 835581--835632 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
835571 ACATGTAAAT
* *
835581 TAA TAA TAA TAA TAT TAC TAA TAA TAA TAA TAA TAA TAA -AA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
835627 TAA TAA
1 TAA TAA
835633 ATTTAAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
2 4 0.09
3 40 0.91
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:837641 original size:83 final size:81
Alignment explanation
Indices: 837502--837662 Score: 243
Period size: 83 Copynumber: 2.0 Consensus size: 81
837492 ACTTAACTTG
* * *
837502 TTTAGTACCTAAACTATCAGTTTTGGTTCGTTTTAGTACCTAAACTTTCAAAAAAAAATTCAAAA
1 TTTAGTACATAAACTATCAGTTTTGGTTCGTTTTAATACCTAAACTCT-AAAAAAAAA-TCAAAA
*
837567 CTTAACGTTAAATTTCTA
64 CTTAAAGTTAAATTTCTA
*
837585 TTTAGTACATAAACTATCATTTTTGG-TCTGTTTTAATACCTAAACTCTAAAAAAAAATCAAAAC
1 TTTAGTACATAAACTATCAGTTTTGGTTC-GTTTTAATACCTAAACTCTAAAAAAAAATCAAAAC
837649 TTAAAGTTAAATTT
65 TTAAAGTTAAATTT
837663 TGAACGGGGT
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
81 20 0.28
82 11 0.15
83 41 0.57
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (81 bp):
TTTAGTACATAAACTATCAGTTTTGGTTCGTTTTAATACCTAAACTCTAAAAAAAAATCAAAACT
TAAAGTTAAATTTCTA
Found at i:841905 original size:12 final size:12
Alignment explanation
Indices: 841888--841948 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 12
841878 CCTGAATTCG
841888 GTTCTGATTTCT
1 GTTCTGATTTCT
*
841900 GATCTGGA-TTCT
1 GTTCT-GATTTCT
* * *
841912 GTTATGATATAT
1 GTTCTGATTTCT
*
841924 GTTCTGAATTCT
1 GTTCTGATTTCT
*
841936 GTTTTGATTTCT
1 GTTCTGATTTCT
841948 G
1 G
841949 ATATCTCCGT
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
11 2 0.06
12 32 0.89
13 2 0.06
ACGTcount: A:0.16, C:0.11, G:0.20, T:0.52
Consensus pattern (12 bp):
GTTCTGATTTCT
Found at i:841910 original size:24 final size:24
Alignment explanation
Indices: 841879--841950 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
841869 GGTACATGAC
* *
841879 CTGAATTCGGTTCTGATTTCTGAT
1 CTGAATTCTGTTATGATTTCTGAT
* * * *
841903 CTGGATTCTGTTATGATATATGTT
1 CTGAATTCTGTTATGATTTCTGAT
*
841927 CTGAATTCTGTTTTGATTTCTGAT
1 CTGAATTCTGTTATGATTTCTGAT
841951 ATCTCCGTTT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.18, C:0.12, G:0.19, T:0.50
Consensus pattern (24 bp):
CTGAATTCTGTTATGATTTCTGAT
Found at i:841911 original size:48 final size:49
Alignment explanation
Indices: 841842--841950 Score: 123
Period size: 48 Copynumber: 2.3 Consensus size: 49
841832 AAATATTTTA
* * *
841842 TCTGATTTCCGA-CTTGAATTCTGTTCTGGTACATGACCTGAATTCGGT
1 TCTGATTTCTGATCTTGAATTCTGTTATGATACATGACCTGAATTCGGT
* * ** *
841890 TCTGATTTCTGATC-TGGATTCTGTTATGATATATGTTCTGAATTCTGT
1 TCTGATTTCTGATCTTGAATTCTGTTATGATACATGACCTGAATTCGGT
*
841938 TTTGATTTCTGAT
1 TCTGATTTCTGAT
841951 ATCTCCGTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 50 0.98
49 1 0.02
ACGTcount: A:0.18, C:0.16, G:0.19, T:0.47
Consensus pattern (49 bp):
TCTGATTTCTGATCTTGAATTCTGTTATGATACATGACCTGAATTCGGT
Found at i:847164 original size:24 final size:23
Alignment explanation
Indices: 847137--847224 Score: 95
Period size: 24 Copynumber: 3.7 Consensus size: 23
847127 ATTTCCGACT
*
847137 TGAATTCTGTTCTGATACATGACC
1 TGAATTCTGTTCTGATAC-TGATC
*
847161 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGA-TACTGATC
* * *
847185 TGGATTCTGTTATGATATCTGTTC
1 TGAATTCTGTTCTGATA-CTGATC
*
847209 TGAATTCTGTTTTGAT
1 TGAATTCTGTTCTGAT
847225 TTCCGATATC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
23 1 0.02
24 51 0.94
25 2 0.04
ACGTcount: A:0.19, C:0.15, G:0.18, T:0.48
Consensus pattern (23 bp):
TGAATTCTGTTCTGATACTGATC
Found at i:847175 original size:12 final size:12
Alignment explanation
Indices: 847137--847219 Score: 71
Period size: 12 Copynumber: 6.9 Consensus size: 12
847127 ATTTCCGACT
847137 TGAATTCTGTTC
1 TGAATTCTGTTC
* **
847149 TG-ATACATGACC
1 TGAATTC-TGTTC
847161 TGAATTCTGTTC
1 TGAATTCTGTTC
* *
847173 TGATTTCTGATC
1 TGAATTCTGTTC
* *
847185 TGGATTCTGTTA
1 TGAATTCTGTTC
847197 TG-ATATCTGTTC
1 TGAAT-TCTGTTC
847209 TGAATTCTGTT
1 TGAATTCTGTT
847220 TTGATTTCCG
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
11 5 0.09
12 44 0.81
13 5 0.09
ACGTcount: A:0.19, C:0.16, G:0.18, T:0.47
Consensus pattern (12 bp):
TGAATTCTGTTC
Found at i:847179 original size:48 final size:48
Alignment explanation
Indices: 847123--847231 Score: 132
Period size: 48 Copynumber: 2.3 Consensus size: 48
847113 AAATATTTTA
*
847123 TCTGATTTCCGA-CTTGAATTCTGTTCTGATA-CATGACCTGAATTCTGT
1 TCTGATTTCCGATC-TGAATTCTGTTATGATATC-TGACCTGAATTCTGT
* * **
847171 TCTGATTTCTGATCTGGATTCTGTTATGATATCTGTTCTGAATTCTGT
1 TCTGATTTCCGATCTGAATTCTGTTATGATATCTGACCTGAATTCTGT
*
847219 TTTGATTTCCGAT
1 TCTGATTTCCGAT
847232 ATCTCCGTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
48 50 0.96
49 2 0.04
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.47
Consensus pattern (48 bp):
TCTGATTTCCGATCTGAATTCTGTTATGATATCTGACCTGAATTCTGT
Found at i:852026 original size:33 final size:33
Alignment explanation
Indices: 851984--852048 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
851974 CTTACATTTC
**
851984 GTGAATTAAAAAACCTTTTTTGAGTATGATTCT
1 GTGAATTAAAAAACCTTTTCCGAGTATGATTCT
* *
852017 GTGAATTAAATAATCTTTTCCGAGTATGATTC
1 GTGAATTAAAAAACCTTTTCCGAGTATGATTC
852049 GTTGTCCTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (33 bp):
GTGAATTAAAAAACCTTTTCCGAGTATGATTCT
Found at i:854148 original size:2 final size:2
Alignment explanation
Indices: 854141--854171 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
854131 TACATTAGCT
854141 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
854172 ACTTGAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:856646 original size:15 final size:15
Alignment explanation
Indices: 856622--856670 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
856612 ATATTAATCA
856622 TTTTATAATTTTATAT
1 TTTTA-AATTTTATAT
* *
856638 TTTTGAATTTCATAT
1 TTTTAAATTTTATAT
856653 TTTTAATATTTTTATAT
1 TTTTAA-A-TTTTATAT
856670 T
1 T
856671 AATCATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 14 0.52
16 5 0.19
17 8 0.30
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTTAAATTTTATAT
Found at i:856656 original size:23 final size:24
Alignment explanation
Indices: 856621--856665 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
856611 GATATTAATC
*
856621 ATTTTATAATTTT-ATATTTTTGA
1 ATTTCATAATTTTAATATTTTTGA
*
856644 ATTTCATATTTTTAATATTTTT
1 ATTTCATAATTTTAATATTTTT
856666 ATATTAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (24 bp):
ATTTCATAATTTTAATATTTTTGA
Found at i:859791 original size:71 final size:72
Alignment explanation
Indices: 859669--859810 Score: 250
Period size: 71 Copynumber: 2.0 Consensus size: 72
859659 AATATGAGAG
*
859669 AGAATAAAGTTCAGTGATGATTGTGTAATTTACCCATACAGTAAGTTGTAAGCTTTTTTCAATTT
1 AGAATAAAGTTCAGTGATGATTGTGTAATTTACCCATACAATAAGTTGTAAGCTTTTTTCAATTT
*
859734 TCTTTCT
66 TATTTCT
*
859741 AGAAT-AAGTTCAGTGGTGATTGTGTAATTTACCCATACAATAAGTTGTAAGCTTTTTTCAATTT
1 AGAATAAAGTTCAGTGATGATTGTGTAATTTACCCATACAATAAGTTGTAAGCTTTTTTCAATTT
859805 TATTTC
66 TATTTC
859811 CTGTTGCAAA
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
71 62 0.93
72 5 0.07
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (72 bp):
AGAATAAAGTTCAGTGATGATTGTGTAATTTACCCATACAATAAGTTGTAAGCTTTTTTCAATTT
TATTTCT
Found at i:860503 original size:21 final size:21
Alignment explanation
Indices: 860479--860532 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
860469 GTAACTCAAA
* *
860479 TATGTCACCACCATAGACCTC
1 TATGTCAGCACCATAGACCGC
* *
860500 TATGTCAGCACTATGGACCGC
1 TATGTCAGCACCATAGACCGC
860521 TATGTCAGCACC
1 TATGTCAGCACC
860533 TTGAACTGGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (21 bp):
TATGTCAGCACCATAGACCGC
Found at i:862460 original size:20 final size:19
Alignment explanation
Indices: 862430--862501 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
862420 TTCTAAACTT
*
862430 AAAATTGCAACATGAAAATG
1 AAAATCGCAACA-GAAAATG
*
862450 AAAATCACAACACGAAAATG
1 AAAATCGCAACA-GAAAATG
**
862470 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAAC-AGA-AAATG
862491 AAAATCGCAAC
1 AAAATCGCAAC
862502 GCGAAATAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.53, C:0.18, G:0.15, T:0.14
Consensus pattern (19 bp):
AAAATCGCAACAGAAAATG
Found at i:862603 original size:20 final size:19
Alignment explanation
Indices: 862514--862626 Score: 110
Period size: 20 Copynumber: 6.1 Consensus size: 19
862504 GAAATAAAAA
*
862514 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
862533 TCGCGTTGTGATTTTAATT
1 TCGCGTTGCGATTTTCATT
862552 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
862566 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
862585 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
*
862605 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
862625 TC
1 TC
862627 AACCAAAAGA
Statistics
Matches: 76, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
14 10 0.13
16 2 0.03
17 2 0.03
19 29 0.38
20 32 0.42
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:863615 original size:14 final size:14
Alignment explanation
Indices: 863596--863631 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
863586 ATTGTTTAAT
863596 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
863610 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
863624 TGATTTGT
1 TGATTTGT
863632 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:863769 original size:19 final size:19
Alignment explanation
Indices: 863733--863880 Score: 269
Period size: 19 Copynumber: 7.7 Consensus size: 19
863723 AAAACAGACT
*
863733 ATCGCAACGCGAAAATGAAA
1 ATCGCAATGCG-AAATGAAA
863753 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
863772 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
863791 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
863810 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
863829 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
863848 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
863867 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
863881 CTAAGTTCGC
Statistics
Matches: 126, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
19 116 0.92
20 10 0.08
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:863947 original size:33 final size:34
Alignment explanation
Indices: 863890--864052 Score: 231
Period size: 33 Copynumber: 4.9 Consensus size: 34
863880 ACTAAGTTCG
863890 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* *
863924 CGTTGCGATTTTCA-TTTCGCATTGCGATTCCCG
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* *
863957 CGTTGCGATTTTTATTTTCGCATTGCGATTCAGT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
**
863991 CGTTGCGATTTTCA-TTTCGCATTGCGATTTTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** *
864024 CGTTGCGATGGTCATTTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
864053 AGTCAATTCC
Statistics
Matches: 114, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
33 58 0.51
34 56 0.49
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.44
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:863968 original size:67 final size:67
Alignment explanation
Indices: 863888--864052 Score: 258
Period size: 67 Copynumber: 2.5 Consensus size: 67
863878 AAACTAAGTT
863888 CGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGCGATT
1 CGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGCGATT
863953 CC
66 CC
* *
863955 CGCGTTGCGATTTTTATTTTCGCATTGCGATTCAGTCGTTGCGATTTTCATTTCGCATTGCGATT
1 CGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGCGATT
**
864020 TT
66 CC
* ** *
864022 CTCGTTGCGATGGTCATTTTCGCGTTGCGAT
1 CGCGTTGCGATTTTCATTTTCGCATTGCGAT
864053 AGTCAATTCC
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 89 1.00
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.43
Consensus pattern (67 bp):
CGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGCGATT
CC
Found at i:864042 original size:20 final size:20
Alignment explanation
Indices: 864017--864077 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
864007 TCGCATTGCG
* *
864017 ATTTTCTCGTTGCGATGGTC
1 ATTTTCGCGTTGCGATAGTC
864037 ATTTTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTC
* * * *
864057 AATTCCGCATTGTGATAGTC
1 ATTTTCGCGTTGCGATAGTC
864077 A
1 A
864078 AATGAATGTC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGTC
Found at i:866525 original size:24 final size:24
Alignment explanation
Indices: 866491--866544 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
866481 CTGAAAAATC
866491 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
866515 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
866539 ATCAAA
1 ATCAAA
866545 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:866558 original size:24 final size:24
Alignment explanation
Indices: 866491--866558 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
866481 CTGAAAAATC
* * *
866491 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
866515 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
866539 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
866559 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:867454 original size:20 final size:19
Alignment explanation
Indices: 867431--867595 Score: 141
Period size: 20 Copynumber: 8.2 Consensus size: 19
867421 TCGCATTATA
*
867431 ATTTACAGATTCACATTGCG
1 ATTTAC-GATTCACGTTGCG
*
867451 ATTTACGTATTCACATTGCG
1 ATTTACG-ATTCACGTTGCG
*
867471 ATTTACGTATTCTCGTTGCG
1 ATTTACG-ATTCACGTTGCG
* *
867491 ATTTACAGATACGCGTTGCG
1 ATTTAC-GATTCACGTTGCG
*
867511 ATTTACGTATTCTCGTTGCG
1 ATTTACG-ATTCACGTTGCG
*
867531 ATTTACGGATACACGTTGCG
1 ATTTAC-GATTCACGTTGCG
** *
867551 ATTTTACGTATTGTCGTTGTG
1 A-TTTACG-ATTCACGTTGCG
* *
867572 ATTTACGGATACGCGTTGCG
1 ATTTAC-GATTCACGTTGCG
867592 ATTT
1 ATTT
867596 TACGGATACT
Statistics
Matches: 122, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
19 2 0.02
20 103 0.84
21 17 0.14
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (19 bp):
ATTTACGATTCACGTTGCG
Found at i:867470 original size:60 final size:60
Alignment explanation
Indices: 867406--867537 Score: 158
Period size: 60 Copynumber: 2.2 Consensus size: 60
867396 CAGAATCTCG
* *
867406 TTGCGATTTACAG-ATTCGCATTATAATTTACAGATTCACATTGCGATTTACGTATTCACA
1 TTGCGATTTAC-GTATTCGCATTACAATTTACAGATACACATTGCGATTTACGTATTCACA
* * * * * * * *
867466 TTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCG
1 TTGCGATTTACGTATTCGCATTACAATTTACAGATACACATTGCGATTTACGTATTCACA
867526 TTGCGATTTACG
1 TTGCGATTTACG
867538 GATACACGTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
59 1 0.02
60 60 0.98
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.39
Consensus pattern (60 bp):
TTGCGATTTACGTATTCGCATTACAATTTACAGATACACATTGCGATTTACGTATTCACA
Found at i:867569 original size:41 final size:40
Alignment explanation
Indices: 867446--867614 Score: 221
Period size: 40 Copynumber: 4.2 Consensus size: 40
867436 CAGATTCACA
* * *
867446 TTGCGATTTACGTATTCACATTGCGATTTACGTATTCTCG
1 TTGCGATTTACGGATACACGTTGCGATTTACGTATTCTCG
* *
867486 TTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCG
1 TTGCGATTTACGGATACACGTTGCGATTTACGTATTCTCG
*
867526 TTGCGATTTACGGATACACGTTGCGATTTTACGTATTGTCG
1 TTGCGATTTACGGATACACGTTGCGA-TTTACGTATTCTCG
* * * * *
867567 TTGTGATTTACGGATACGCGTTGCGATTTTACGGATACTCA
1 TTGCGATTTACGGATACACGTTGCGA-TTTACGTATTCTCG
867608 TTGCGAT
1 TTGCGAT
867615 AGTCAGAATC
Statistics
Matches: 113, Mismatches: 15, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
40 59 0.52
41 54 0.48
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.39
Consensus pattern (40 bp):
TTGCGATTTACGGATACACGTTGCGATTTACGTATTCTCG
Found at i:867630 original size:61 final size:60
Alignment explanation
Indices: 867502--867637 Score: 148
Period size: 61 Copynumber: 2.2 Consensus size: 60
867492 TTTACAGATA
* * * * * * *
867502 CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACACGTTGCGATTTTACGTAT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACACATTGCGATGTCACGAAT
* * *
867562 TGTCGTTGTGATTTACGGATACGCGTTGCGATTTTACGGATACTCATTGCGATAGTCA-GAAT
1 CG-CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGGATACACATTGCGAT-GTCACGAAT
867624 CGCGTTGCGATTTA
1 CGCGTTGCGATTTA
867638 TATGTTCGCG
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
60 1 0.02
61 35 0.57
62 23 0.38
63 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACACATTGCGATGTCACGAAT
Found at i:867646 original size:20 final size:20
Alignment explanation
Indices: 867623--867675 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
867613 ATAGTCAGAA
867623 TCGCGTTGCGATTT-ATATGT
1 TCGCGTTGCGATTTCATAT-T
867643 TCGCGTTGCGATTTTCATATT
1 TCGCGTTGCGA-TTTCATATT
867664 T-GCGTTGCGATT
1 TCGCGTTGCGATT
867676 ATTGAAAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.06
20 20 0.65
21 5 0.16
22 4 0.13
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGATTTCATATT
Found at i:871183 original size:45 final size:46
Alignment explanation
Indices: 871095--871185 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 46
871085 TTGAAAAAGC
* * *
871095 CTGAGTGCATCGATGCATAGTCTTGTGCATCGATGCTTCAAATGCA
1 CTGAGTGCATCGATGCATAGTCATGTGCATCGATGCATAAAATGCA
*
871141 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATAGTCATGTGCATCGATGCATAAAATGCA
871186 TTCGATGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 21 0.51
46 20 0.49
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATAGTCATGTGCATCGATGCATAAAATGCA
Found at i:873954 original size:23 final size:22
Alignment explanation
Indices: 873924--874003 Score: 103
Period size: 23 Copynumber: 3.6 Consensus size: 22
873914 GCATGACCCT
873924 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
873946 CGTGCATCGATGCACATTCAAAGG
1 -GTGCATCGATGCACATTC-AAGG
873970 GATGCATCGATGCACTATT-AA--
1 G-TGCATCGATGCAC-ATTCAAGG
873991 GTGCATCGATGCA
1 GTGCATCGATGCA
874004 TGAAGCACAA
Statistics
Matches: 54, Mismatches: 0, Indels: 9
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.22
21 1 0.02
23 21 0.39
24 17 0.31
25 3 0.06
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.24
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:879924 original size:45 final size:46
Alignment explanation
Indices: 879836--879926 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
879826 TTGAAAAAGC
* *
879836 CTGAGTGCATCGATGCATAGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATAGTCATGTGCATCGATGCATAAAATGCA
*
879882 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATAGTCATGTGCATCGATGCATAAAATGCA
879927 TTCGATGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 22 0.52
46 20 0.48
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATAGTCATGTGCATCGATGCATAAAATGCA
Found at i:888115 original size:27 final size:28
Alignment explanation
Indices: 888080--888143 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 28
888070 AAATGATGGA
** *
888080 GATGGAGATGGTGGTAGTGATGTTGAT-
1 GATGGAGATGGTGACAGTGATGTAGATG
888107 GATGGAGATGGTGACAGTGATGTAGATG
1 GATGGAGATGGTGACAGTGATGTAGATG
888135 GAT-GAGATG
1 GATGGAGATG
888144 AAGATGATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 30 0.91
28 3 0.09
ACGTcount: A:0.27, C:0.02, G:0.44, T:0.28
Consensus pattern (28 bp):
GATGGAGATGGTGACAGTGATGTAGATG
Found at i:888151 original size:24 final size:24
Alignment explanation
Indices: 888124--888170 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
888114 ATGGTGACAG
888124 TGATGTAGATGGATGAGATGAAGA
1 TGATGTAGATGGATGAGATGAAGA
* * *
888148 TGATGTGGATGGTTGTGATGAAG
1 TGATGTAGATGGATGAGATGAAG
888171 GTACATTGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.40, T:0.30
Consensus pattern (24 bp):
TGATGTAGATGGATGAGATGAAGA
Found at i:889383 original size:12 final size:12
Alignment explanation
Indices: 889366--889413 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
889356 ATTGAAGACA
889366 CAGAATTATGAG
1 CAGAATTATGAG
*
889378 CAGAATTATTAGACA
1 CAGAATTA-T-GA-G
889393 CAGAATTATGAG
1 CAGAATTATGAG
*
889405 AAGAATTAT
1 CAGAATTAT
889414 TAATACGAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 16 0.53
13 3 0.10
14 3 0.10
15 8 0.27
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (12 bp):
CAGAATTATGAG
Found at i:889392 original size:27 final size:27
Alignment explanation
Indices: 889361--889415 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
889351 AGCTTATTGA
*
889361 AGACACAGAATTATGAGCAGAATTATT
1 AGACACAGAATTATGAGAAGAATTATT
889388 AGACACAGAATTATGAGAAGAATTATT
1 AGACACAGAATTATGAGAAGAATTATT
889415 A
1 A
889416 ATACGAACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.25
Consensus pattern (27 bp):
AGACACAGAATTATGAGAAGAATTATT
Found at i:889396 original size:15 final size:15
Alignment explanation
Indices: 889361--889401 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
889351 AGCTTATTGA
889361 AGACACAGAATTA-T
1 AGACACAGAATTATT
*
889375 -GA-GCAGAATTATT
1 AGACACAGAATTATT
889388 AGACACAGAATTAT
1 AGACACAGAATTAT
889402 GAGAAGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
12 8 0.36
13 3 0.14
14 2 0.09
15 9 0.41
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.24
Consensus pattern (15 bp):
AGACACAGAATTATT
Done.