Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001478.1 Hibiscus syriacus cultivar Beakdansim tig00002868_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: 623040
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 4 of 5
Found at i:427970 original size:127 final size:127
Alignment explanation
Indices: 427737--428393 Score: 1125
Period size: 127 Copynumber: 5.2 Consensus size: 127
427727 ATCTATAGTT
* *
427737 CCCCGGGAACGCGCTTTAAAGTCCCCTCAGAAATAATAGGTACTGACATGAATAGTTCCCCGGGG
1 CCCCGGGAACGCGCCTTCAAGTCCCCTCAGAAATAATAGGTACTGACATGAATAGTTCCCCGGGG
*
427802 GACATAAGTGACATAATAGGGCAATGATAACATGTTCTCTGACAAAATAATGGAAGGCGCGC
66 GACATGAGTGACATAATAGGGCAATGATAACATGTTCTCTGACAAAATAATGGAAGGCGCGC
* * * * *
427864 CCCCAGGAACGCGCCTTGAAGTCACCTCAGAAATAATAGGTACTAACATAAATAGTTCCCCGGGG
1 CCCCGGGAACGCGCCTTCAAGTCCCCTCAGAAATAATAGGTACTGACATGAATAGTTCCCCGGGG
* *
427929 GACATGAGTGACATAATAGGGCAATGATAACATGTTATCTGACAAAATAATGGAAGGCACGC
66 GACATGAGTGACATAATAGGGCAATGATAACATGTTCTCTGACAAAATAATGGAAGGCGCGC
*
427991 CCCCGGGAACGCGCCTTCAAGTCCCCTCAGAAATAATAGGTACTGACATGAATAGTTCCCTGGGG
1 CCCCGGGAACGCGCCTTCAAGTCCCCTCAGAAATAATAGGTACTGACATGAATAGTTCCCCGGGG
*
428056 GACATGAGTGACATAATAGGGCAATGATAACATGTTCTCTGACAAAATAATGGAAGGCGCTC
66 GACATGAGTGACATAATAGGGCAATGATAACATGTTCTCTGACAAAATAATGGAAGGCGCGC
*
428118 CCCCGGGAACGCGCCTTCAAGTCCCCTCAGAAATAATAGGTACTGACATAAATAGTTCCCCGGGG
1 CCCCGGGAACGCGCCTTCAAGTCCCCTCAGAAATAATAGGTACTGACATGAATAGTTCCCCGGGG
428183 GACATGAGTGACATAATAGGGCAATGATAACATGTTCTCTGACAAAATAATGGAAGGCGCGC
66 GACATGAGTGACATAATAGGGCAATGATAACATGTTCTCTGACAAAATAATGGAAGGCGCGC
* * * * * * *
428245 CCCTGGGAACGCGCCTTCAAATCCTCTTAGTAATAATAGGTACTGACATGAATAGTTCTCCGAGG
1 CCCCGGGAACGCGCCTTCAAGTCCCCTCAGAAATAATAGGTACTGACATGAATAGTTCCCCGGGG
428310 GACATGAGTGACATAATAGGGCAATGATAACATGTTCTCTGACAAAATAATGGAAGGCGCGC
66 GACATGAGTGACATAATAGGGCAATGATAACATGTTCTCTGACAAAATAATGGAAGGCGCGC
*
428372 CCCCGGGAACACGCCTTCAAGT
1 CCCCGGGAACGCGCCTTCAAGT
428394 GAATAGTACC
Statistics
Matches: 498, Mismatches: 32, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
127 498 1.00
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.21
Consensus pattern (127 bp):
CCCCGGGAACGCGCCTTCAAGTCCCCTCAGAAATAATAGGTACTGACATGAATAGTTCCCCGGGG
GACATGAGTGACATAATAGGGCAATGATAACATGTTCTCTGACAAAATAATGGAAGGCGCGC
Found at i:428557 original size:19 final size:19
Alignment explanation
Indices: 428533--428578 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
428523 AACCGGTCAA
428533 GAACCGGCAAAATCGGTGT
1 GAACCGGCAAAATCGGTGT
*
428552 GAACCGGAAAAATCGGTGT
1 GAACCGGCAAAATCGGTGT
428571 GAACCGGC
1 GAACCGGC
428579 CGGTTCAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.22, G:0.33, T:0.13
Consensus pattern (19 bp):
GAACCGGCAAAATCGGTGT
Found at i:428673 original size:6 final size:6
Alignment explanation
Indices: 428662--428706 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
428652 ATTATCAATC
*
428662 AATTTT AATTTT AA-TTT -ATTCTT -ATTTT AAATTT AATTTT AATTT
1 AATTTT AATTTT AATTTT AATT-TT AATTTT AATTTT AATTTT AATTT
428707 AAATCTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 1 0.03
5 6 0.18
6 27 0.79
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:428696 original size:17 final size:16
Alignment explanation
Indices: 428663--428715 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 16
428653 TTATCAATCA
428663 ATTTTAATTTT-AATTT
1 ATTTT-ATTTTAAATTT
428679 ATTCTTATTTTAAATTT
1 ATT-TTATTTTAAATTT
*
428696 AATTTTAATTTAAATCTT
1 -ATTTTATTTTAAAT-TT
428714 AT
1 AT
428716 ACAACCTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
16 8 0.25
17 19 0.59
18 5 0.16
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTATTTTAAATTT
Found at i:432691 original size:20 final size:20
Alignment explanation
Indices: 432654--432696 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
432644 ATTCCACCAC
*
432654 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
432674 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
432694 ATG
1 ATG
432697 TGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:437679 original size:20 final size:20
Alignment explanation
Indices: 437642--437684 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
437632 ATTCCACCAC
*
437642 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
437662 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
437682 ATG
1 ATG
437685 TACTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:440567 original size:3 final size:3
Alignment explanation
Indices: 440559--440614 Score: 96
Period size: 3 Copynumber: 18.7 Consensus size: 3
440549 TATGTAACAT
440559 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
440606 TAA TTAA TA
1 TAA -TAA TA
440615 TTTTTAATAT
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 46 0.90
4 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:441442 original size:29 final size:29
Alignment explanation
Indices: 441379--441482 Score: 140
Period size: 29 Copynumber: 3.6 Consensus size: 29
441369 AAACAGCTAA
* *
441379 AACAGAAATTTAATTGAC-ATAAATAGCAAA-
1 AACAGAAACTTAAGTGACTA-AAATA--AAAT
441409 AACAGAAACTTAAGTGACTAAAATAAAAT
1 AACAGAAACTTAAGTGACTAAAATAAAAT
441438 AACAGAAACTTAAGTGACTAAAATAAAAT
1 AACAGAAACTTAAGTGACTAAAATAAAAT
*
441467 AACAGAAACTAAAGTG
1 AACAGAAACTTAAGTG
441483 TCAAAATCAG
Statistics
Matches: 69, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
28 3 0.04
29 44 0.64
30 21 0.30
31 1 0.01
ACGTcount: A:0.58, C:0.11, G:0.12, T:0.20
Consensus pattern (29 bp):
AACAGAAACTTAAGTGACTAAAATAAAAT
Found at i:442138 original size:2 final size:2
Alignment explanation
Indices: 442131--442172 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
442121 AGTAAATTAC
442131 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
442173 CATAAGAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:442697 original size:43 final size:43
Alignment explanation
Indices: 442592--443216 Score: 283
Period size: 46 Copynumber: 14.5 Consensus size: 43
442582 GGTCGAGTGA
* * * * * *
442592 TGACACAGTTCCTATGTGATGAGGACGACATGTCATCTAGGGGT
1 TGACACGGTTCCTACGTGATGAGGACGGCAGGTTATCT-GAGGT
*
442636 GATAACACGGTTCCTACGTGATGAGGACGGTC-GGTTATCTGAGGT
1 --TGACACGGTTCCTACGTGATGAGGACGG-CAGGTTATCTGAGGT
* * ***
442681 TGACACGGCTCCTACGTGATGAGGA-GATCAGGTTGGGTGA---
1 TGACACGGTTCCTACGTGATGAGGACG-GCAGGTTATCTGAGGT
* * *
442721 TGACACAGTTCCTACGTGATGAGGACGGCAGGTCATCTAAGGGT
1 TGACACGGTTCCTACGTGATGAGGACGGCAGGTTATCTGA-GGT
* ** * * * *
442765 GATAACACTATTCTTACGTGATGAGGACAGCTGGTTATCTGGGGT
1 --TGACACGGTTCCTACGTGATGAGGACGGCAGGTTATCTGAGGT
* * *
442810 TGACACGGCTCCTACGTGACGAGGA-GATCAGG---TC-G-GGT
1 TGACACGGTTCCTACGTGATGAGGACG-GCAGGTTATCTGAGGT
* * *** *
442848 GATGACATGATTCCTACGTGATGAGGACGGCAGACCATCTAAGGGT
1 --TGACACGGTTCCTACGTGATGAGGACGGCAGGTTATCTGA-GGT
* * *
442894 GATAACATGGTTCCTACGTGATGAGGACGGCTGGTTATCTGAGGT
1 --TGACACGGTTCCTACGTGATGAGGACGGCAGGTTATCTGAGGT
* * *
442939 TGACACGGCTCCTACGTGATGAGGA--TCA---TGTC-G-GGT
1 TGACACGGTTCCTACGTGATGAGGACGGCAGGTTATCTGAGGT
** * * ** *
442975 GATGACATAGTTCCTACGTGATGAGGATGGCATGCCATCTAAGGGT
1 --TGACACGGTTCCTACGTGATGAGGACGGCAGGTTATCTGA-GGT
* * * * *
443021 GATAACACAGTTCTTACGTGATGAGGATGGCTGGTTATCT-ACGGT
1 --TGACACGGTTCCTACGTGATGAGGACGGCAGGTTATCTGA-GGT
* * * * *
443066 TGACACGGCTCTTACATGATGAAGA-GATCAGG---TC-G-GGT
1 TGACACGGTTCCTACGTGATGAGGACG-GCAGGTTATCTGAGGT
* * * *
443104 GATGACATGGTTCCTACGTGATGAGGACGGGAGGTAATCTAAGGGT
1 --TGACACGGTTCCTACGTGATGAGGACGGCAGGTTATCTGA-GGT
* * *
443150 GATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGGGGT
1 --TGACACGGTTCCTACGTGATGAGGACGGCAGGTTATCTGAGGT
*
443195 TGACACGGATCCTACGTGATGA
1 TGACACGGTTCCTACGTGATGA
443217 CGATATTAGG
Statistics
Matches: 440, Mismatches: 98, Indels: 85
0.71 0.16 0.14
Matches are distributed among these distances:
36 3 0.01
37 1 0.00
38 31 0.07
39 1 0.00
40 83 0.19
41 4 0.01
42 3 0.01
43 123 0.28
45 17 0.04
46 173 0.39
47 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.25
Consensus pattern (43 bp):
TGACACGGTTCCTACGTGATGAGGACGGCAGGTTATCTGAGGT
Found at i:442741 original size:83 final size:85
Alignment explanation
Indices: 442632--443262 Score: 303
Period size: 83 Copynumber: 7.4 Consensus size: 85
442622 TGTCATCTAG
* *
442632 GGGTGATAACACGGTTCCTACGTGATGAGGACGGTC-GGTTATCTGAGGT-TGACACGGCTCCTA
1 GGGTGATGACACGGTTCCTACGTGATGAGGACGG-CAGGTTATCTGAGGTATGACACGACTCCTA
*
442695 CGTGATGAGGAGATCAGGT-T
65 CGTGATGAGGAGAGCAGGTCT
* * * * * * *
442715 GGGTGATGACACAGTTCCTACGTGATGAGGACGGCAGGTCATCTAAGGGTGATAACACTATTCTT
1 GGGTGATGACACGGTTCCTACGTGATGAGGACGGCAGGTTATCTGA-GGT-ATGACACGACTCCT
* *
442780 ACGTGATGAGGACAGCTGGTTATCT
64 ACGTGATGAGGAGAGCAGG---TCT
* * * * * *
442805 GGG-GTTGACACGGCTCCTACGTGACGAGGA-GATCAGG---TC-G-GGTGATGACATGATTCCT
1 GGGTGATGACACGGTTCCTACGTGATGAGGACG-GCAGGTTATCTGAGGT-ATGACACGACTCCT
*
442863 ACGTGATGAGGACG-GCAGACCATCT
64 ACGTGATGAGGA-GAGCAG---GTCT
* * * *
442888 AAGGGTGATAACATGGTTCCTACGTGATGAGGACGGCTGGTTATCTGAGGT-TGACACGGCTCCT
1 --GGGTGATGACACGGTTCCTACGTGATGAGGACGGCAGGTTATCTGAGGTATGACACGACTCCT
* *
442952 ACGTGATGA-G-GATCATGTC-
64 ACGTGATGAGGAGAGCAGGTCT
** * * ** * * * *
442971 GGGTGATGACATAGTTCCTACGTGATGAGGATGGCATGCCATCTAAGGGTGATAACAC-AGTTCT
1 GGGTGATGACACGGTTCCTACGTGATGAGGACGGCAGGTTATCTGA-GGT-ATGACACGA-CTCC
*
443035 TACGTGATGAGGATG-GCTGGTTATCT
63 TACGTGATGAGGA-GAGCAGG---TCT
* * * * * * * **
443061 ACGGT--TGACACGGCTCTTACATGATGAAGA-GATCAGG---TC-G-GGTGATGACATGGTTCC
1 -GGGTGATGACACGGTTCCTACGTGATGAGGACG-GCAGGTTATCTGAGGT-ATGACACGACTCC
*
443118 TACGTGATGAGGACG-GGAGGTAATCT
63 TACGTGATGAGGA-GAGCAGG---TCT
* * *
443144 AAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGGGGT-TGACACGGA-TCC
1 --GGGTGATGACACGGTTCCTACGTGATGAGGACGGCAGGTTATCTGAGGTATGACAC-GACTCC
* * **
443207 TACGTGATGACGATATTAGGTC-
63 TACGTGATGAGGAGAGCAGGTCT
443229 GGGTGATGACACGGTTCCTACGTGATGAGGACGG
1 GGGTGATGACACGGTTCCTACGTGATGAGGACGG
443263 TATACCATCA
Statistics
Matches: 414, Mismatches: 86, Indels: 96
0.69 0.14 0.16
Matches are distributed among these distances:
81 38 0.09
82 4 0.01
83 139 0.34
84 26 0.06
85 4 0.01
86 81 0.20
87 5 0.01
88 3 0.01
89 98 0.24
90 7 0.02
91 9 0.02
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (85 bp):
GGGTGATGACACGGTTCCTACGTGATGAGGACGGCAGGTTATCTGAGGTATGACACGACTCCTAC
GTGATGAGGAGAGCAGGTCT
Found at i:442783 original size:129 final size:129
Alignment explanation
Indices: 442550--443262 Score: 1022
Period size: 129 Copynumber: 5.5 Consensus size: 129
442540 TCGTCTAAAT
* * *
442550 GTTGACACGACTCCTACGTGATGAGGAGATCAGGTCGAGTGATGACACAGTTCCTATGTGATGAG
1 GTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACAGTTCCTACGTGATGAG
* * *
442615 GACGACATGTCATCTAGGGGTGATAACACGGTTCCTACGTGATGAGGACGG-TCGGTTATCTGAG
66 GACGGCAGGTCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCT-GGTTATCTGAG
*
442679 GTTGACACGGCTCCTACGTGATGAGGAGATCAGGTTGGGTGATGACACAGTTCCTACGTGATGAG
1 GTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACAGTTCCTACGTGATGAG
** * * *
442744 GACGGCAGGTCATCTAAGGGTGATAACACTATTCTTACGTGATGAGGACAGCTGGTTATCTGGG
66 GACGGCAGGTCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGAG
* *
442808 GTTGACACGGCTCCTACGTGACGAGGAGATCAGGTCGGGTGATGACA-TGATTCCTACGTGATGA
1 GTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACAG-TTCCTACGTGATGA
** *
442872 GGACGGCAGACCATCTAAGGGTGATAACATGGTTCCTACGTGATGAGGACGGCTGGTTATCTGAG
65 GGACGGCAGGTCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGAG
* *
442937 GTTGACACGGCTCCTACGTGATGA-G-GATCATGTCGGGTGATGACATAGTTCCTACGTGATGAG
1 GTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACAGTTCCTACGTGATGAG
* * * * * *
443000 GATGGCATGCCATCTAAGGGTGATAACACAGTTCTTACGTGATGAGGATGGCTGGTTATCT-ACG
66 GACGGCAGGTCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGA-G
* * * **
443064 GTTGACACGGCTCTTACATGATGAAGAGATCAGGTCGGGTGATGACATGGTTCCTACGTGATGAG
1 GTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACAGTTCCTACGTGATGAG
* * *
443129 GACGGGAGGTAATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGGG
66 GACGGCAGGTCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGAG
* * * * *
443193 GTTGACACGGATCCTACGTGATGACGATATTAGGTCGGGTGATGACACGGTTCCTACGTGATGAG
1 GTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACAGTTCCTACGTGATGAG
443258 GACGG
66 GACGG
443263 TATACCATCA
Statistics
Matches: 524, Mismatches: 53, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
126 1 0.00
127 111 0.21
128 4 0.01
129 407 0.78
130 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (129 bp):
GTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACAGTTCCTACGTGATGAG
GACGGCAGGTCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGAG
Found at i:443102 original size:256 final size:255
Alignment explanation
Indices: 442550--443288 Score: 1045
Period size: 256 Copynumber: 2.9 Consensus size: 255
442540 TCGTCTAAAT
* * * *
442550 GTTGACACGACTCCTACGTGATGAGGAGATCAGGTCGAGTGATGACA-CAGTTCCTATGTGATGA
1 GTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACATGA-TTCCTACGTGATGA
* *
442614 GGACGACATGTCATCTAGGGGTGATAACACGGTTCCTACGTGATGAGGACGG-TCGGTTATCTGA
65 GGACGGCA-GTCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCT-GGTTATCTGA
* *
442678 GGTTGACACGGCTCCTACGTGATGAGGAGATCAGGTTGGGTGATGACACAGTTCCTACGTGATGA
128 GGTTGACACGGCTCCTACGTGATGA-G-GATCATGTCGGGTGATGACACAGTTCCTACGTGATGA
* * **
442743 GGACGGCAGGTCATCTAAGGGTGATAACACTATTCTTACGTGATGAGGACAGCTGGTTATCTGGG
191 GGACGGCATGCCATCTAAGGGTGATAACACTATTCTTACGTGATGAGGACAGCTGGTTATCTACG
*
442808 GTTGACACGGCTCCTACGTGACGAGGAGATCAGGTCGGGTGATGACATGATTCCTACGTGATGAG
1 GTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACATGATTCCTACGTGATGAG
* *
442873 GACGGCAGACCATCTAAGGGTGATAACATGGTTCCTACGTGATGAGGACGGCTGGTTATCTGAGG
66 GACGGCAG-TCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGAGG
* *
442938 TTGACACGGCTCCTACGTGATGAGGATCATGTCGGGTGATGACATAGTTCCTACGTGATGAGGAT
130 TTGACACGGCTCCTACGTGATGAGGATCATGTCGGGTGATGACACAGTTCCTACGTGATGAGGAC
**
443003 GGCATGCCATCTAAGGGTGATAACAC-AGTTCTTACGTGATGAGGATGGCTGGTTATCTACG
195 GGCATGCCATCTAAGGGTGATAACACTA-TTCTTACGTGATGAGGACAGCTGGTTATCTACG
* * * *
443064 GTTGACACGGCTCTTACATGATGAAGAGATCAGGTCGGGTGATGACATGGTTCCTACGTGATGAG
1 GTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACATGATTCCTACGTGATGAG
* * *
443129 GACGGGAGGTAATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGGGG
66 GACGGCA-GTCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGAGG
* * *
443194 TTGACACGGATCCTACGTGATGACGAT-ATTAGGTCGGGTGATGACACGGTTCCTACGTGATGAG
130 TTGACACGGCTCCTACGTGATGAGGATCA-T--GTCGGGTGATGACACAGTTCCTACGTGATGAG
* * *
443258 GACGGTATACCATCATTAAGGATGATAACAC
192 GACGGCATGCCATC--TAAGGGTGATAACAC
443289 GATTTCAAGA
Statistics
Matches: 434, Mismatches: 37, Indels: 18
0.89 0.08 0.04
Matches are distributed among these distances:
255 2 0.00
256 234 0.54
257 3 0.01
258 179 0.41
259 2 0.00
260 14 0.03
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (255 bp):
GTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACATGATTCCTACGTGATGAG
GACGGCAGTCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGAGGT
TGACACGGCTCCTACGTGATGAGGATCATGTCGGGTGATGACACAGTTCCTACGTGATGAGGACG
GCATGCCATCTAAGGGTGATAACACTATTCTTACGTGATGAGGACAGCTGGTTATCTACG
Found at i:443411 original size:33 final size:32
Alignment explanation
Indices: 443371--443551 Score: 114
Period size: 33 Copynumber: 5.3 Consensus size: 32
443361 AAGGGGAACG
443371 ATCTCAAAGATATTTGTTGTTTCATGAGAAAC
1 ATCTCAAAGATATTTGTTGTTTCATGAGAAAC
* * * ** *
443403 AATTTCAAATAAAATACGATTTGTTTCAAGAGAAAC
1 -ATCTCAAA-GATATTTG--TTGTTTCATGAGAAAC
* *
443439 ATATCAAAG-TTTGGTTGTTGTTTCATGAGAAAC
1 ATCTCAAAGATAT--TTGTTGTTTCATGAGAAAC
* ** *
443472 GATCTCAAAGAAAATAAGATTTGTTTCAAGAGAAAC
1 -ATCTCAAAG-ATATTTG--TTGTTTCATGAGAAAC
*
443508 ATCTCAAAG-TTTGGTTGTTGTTTCATGAGAAAC
1 ATCTCAAAGATAT--TTGTTGTTTCATGAGAAAC
443541 AATCTCAAAGA
1 -ATCTCAAAGA
443552 AAATAAAACT
Statistics
Matches: 110, Mismatches: 24, Indels: 26
0.69 0.15 0.16
Matches are distributed among these distances:
33 39 0.35
34 22 0.20
35 18 0.16
36 31 0.28
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.33
Consensus pattern (32 bp):
ATCTCAAAGATATTTGTTGTTTCATGAGAAAC
Found at i:443429 original size:36 final size:36
Alignment explanation
Indices: 443387--443508 Score: 101
Period size: 36 Copynumber: 3.5 Consensus size: 36
443377 AAGATATTTG
* * *
443387 TTGTTTCATGAGAAACAATTTCAAATAAAATACGAT
1 TTGTTTCAAGAGAAACAATATCAAATAAAATAAGAT
** *
443423 TTGTTTCAAGAGAAAC-ATATCAAAGT----TTGGTT
1 TTGTTTCAAGAGAAACAATATCAAA-TAAAATAAGAT
* * * *
443455 GTTGTTTCATGAGAAACGATCTCAAAGAAAATAAGAT
1 -TTGTTTCAAGAGAAACAATATCAAATAAAATAAGAT
443492 TTGTTTCAAGAGAAACA
1 TTGTTTCAAGAGAAACA
443509 TCTCAAAGTT
Statistics
Matches: 66, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
32 3 0.05
33 15 0.23
34 7 0.11
35 7 0.11
36 31 0.47
37 3 0.05
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (36 bp):
TTGTTTCAAGAGAAACAATATCAAATAAAATAAGAT
Found at i:443457 original size:69 final size:69
Alignment explanation
Indices: 443384--443588 Score: 329
Period size: 69 Copynumber: 3.0 Consensus size: 69
443374 TCAAAGATAT
* * * *
443384 TTGTTGTTTCATGAGAAACAATTTCAAATAAAATACGATTTGTTTCAAGAGAAACATATCAAAGT
1 TTGTTGTTTCATGAGAAACAATCTCAAAGAAAATAAGATTTGTTTCAAGAGAAACATCTCAAAGT
443449 TTGG
66 TTGG
*
443453 TTGTTGTTTCATGAGAAACGATCTCAAAGAAAATAAGATTTGTTTCAAGAGAAACATCTCAAAGT
1 TTGTTGTTTCATGAGAAACAATCTCAAAGAAAATAAGATTTGTTTCAAGAGAAACATCTCAAAGT
443518 TTGG
66 TTGG
* * *
443522 TTGTTGTTTCATGAGAAACAATCTCAAAGAAAATAAAACTTGTTTCAAGGGAAACATTCTCAAAG
1 TTGTTGTTTCATGAGAAACAATCTCAAAGAAAATAAGATTTGTTTCAAGAGAAACA-TCTCAAAG
443587 TT
65 TT
443589 ATGTGTTTCA
Statistics
Matches: 126, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
69 116 0.92
70 10 0.08
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.33
Consensus pattern (69 bp):
TTGTTGTTTCATGAGAAACAATCTCAAAGAAAATAAGATTTGTTTCAAGAGAAACATCTCAAAGT
TTGG
Found at i:443480 original size:34 final size:33
Alignment explanation
Indices: 443423--443550 Score: 141
Period size: 33 Copynumber: 3.8 Consensus size: 33
443413 AAAATACGAT
*
443423 TTGTTTCAAGAGAAACATATCAAAGTTTGGTTG
1 TTGTTTCAAGAGAAACATCTCAAAGTTTGGTTG
* * ** *
443456 TTGTTTCATGAGAAACGATCTCAAAGAAAATAAGAT-
1 TTGTTTCAAGAGAAAC-ATCTCAAAG---TTTGGTTG
443492 TTGTTTCAAGAGAAACATCTCAAAGTTTGGTTG
1 TTGTTTCAAGAGAAACATCTCAAAGTTTGGTTG
*
443525 TTGTTTCATGAGAAACAATCTCAAAG
1 TTGTTTCAAGAGAAAC-ATCTCAAAG
443551 AAAATAAAAC
Statistics
Matches: 77, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
32 3 0.04
33 30 0.39
34 17 0.22
35 9 0.12
36 15 0.19
37 3 0.04
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (33 bp):
TTGTTTCAAGAGAAACATCTCAAAGTTTGGTTG
Found at i:443576 original size:36 final size:36
Alignment explanation
Indices: 443456--443586 Score: 115
Period size: 36 Copynumber: 3.7 Consensus size: 36
443446 AGTTTGGTTG
* * * *
443456 TTGTTTCATGAGAAACGATCTCAAAGAAAATAAGAT
1 TTGTTTCAAGAGAAACAATCTCAAAGAAAATAAAAC
** *****
443492 TTGTTTCAAGAGAAAC-ATCTCAAAG--TTTGGTTG
1 TTGTTTCAAGAGAAACAATCTCAAAGAAAATAAAAC
*
443525 TTGTTTCATGAGAAACAATCTCAAAGAAAATAAAAC
1 TTGTTTCAAGAGAAACAATCTCAAAGAAAATAAAAC
* *
443561 TTGTTTCAAGGGAAACATTCTCAAAG
1 TTGTTTCAAGAGAAACAATCTCAAAG
443587 TTATGTGTTT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
33 16 0.22
34 9 0.12
35 9 0.12
36 39 0.53
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (36 bp):
TTGTTTCAAGAGAAACAATCTCAAAGAAAATAAAAC
Found at i:443626 original size:66 final size:65
Alignment explanation
Indices: 443322--443733 Score: 244
Period size: 69 Copynumber: 6.1 Consensus size: 65
443312 AAATGATGCC
* * * *
443322 TCAAGAGAAACATGTCTCAAA-AGAGACAAAA-TTCGTTTCAAGGGGAACGATCTCAAAGATATT
1 TCAAGAGAAAC-CGTCTCAAAGA-AAACAAAACTT-GTTTCAAGGGAAAC-ATCTCAAAG-T-TA
443385 TGTTGTT
60 TG-TGTT
* ** * * * ** * * * *
443392 TCATGAGAAACAATTTCAAATAAAATACGATTTGTTTCAAGAGAAACATATCAAAGTTTGGTTGT
1 TCAAGAGAAACCGTCTCAAAGAAAACAAAACTTGTTTCAAGGGAAACATCTCAAAG-TT--ATG-
443457 TGTT
62 TGTT
* * * * * *
443461 TCATGAGAAA-CGATCTCAAAGAAAATAAGATTTGTTTCAAGAGAAACATCTCAAAGTTTGGTTG
1 TCAAGAGAAACCG-TCTCAAAGAAAACAAAACTTGTTTCAAGGGAAACATCTCAAAG-TT--ATG
443525 TTGTT
62 -TGTT
* ** *
443530 TCATGAGAAACAATCTCAAAGAAAATAAAACTTGTTTCAAGGGAAACATTCTCAAAGTTATGTGT
1 TCAAGAGAAACCGTCTCAAAGAAAACAAAACTTGTTTCAAGGGAAACA-TCTCAAAGTTATGTGT
443595 T
65 T
* * **
443596 TCAAGAGAAACCGTCTC-AAGAAAGACAAAACATATTTCAAGGGAAACAATCTCAAA-TGTGGGT
1 TCAAGAGAAACCGTCTCAAAGAAA-ACAAAACTTGTTTCAAGGGAAAC-ATCTCAAAGT-TATGT
443659 GTT
63 GTT
* * * * *
443662 TCAAGGGAAACTGTCTC-AAGAGAGACAAAACTTGTTTCAAGGGGAACTGAT-TCAAAGATTTTG
1 TCAAGAGAAACCGTCTCAAAGA-AAACAAAACTTGTTTCAAGGGAAAC--ATCTCAAAG-TTATG
443725 TGTT
62 TGTT
443729 TCAAG
1 TCAAG
443734 GGAAGCGTTT
Statistics
Matches: 287, Mismatches: 41, Indels: 31
0.80 0.11 0.09
Matches are distributed among these distances:
65 7 0.02
66 95 0.33
67 18 0.06
68 10 0.03
69 136 0.47
70 21 0.07
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (65 bp):
TCAAGAGAAACCGTCTCAAAGAAAACAAAACTTGTTTCAAGGGAAACATCTCAAAGTTATGTGTT
Found at i:443805 original size:36 final size:36
Alignment explanation
Indices: 443772--443995 Score: 259
Period size: 36 Copynumber: 6.4 Consensus size: 36
443762 GAAAAACTGC
* *
443772 CTCAAGGGAGACAAAATTTGTTTCAATGGAAACTAT
1 CTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTAT
*
443808 CTCAAGAGAGACAAAATTTGTTCCAAGGGAAACTAT
1 CTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTAT
* *
443844 CTCAAGAGAGACAAAATTCGTTCCAAGGGAAACGT-T
1 CTCAAGAGAGACAAAATTTGTTTCAAGGGAAAC-TAT
* * * *
443880 TTC-A-A-AG-----TTTATGTTTCAAGAGAAACTGT
1 CTCAAGAGAGACAAAATT-TGTTTCAAGGGAAACTAT
*
443909 CTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTAT
1 CTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTAT
*
443945 CTCAAGAGAGACAAAATTCGTTTCAAGGGAAACTAT
1 CTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTAT
*
443981 CTCGAGAGAGACAAA
1 CTCAAGAGAGACAAA
443996 TCCTCTGTAT
Statistics
Matches: 160, Mismatches: 17, Indels: 22
0.80 0.09 0.11
Matches are distributed among these distances:
28 3 0.02
29 15 0.09
30 1 0.01
32 2 0.01
33 2 0.01
34 1 0.01
35 1 0.01
36 132 0.82
37 3 0.02
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.24
Consensus pattern (36 bp):
CTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTAT
Found at i:443913 original size:137 final size:137
Alignment explanation
Indices: 443730--443995 Score: 460
Period size: 137 Copynumber: 1.9 Consensus size: 137
443720 TTTTGTGTTT
*
443730 CAAGGGAAGCGTTTTCAAAGTTTATATTTCAAGAAAAACTGCCTCAAGGGAGACAAAATTTGTTT
1 CAAGGGAAACGTTTTCAAAGTTTATATTTCAAGAAAAACTGCCTCAAGGGAGACAAAATTTGTTT
* *
443795 CAATGGAAACTATCTCAAGAGAGACAAAATTTGTTCCAAGGGAAACTATCTCAAGAGAGACAAAA
66 CAAGGGAAACTATCTCAAGAGAGACAAAATTCGTTCCAAGGGAAACTATCTCAAGAGAGACAAAA
443860 TTCGTTC
131 TTCGTTC
* * *
443867 CAAGGGAAACGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTT
1 CAAGGGAAACGTTTTCAAAGTTTATATTTCAAGAAAAACTGCCTCAAGGGAGACAAAATTTGTTT
* *
443932 CAAGGGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACTATCTCGAGAGAGACAAA
66 CAAGGGAAACTATCTCAAGAGAGACAAAATTCGTTCCAAGGGAAACTATCTCAAGAGAGACAAA
443996 TCCTCTGTAT
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 121 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.25
Consensus pattern (137 bp):
CAAGGGAAACGTTTTCAAAGTTTATATTTCAAGAAAAACTGCCTCAAGGGAGACAAAATTTGTTT
CAAGGGAAACTATCTCAAGAGAGACAAAATTCGTTCCAAGGGAAACTATCTCAAGAGAGACAAAA
TTCGTTC
Found at i:443920 original size:101 final size:101
Alignment explanation
Indices: 443790--443977 Score: 324
Period size: 101 Copynumber: 1.9 Consensus size: 101
443780 AGACAAAATT
443790 TGTTTCAATGGAAACTATCTCAAGAGAGACAAAATTTGTTCCAAGGGAAACTATCTCAAGAGAGA
1 TGTTTCAATGGAAACTATCTCAAGAGAGACAAAATTTGTTCCAAGGGAAACTATCTCAAGAGAGA
443855 CAAAATTCGTTCCAAGGGAAACGTTTTCAAAGTTTA
66 CAAAATTCGTTCCAAGGGAAACGTTTTCAAAGTTTA
* * *
443891 TGTTTCAA-GAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAATG-GAAACTATCTCAAGAGAGACAAAATTTGTTCCAAGGGAAACTATCTCAAGAGAG
*
443955 ACAAAATTCGTTTCAAGGGAAAC
65 ACAAAATTCGTTCCAAGGGAAAC
443978 TATCTCGAGA
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
100 1 0.01
101 81 0.99
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (101 bp):
TGTTTCAATGGAAACTATCTCAAGAGAGACAAAATTTGTTCCAAGGGAAACTATCTCAAGAGAGA
CAAAATTCGTTCCAAGGGAAACGTTTTCAAAGTTTA
Found at i:444340 original size:121 final size:121
Alignment explanation
Indices: 444124--444351 Score: 314
Period size: 121 Copynumber: 1.9 Consensus size: 121
444114 CTCCTCGTTC
* * * * *** *
444124 TTGCTAGTGGACACGATATTCTTCGTTGTGAAGTTGAAATTGTGGATGGTTCCTTCATTCTGAAG
1 TTGCTAGTGGACACGATATCCTTCATCGTGAAGTTGAAATCGTGGATGACCCCTTCAGTCTGAAG
* * *
444189 TTGAGCTTTAAAGTGGATATCCTTCTTTGTGAAGTTGAAATCCAAGGGTTGTATTG
66 TTGAGCCTCAAAGTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGGGTTGTATTG
*
444245 TTGCTAGTGGACATGATATCCTTCATCGTGAAGTTGAAATCGTGGATGACCCCTTC-GTCGTGAA
1 TTGCTAGTGGACACGATATCCTTCATCGTGAAGTTGAAATCGTGGATGACCCCTTCAGTC-TGAA
* *
444309 GTTGGGCCTCAAATTGGATATCCTTCGTTGTGAAGTTGAAATC
65 GTTGAGCCTCAAAGTGGATATCCTTCGTTGTGAAGTTGAAATC
444352 TAATCTAAAT
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
120 2 0.02
121 90 0.98
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.36
Consensus pattern (121 bp):
TTGCTAGTGGACACGATATCCTTCATCGTGAAGTTGAAATCGTGGATGACCCCTTCAGTCTGAAG
TTGAGCCTCAAAGTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGGGTTGTATTG
Found at i:444455 original size:179 final size:179
Alignment explanation
Indices: 444204--444536 Score: 504
Period size: 179 Copynumber: 1.9 Consensus size: 179
444194 CTTTAAAGTG
* * * * ** * *
444204 GATATCCTTCTTTGTGAAGTTGAAATCCAAGGGTTGTATTGTTGCTAGTGGACATGATATCCTTC
1 GATATCCTTCATCGTGAAGTTAAAATCCAAGGGTTGCATTACTGCTAGTGAACACGATATCCTTC
* *
444269 ATCGTGAAGTTGAAATCGTGGATGACCCCTTCGTCGTGAAGTTGGGCCTCAAATTGGATATCCTT
66 ATCGTGAAGTTGAAATCGTGGATGACCCCTTCATCGTGAAGTTGAGCCTCAAATTGGATATCCTT
* *
444334 CGTTGTGAAGTTGAAATCTAATCTAAATATGAATGTTGTTGGTGGATAC
131 CGTCGTAAAGTTGAAATCTAATCTAAATATGAATGTTGTTGGTGGATAC
* *
444383 GATATCCTTCATCGTGAAGTTAAAATTCAAGGGTTGCATTACTGCTTGTGAACACGATATCCTTC
1 GATATCCTTCATCGTGAAGTTAAAATCCAAGGGTTGCATTACTGCTAGTGAACACGATATCCTTC
* * **
444448 GTCGTGAAGTTGAAATCGTGGATGGCCCCTTCATCGTGAAGTTGAGCCTTGAATTGGATATCCTT
66 ATCGTGAAGTTGAAATCGTGGATGACCCCTTCATCGTGAAGTTGAGCCTCAAATTGGATATCCTT
444513 CGTCGTAAAGTTGAAATCTAATCT
131 CGTCGTAAAGTTGAAATCTAATCT
444537 TGAGATAAAT
Statistics
Matches: 136, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
179 136 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (179 bp):
GATATCCTTCATCGTGAAGTTAAAATCCAAGGGTTGCATTACTGCTAGTGAACACGATATCCTTC
ATCGTGAAGTTGAAATCGTGGATGACCCCTTCATCGTGAAGTTGAGCCTCAAATTGGATATCCTT
CGTCGTAAAGTTGAAATCTAATCTAAATATGAATGTTGTTGGTGGATAC
Found at i:444593 original size:117 final size:117
Alignment explanation
Indices: 444436--444657 Score: 417
Period size: 117 Copynumber: 1.9 Consensus size: 117
444426 GCTTGTGAAC
444436 ACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCATCGTGAAGTTGAGCCTTGAA
1 ACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCATCGTGAAGTTGAGCCTTGAA
*
444501 TTGGATATCCTTCGTCGTAAAGTTGAAATCTAATCTTGAGATAAATGTGGGT
66 TTGGATATCCTTCGTCGTAAAGTTGAAATCCAATCTTGAGATAAATGTGGGT
*
444553 ACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTGAA
1 ACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCATCGTGAAGTTGAGCCTTGAA
*
444618 TTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTTGAG
66 TTGGATATCCTTCGTCGTAAAGTTGAAATCCAATCTTGAG
444658 TAAGTTGCTT
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 102 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (117 bp):
ACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCATCGTGAAGTTGAGCCTTGAA
TTGGATATCCTTCGTCGTAAAGTTGAAATCCAATCTTGAGATAAATGTGGGT
Found at i:445085 original size:32 final size:31
Alignment explanation
Indices: 445010--445097 Score: 95
Period size: 32 Copynumber: 2.7 Consensus size: 31
445000 TTTGCATCAG
* * *
445010 GATGTTAAATCCCCAAAGATGCCCCAATATTC
1 GATGTTAAAT-CTCAAATATGCCCCAACATTC
* *
445042 GATGTTAAATCTCAAAATATGCCTCAACATTT
1 GATGTTAAATCTC-AAATATGCCCCAACATTC
*
445074 GATGTTGAATCTTCAAATATGCCC
1 GATGTTAAATC-TCAAATATGCCC
445098 TCTATTGCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 2 0.04
32 43 0.91
33 2 0.04
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (31 bp):
GATGTTAAATCTCAAATATGCCCCAACATTC
Found at i:446135 original size:12 final size:11
Alignment explanation
Indices: 446112--446161 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
446102 TTCTCGTCCC
*
446112 TTTTTTTGCTT
1 TTTTTTTTCTT
446123 TTTCTTTTTCTT
1 TTT-TTTTTCTT
446135 TTTTTTTAT-TT
1 TTTTTTT-TCTT
*
446146 TTTTGTTTCTT
1 TTTTTTTTCTT
446157 TTTTT
1 TTTTT
446162 AATTGGATCC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 1 0.03
11 21 0.64
12 11 0.33
ACGTcount: A:0.02, C:0.08, G:0.04, T:0.86
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:446137 original size:22 final size:22
Alignment explanation
Indices: 446112--446161 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
446102 TTCTCGTCCC
*
446112 TTTTTTTGCTTTTTCTT-TTTCT
1 TTTTTTTGATTTTT-TTGTTTCT
*
446134 TTTTTTTTATTTTTTTGTTTCT
1 TTTTTTTGATTTTTTTGTTTCT
446156 TTTTTT
1 TTTTTT
446162 AATTGGATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.02, C:0.08, G:0.04, T:0.86
Consensus pattern (22 bp):
TTTTTTTGATTTTTTTGTTTCT
Found at i:448449 original size:32 final size:32
Alignment explanation
Indices: 448396--448471 Score: 107
Period size: 32 Copynumber: 2.3 Consensus size: 32
448386 AAAATTCATG
* * *
448396 TTCGGGTCAGGTTGGGTTTTTTTAAGTTTGATA
1 TTCGGGTC-GGGTCGGTTTTTTTAAGTGTGATA
448429 TTCGGGTCGGGTCGGTTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGTTTTTTTAAGTGTGATA
*
448461 TTCCGGTCGGG
1 TTCGGGTCGGG
448472 GTCGAGTCGG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 31 0.79
33 8 0.21
ACGTcount: A:0.12, C:0.11, G:0.34, T:0.43
Consensus pattern (32 bp):
TTCGGGTCGGGTCGGTTTTTTTAAGTGTGATA
Found at i:448531 original size:32 final size:32
Alignment explanation
Indices: 448478--448612 Score: 172
Period size: 32 Copynumber: 4.3 Consensus size: 32
448468 CGGGGTCGAG
*
448478 TCGGGTCGGGTC-GGTTTTTTAAGTTTGATAT
1 TCGGGTCGGGTCGGGTTTTTTAAGTGTGATAT
448509 TCGGGTCGGGTCGGGTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTCGGGTTTTTTAAGTGTGATAT
* * *
448541 TCGGGTC--G--AGATTTTTTAAGCGTGATAT
1 TCGGGTCGGGTCGGGTTTTTTAAGTGTGATAT
448569 TCGGGTCGGGTCGGGTTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTCGGG-TTTTTTAAGTGTGATAT
* *
448602 TCAGTTCGGGT
1 TCGGGTCGGGT
448613 TTAGGGTGAA
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
28 24 0.27
30 2 0.02
31 12 0.13
32 26 0.29
33 25 0.28
ACGTcount: A:0.14, C:0.10, G:0.34, T:0.41
Consensus pattern (32 bp):
TCGGGTCGGGTCGGGTTTTTTAAGTGTGATAT
Found at i:448565 original size:28 final size:27
Alignment explanation
Indices: 448514--448577 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 27
448504 GATATTCGGG
* *
448514 TCGGGTCGGGTTTTTTAAGTGTGATAT
1 TCGGGTCGGATTTTTTAAGCGTGATAT
448541 TCGGGTCGAGATTTTTTAAGCGTGATAT
1 TCGGGTCG-GATTTTTTAAGCGTGATAT
448569 TCGGGTCGG
1 TCGGGTCGG
448578 GTCGGGTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 9 0.26
28 25 0.74
ACGTcount: A:0.16, C:0.11, G:0.34, T:0.39
Consensus pattern (27 bp):
TCGGGTCGGATTTTTTAAGCGTGATAT
Found at i:448574 original size:60 final size:59
Alignment explanation
Indices: 448483--448603 Score: 199
Period size: 60 Copynumber: 2.0 Consensus size: 59
448473 TCGAGTCGGG
**
448483 TCGGGTCGGTTTTTTAAGTTTGATATTCGGGTCGGGTCGGG-TTTTTTAAGTGTGATAT
1 TCGGGTCGGTTTTTTAAGCGTGATATTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATAT
448541 TCGGGTCGAGATTTTTTAAGCGTGATATTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATAT
1 TCGGGTCG-G-TTTTTTAAGCGTGATATTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATAT
448602 TC
1 TC
448604 AGTTCGGGTT
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
58 8 0.14
59 1 0.02
60 30 0.52
61 19 0.33
ACGTcount: A:0.15, C:0.10, G:0.32, T:0.43
Consensus pattern (59 bp):
TCGGGTCGGTTTTTTAAGCGTGATATTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATAT
Found at i:450912 original size:27 final size:25
Alignment explanation
Indices: 450858--450917 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 25
450848 GAATCATTGG
* * *
450858 AACCAAAATAAAAGACGCATTGAGC
1 AACCAAAACAAAAGACGCATCGAAC
450883 AACCAAGAACAAAGAGACGCATCGAAC
1 AACCAA-AACAAA-AGACGCATCGAAC
450910 AACCAAAA
1 AACCAAAA
450918 ATAAAAACGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 6 0.20
26 7 0.23
27 17 0.57
ACGTcount: A:0.55, C:0.23, G:0.15, T:0.07
Consensus pattern (25 bp):
AACCAAAACAAAAGACGCATCGAAC
Found at i:451431 original size:27 final size:25
Alignment explanation
Indices: 451377--451436 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 25
451367 GAATCATTGG
* * *
451377 AACCAAAATAAAAGACGCATTGAGC
1 AACCAAAACAAAAGACGCATCGAAC
451402 AACCAAGAACAAAGAGACGCATCGAAC
1 AACCAA-AACAAA-AGACGCATCGAAC
451429 AACCAAAA
1 AACCAAAA
451437 ATAAAAACGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 6 0.20
26 7 0.23
27 17 0.57
ACGTcount: A:0.55, C:0.23, G:0.15, T:0.07
Consensus pattern (25 bp):
AACCAAAACAAAAGACGCATCGAAC
Found at i:451618 original size:519 final size:519
Alignment explanation
Indices: 450638--451678 Score: 2057
Period size: 519 Copynumber: 2.0 Consensus size: 519
450628 GCCCAGTCTC
450638 TCTCTCTCTCTCTCTCTCTACTAACCAACAAGAAAAGAGTGTAACAGTAATAAATGTTTTTTTTT
1 TCTCTCTCTCTCTCTCTCTACTAACCAACAAGAAAAGAGTGTAACAGTAATAAATG-TTTTTTTT
450703 TTATTTTCATTTGAATATTAGAAGTTAAACTTATTAAGCACTGCAAATTCAGTCCTTAAAGTTCC
65 TTATTTTCATTTGAATATTAGAAGTTAAACTTATTAAGCACTGCAAATTCAGTCCTTAAAGTTCC
450768 TCCTTGCCAAAATAAAACAAGTGGCAAATAATGCTTCAATCAAGGGAATTTAGAATACACTGTGT
130 TCCTTGCCAAAATAAAACAAGTGGCAAATAATGCTTCAATCAAGGGAATTTAGAATACACTGTGT
450833 TAAAAAAATGGATAAGAATCATTGGAACCAAAATAAAAGACGCATTGAGCAACCAAGAACAAAGA
195 TAAAAAAATGGATAAGAATCATTGGAACCAAAATAAAAGACGCATTGAGCAACCAAGAACAAAGA
450898 GACGCATCGAACAACCAAAAATAAAAACGAATTTTGCTGGTAATCAACATGCACAACCACCTCTT
260 GACGCATCGAACAACCAAAAATAAAAACGAATTTTGCTGGTAATCAACATGCACAACCACCTCTT
450963 TGTTCTGTCTCGGTCACAGCCTCTGGGATGCCCTGGAAATATCTGCAATCATACACAAATGAGAT
325 TGTTCTGTCTCGGTCACAGCCTCTGGGATGCCCTGGAAATATCTGCAATCATACACAAATGAGAT
451028 GTCAGTTATAAAGAGACATAAATTGCGTAGCCTCCCCGTCAATCTTAAAATGTTAAAACCATCTA
390 GTCAGTTATAAAGAGACATAAATTGCGTAGCCTCCCCGTCAATCTTAAAATGTTAAAACCATCTA
451093 CACAAGAAATAGGTAGACACATAGACCCAGTAATTTTTTAAGGTGAAAGTGGAAGAAGAAACTGT
455 CACAAGAAATAGGTAGACACATAGACCCAGTAATTTTTTAAGGTGAAAGTGGAAGAAGAAACTGT
451158 TCTCTCTCTCTCTCTCTCTACTAACCAACAAGAAAAGAGTGTAACAGTAATAAATG-TTTTTTTT
1 TCTCTCTCTCTCTCTCTCTACTAACCAACAAGAAAAGAGTGTAACAGTAATAAATGTTTTTTTTT
451222 TATTTTCATTTGAATATTAGAAGTTAAACTTATTAAGCACTGCAAATTCAGTCCTTAAAGTTCCT
66 TATTTTCATTTGAATATTAGAAGTTAAACTTATTAAGCACTGCAAATTCAGTCCTTAAAGTTCCT
451287 CCTTGCCAAAATAAAACAAGTGGCAAATAATGCTTCAATCAAGGGAATTTAGAATACACTGTGTT
131 CCTTGCCAAAATAAAACAAGTGGCAAATAATGCTTCAATCAAGGGAATTTAGAATACACTGTGTT
451352 AAAAAAAATGGATAAGAATCATTGGAACCAAAATAAAAGACGCATTGAGCAACCAAGAACAAAGA
196 -AAAAAAATGGATAAGAATCATTGGAACCAAAATAAAAGACGCATTGAGCAACCAAGAACAAAGA
451417 GACGCATCGAACAACCAAAAATAAAAACGAATTTTGCTGGTAATCAACATGCACAACCACCTCTT
260 GACGCATCGAACAACCAAAAATAAAAACGAATTTTGCTGGTAATCAACATGCACAACCACCTCTT
451482 TGTTCTGTCTCGGTCACAGCCTCTGGGATGCCCTGGAAATATCTGCAATCATACACAAATGAGAT
325 TGTTCTGTCTCGGTCACAGCCTCTGGGATGCCCTGGAAATATCTGCAATCATACACAAATGAGAT
451547 GTCAGTTATAAAGAGACATAAATTGCGTAGCCTCCCCGTCAATCTTAAAATGTTAAAACCATCTA
390 GTCAGTTATAAAGAGACATAAATTGCGTAGCCTCCCCGTCAATCTTAAAATGTTAAAACCATCTA
451612 CACAAGAAATAGGTAGACACATAGACCCAGTAATTTTTTAAGGTGAAAGTGGAAGAAGAAACTGT
455 CACAAGAAATAGGTAGACACATAGACCCAGTAATTTTTTAAGGTGAAAGTGGAAGAAGAAACTGT
451677 TC
1 TC
451679 ATTCTGCATA
Statistics
Matches: 520, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
518 138 0.27
519 326 0.63
520 56 0.11
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (519 bp):
TCTCTCTCTCTCTCTCTCTACTAACCAACAAGAAAAGAGTGTAACAGTAATAAATGTTTTTTTTT
TATTTTCATTTGAATATTAGAAGTTAAACTTATTAAGCACTGCAAATTCAGTCCTTAAAGTTCCT
CCTTGCCAAAATAAAACAAGTGGCAAATAATGCTTCAATCAAGGGAATTTAGAATACACTGTGTT
AAAAAAATGGATAAGAATCATTGGAACCAAAATAAAAGACGCATTGAGCAACCAAGAACAAAGAG
ACGCATCGAACAACCAAAAATAAAAACGAATTTTGCTGGTAATCAACATGCACAACCACCTCTTT
GTTCTGTCTCGGTCACAGCCTCTGGGATGCCCTGGAAATATCTGCAATCATACACAAATGAGATG
TCAGTTATAAAGAGACATAAATTGCGTAGCCTCCCCGTCAATCTTAAAATGTTAAAACCATCTAC
ACAAGAAATAGGTAGACACATAGACCCAGTAATTTTTTAAGGTGAAAGTGGAAGAAGAAACTGT
Found at i:455982 original size:4 final size:4
Alignment explanation
Indices: 455973--455999 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
455963 CAATACATGT
455973 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
456000 CATATTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:457105 original size:30 final size:30
Alignment explanation
Indices: 457069--457125 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
457059 CAGCATAGCA
457069 AATTCAGTAAGAGACCAGTAAGGCAAAATC
1 AATTCAGTAAGAGACCAGTAAGGCAAAATC
457099 AATTCAGTAAGAGACCAGTAAGGCAAA
1 AATTCAGTAAGAGACCAGTAAGGCAAA
457126 TGCACAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.16
Consensus pattern (30 bp):
AATTCAGTAAGAGACCAGTAAGGCAAAATC
Found at i:458255 original size:16 final size:17
Alignment explanation
Indices: 458234--458266 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
458224 ACACACTAAA
458234 TCGG-TTTCGAATTTTT
1 TCGGTTTTCGAATTTTT
*
458250 TCGGTTTTCGGATTTTT
1 TCGGTTTTCGAATTTTT
458267 GGATCGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.58
Consensus pattern (17 bp):
TCGGTTTTCGAATTTTT
Found at i:460981 original size:16 final size:17
Alignment explanation
Indices: 460960--460992 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
460950 ACACACTAAA
460960 TCGG-TTTCGAATTTTT
1 TCGGTTTTCGAATTTTT
*
460976 TCGGTTTTCGGATTTTT
1 TCGGTTTTCGAATTTTT
460993 GGATCGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.58
Consensus pattern (17 bp):
TCGGTTTTCGAATTTTT
Found at i:461157 original size:908 final size:912
Alignment explanation
Indices: 458094--461741 Score: 6472
Period size: 908 Copynumber: 4.0 Consensus size: 912
458084 TTAGGGTTTC
458094 AGTTTTTACACAAAACTTGAAACGGTGTCGCATAGAGATAGCTAATACTATCGGTTCGGTTTGGA
1 AGTTTTTACACAAAACTTGAAACGGTGTCGCATAGAGATAGCTAATACTATCGGTTCGGTTTGGA
458159 TCGGTTCTGGATTTTCAAACCGAAACCGAACCGAACCGATCGGTTTTTTTTTAAAAAAAAACCAA
66 TCGGTTCTGGATTTTCAAACCGAAACCGAACCGAACCGATCGG-TTTTTTTTAAAAAAAAACCAA
458224 ACACACTAAATCGGTTTCGAATTTTTTCGGTTTTCGGATTTTTGGATCGGTTTTCGTTTATTTTT
130 ACACACTAAATCGGTTTCGAATTTTTTCGGTTTTCGGATTTTTGGATCGGTTTTCGTTTATTTTT
458289 TTGGATCGGATTGGATTTGAACACTCTTACATAACATATTATTTTTGACATTTTTACAACTAAGC
195 TTGGATCGGATTGGATTTGAACACTCTTACATAACATATTATTTTTGACATTTTTACAACTAAGC
458354 TGAAGTTAAAGAGGCATAAAAACAACTTAAAGTGGATCATATCATACAAAAGGACAAATAAAACA
260 TGAAGTTAAAGAGGCATAAAAACAACTTAAAGTGGATCATATCATACAAAAGGACAAATAAAACA
458419 TTGTTCACTGAACAACTAATACGGACAAGAAAAATGAAAGAACAGAGGAAGGGGCAAAGGAAACC
325 TTGTTCACTGAACAACTAATACGGACAAGAAAAATGAAAGAACAGAGGAAGGGGCAAAGGAAACC
458484 TTTTTAAGAAACTCCTCGTGCCAATTATCAAGCGTATCAAATGATTTCATAACATTAACATCGTA
390 TTTTTAAGAAACTCCTCGTGCCAATTATCAAGCGTATCAAATGATTTCATAACATTAACATCGTA
458549 AACTAACACACAGCAATCGGCACCCCTATAGAAGGCAACTCTGAGACTCTGAAATCGCTCCTGTC
455 AACTAACACACAGCAATCGGCACCCCTATAGAAGGCAACTCTGAGACTCTGAAATCGCTCCTGTC
458614 CTGCGGTATCCCATATCTATCCAATGCAATTCACACCACACCACCACACACCGCAAAAACAACAA
520 CTGCGGTATCCCATATCTATCCAATGCAATTCACACCACACCACCACACACCGC-AAAA-AACAA
458679 CAACAACAACAACAAAACCCTTTCCCATATGCAATGGGGTAAGGAGGAGGTAGGTTAGTAGGCTG
583 CAACAACAACAACAAAACCCTTTCCCATATGCAATGGGGTAAGGAGGAGGTAGGTTAGTAGGCTG
458744 CCCCCAACACCAGGTTGAGAGCAGCTTCCGTGGAAGACCTCCGGCAATTCAGAAAATTAAAAAAA
648 CCCCCAACACCAGGTTGAGAGCAGCTTCCGTGGAAGACCTCCGGCAATTCAGAAAATTAAAAAAA
* *
458809 ATACAAATTAAATACAATGCATGTATAAATAAATACATAGTTGAACAGTCTTTATATGCAATCAT
713 ATACAAATTAAATACAATGCATGTATAAATAAATACATAGTTGAACAGTCTTCATATGCAGTCAT
* *
458874 TCATATGCGCGTCTGTAATGGGAACTAATCCCTGTAAATAAACACTGCCTAAAAATCTCTGCATA
778 TCATATGCGCGTCTGTAAT--G-A-GAA--CC-GTAAAT--ACCCTGCCTAAAAATCTCTGCATA
*
458939 TAGACAGAAAACGTAAGTCTTTGATTAATTTAAAAAGAGGAAACATGATGAGAAAGATACACGCA
834 TAGACAGAAAACGTAAGTCTTGGATTAATTTAAAAAGAGGAAACATGATGAGAAAGATACACGCA
459004 TGTCAGCGCTAGCA
899 TGTCAGCGCTAGCA
459018 AGTTTTTACACAAAACTTGAAACGGTGTCGCATAGAGATAGCTAATACTATCGGTTCGGTTTGGA
1 AGTTTTTACACAAAACTTGAAACGGTGTCGCATAGAGATAGCTAATACTATCGGTTCGGTTTGGA
*
459083 TCGGTTCTGGATTTTCAAACCGAAACCGAACCGAACCGATC-GTTTTTTTTATAAAAAAAAACAA
66 TCGGTTCTGGATTTTCAAACCGAAACCGAACCGAACCGATCGGTTTTTTTTA-AAAAAAAACCAA
*
459147 ACACACTAAATCGGTTTCGAATTTTTTCGGTTTTCAGATTTTTGGATCGGTTTTCGTTTA-TTTT
130 ACACACTAAATCGGTTTCGAATTTTTTCGGTTTTCGGATTTTTGGATCGGTTTTCGTTTATTTTT
459211 TTGGATCGGATTGGATTTGAACACTCTTACATAACATATTATTTTTGACATTTTTACAACTAAGC
195 TTGGATCGGATTGGATTTGAACACTCTTACATAACATATTATTTTTGACATTTTTACAACTAAGC
459276 TGAAGTTAAAGAGGCATAAAAACAACTTAAAGTGGATCATATCATACAAAAGGACAAATAAAACA
260 TGAAGTTAAAGAGGCATAAAAACAACTTAAAGTGGATCATATCATACAAAAGGACAAATAAAACA
* *
459341 TTGTTCACTGAACAATTAATACGGACAAGAAAAATGAAAGAACAAAGGAAGGGGCAAAGGAAACC
325 TTGTTCACTGAACAACTAATACGGACAAGAAAAATGAAAGAACAGAGGAAGGGGCAAAGGAAACC
*
459406 TTTTTAAGAAACTCCTCGTGCCAATTATCAAGCGTATCAAATGATTTCAAAACATTAACATCGTA
390 TTTTTAAGAAACTCCTCGTGCCAATTATCAAGCGTATCAAATGATTTCATAACATTAACATCGTA
* * *
459471 AACTAACACACAACAATCGTCACCCCTATAGAAGG-----C--A-ACTCTGAAATCGCTCTTGTC
455 AACTAACACACAGCAATCGGCACCCCTATAGAAGGCAACTCTGAGACTCTGAAATCGCTCCTGTC
459528 CTGCGGTATCCCATATCTATCCAATGCAATTCACACCACACCACCACACACCGC-AAAAACAACA
520 CTGCGGTATCCCATATCTATCCAATGCAATTCACACCACACCACCACACACCGCAAAAAACAACA
459592 ACAACAACAACAAAACCCTTTCCCATATGCAATGGGGTAAGGAGGAGGTAGGTTAGTAGGCTGCC
585 ACAACAACAACAAAACCCTTTCCCATATGCAATGGGGTAAGGAGGAGGTAGGTTAGTAGGCTGCC
*
459657 CCCAACACCAGGTTGAGAGCAGCTTCCGTGGAAGACCTCCGGCAATTCATAAAATTAAAAAAAAA
650 CCCAACACCAGGTTGAGAGCAGCTTCCGTGGAAGACCTCCGGCAATTCAGAAAATT-AAAAAAAA
459722 TACAAATTAAATACAATGCATGTATAAATAAATACATAGTTGAACAGTCTTCATATGCAGTCATT
714 TACAAATTAAATACAATGCATGTATAAATAAATACATAGTTGAACAGTCTTCATATGCAGTCATT
*
459787 CATATGCGCGTCTGTAATGGGAACTAATCCCTGTAAATAAACCCTGCCTAAAAATCTCTGCATAT
779 CATATGCGCGTCTGTAAT--G-A-GAA--CC-GTAAAT--ACCCTGCCTAAAAATCTCTGCATAT
*
459852 AGACAGAAAACGTAAGTCTTGGATTAATTTAAAAAGAGGAAACATGATGAGAAATATACACGCAT
835 AGACAGAAAACGTAAGTCTTGGATTAATTTAAAAAGAGGAAACATGATGAGAAAGATACACGCAT
459917 GTCAGCGCTAGCA
900 GTCAGCGCTAGCA
459930 AGTTTTTACACAAAACTTGAAACGGTGTCGCATAGAGATAGCTAATACTA-----TCGG--T---
1 AGTTTTTACACAAAACTTGAAACGGTGTCGCATAGAGATAGCTAATACTATCGGTTCGGTTTGGA
459985 TCGGTTCTGGATTTTCAAACCGAAACCGAACCGAACCGATCGGTTTTTTTTAAAAAAAAA-CAAA
66 TCGGTTCTGGATTTTCAAACCGAAACCGAACCGAACCGATCGGTTTTTTTTAAAAAAAAACCAAA
*
460049 CAAACTAAATCGGTTTCGAA----TT---TTTTCGGATTTTTGGATCGGTTTTCGTTTATTTTTT
131 CACACTAAATCGGTTTCGAATTTTTTCGGTTTTCGGATTTTTGGATCGGTTTTCGTTTATTTTTT
*
460107 TGGATCAGATTGGATTTGAACACTCTTACATAACATATTATTTTTGACATTTTTACAACTAAGCT
196 TGGATCGGATTGGATTTGAACACTCTTACATAACATATTATTTTTGACATTTTTACAACTAAGCT
* *
460172 GAAGTTAAAGAGGCATAAAAATAACTTAAAGTGGATCATATCATACAAAATGACAAATAAAACAT
261 GAAGTTAAAGAGGCATAAAAACAACTTAAAGTGGATCATATCATACAAAAGGACAAATAAAACAT
460237 TGTTCACTGAACAACTAATACGGACAAGAAAAATGAAAGAACAGAGGAAGGGGCAAAGGAAACCT
326 TGTTCACTGAACAACTAATACGGACAAGAAAAATGAAAGAACAGAGGAAGGGGCAAAGGAAACCT
460302 TTTTAAGAAACTCCTCGTGCCAATTATCAAGCGTATCAAATGATTTCATAACATTAACATCGTAA
391 TTTTAAGAAACTCCTCGTGCCAATTATCAAGCGTATCAAATGATTTCATAACATTAACATCGTAA
460367 ACTAACACACAGCAATCGGCACCCCTATAGAAGGCAACTCTGAGACTCTGAAATCGCTCCTGTCC
456 ACTAACACACAGCAATCGGCACCCCTATAGAAGGCAACTCTGAGACTCTGAAATCGCTCCTGTCC
460432 TGCGGTATCCCATATCTATCCAATGCAATTCACACCACACCACCACACACCGCAAAAACAACAAC
521 TGCGGTATCCCATATCTATCCAATGCAATTCACACCACACCACCACACACCGC-AAAA-AACAAC
* *
460497 AACAACAACAACAAAAACCTTTCCCATATACAATGGGGTAAGGAGGAGGTAGGTTAGTAGGCTGC
584 AACAACAACAACAAAACCCTTTCCCATATGCAATGGGGTAAGGAGGAGGTAGGTTAGTAGGCTGC
*
460562 CCCCAACACCAGGTTGAGAGCAGCTTCCGTGGAAGACCTCCGGCAATTCATAAAATTAAAAAAAA
649 CCCCAACACCAGGTTGAGAGCAGCTTCCGTGGAAGACCTCCGGCAATTCAGAAAATTAAAAAAAA
460627 TACAAATTAAATACAATGCATGTATAAATAAATACATAGTTGAACAGTCTTCATATGCAGTCATT
714 TACAAATTAAATACAATGCATGTATAAATAAATACATAGTTGAACAGTCTTCATATGCAGTCATT
*
460692 CATATGCGCGTCTGTAATGAGAA-C-T-AAT-CCCTGCCTAAAAATCTCTGTATATAGACAGAAA
779 CATATGCGCGTCTGTAATGAGAACCGTAAATACCCTGCCTAAAAATCTCTGCATATAGACAGAAA
*
460753 ACGTAAGTCTTTGATTAATTTAAAAAGAGGAAACATGATGAGAAAGATACACGCATGTCAGCGCT
844 ACGTAAGTCTTGGATTAATTTAAAAAGAGGAAACATGATGAGAAAGATACACGCATGTCAGCGCT
460818 AGCA
909 AGCA
460822 AGTTTTTACACAAAACTTGAAACGGTGTCGCATAGAGATAGCTAATACTATCGGTTCGGTTTGGA
1 AGTTTTTACACAAAACTTGAAACGGTGTCGCATAGAGATAGCTAATACTATCGGTTCGGTTTGGA
460887 TCGGTTCTGGATTTTCAAACCGAAACCGAACCGAACCGATCGG-TTTTTTTAAAAAAAAACCAAA
66 TCGGTTCTGGATTTTCAAACCGAAACCGAACCGAACCGATCGGTTTTTTTTAAAAAAAAACCAAA
460951 CACACTAAATCGGTTTCGAATTTTTTCGGTTTTCGGATTTTTGGATCGGTTTTCGTTTA-TTTTT
131 CACACTAAATCGGTTTCGAATTTTTTCGGTTTTCGGATTTTTGGATCGGTTTTCGTTTATTTTTT
461015 TGGATCGGATTGGATTTGAACACTCTTACATAACATATTATTTTTGACATTTTTACAACTAAGCT
196 TGGATCGGATTGGATTTGAACACTCTTACATAACATATTATTTTTGACATTTTTACAACTAAGCT
461080 GAAGTTAAAGAGGCATAAAAACAACTTAAAGTGGATCATATCATACAAAAGGACAAATAAAACAT
261 GAAGTTAAAGAGGCATAAAAACAACTTAAAGTGGATCATATCATACAAAAGGACAAATAAAACAT
*
461145 TATTCACTGAACAACTAATACGGACAAGAAAAATGAAAGAACAGAGGAAGGGGCAAAGGAAACCT
326 TGTTCACTGAACAACTAATACGGACAAGAAAAATGAAAGAACAGAGGAAGGGGCAAAGGAAACCT
461210 TTTTAAGAAACTCCTCGTGCCAATTATCAAGCGTATCAAATGATTTCATAACATTAACATCGTAA
391 TTTTAAGAAACTCCTCGTGCCAATTATCAAGCGTATCAAATGATTTCATAACATTAACATCGTAA
461275 ACTAACACACAGCAATCGGCACCCCTATAGAAGGCAACTCTGAGACTCTGAAATCGCTCCTGTCC
456 ACTAACACACAGCAATCGGCACCCCTATAGAAGGCAACTCTGAGACTCTGAAATCGCTCCTGTCC
461340 TGCGGTATCCCATATCTATCCAATGCAATTCACA-C-CA-CACCACACACCGCAAAAAACAACAA
521 TGCGGTATCCCATATCTATCCAATGCAATTCACACCACACCACCACACACCGCAAAAAACAACAA
461402 CAACAACAACAAAACCCTTTCCCATATGCAATGGGGTAAGGAGGAGGTAGGTTAGTAGGCTGCCC
586 CAACAACAACAAAACCCTTTCCCATATGCAATGGGGTAAGGAGGAGGTAGGTTAGTAGGCTGCCC
*
461467 CCAACACCAGGTTGAGAGCAGCTTCCATGGAAGACCTCCGGCAATTCAGAAAATTAAAAAAAATA
651 CCAACACCAGGTTGAGAGCAGCTTCCGTGGAAGACCTCCGGCAATTCAGAAAATTAAAAAAAATA
*
461532 CAAATTAAATACAATGCATGTATAAATAAATACATAGTTGAACAGTCTTCATATGCAGCCATTCA
716 CAAATTAAATACAATGCATGTATAAATAAATACATAGTTGAACAGTCTTCATATGCAGTCATTCA
461597 TATGCGCGTCTGTAATGAGAACTAATCCCTGTAAATAAACCCTGCCTAAAAATCTCTGCATATAG
781 TATGCGCGTCTGTAATGAG----AA--CC-GTAAAT--ACCCTGCCTAAAAATCTCTGCATATAG
461662 ACAGAAAACGTAAGTCTTGGATTAATTTAAAAAGAGGAAACATGATGAGAAAGATACACGCATGT
837 ACAGAAAACGTAAGTCTTGGATTAATTTAAAAAGAGGAAACATGATGAGAAAGATACACGCATGT
461727 CAGCGCTAGCA
902 CAGCGCTAGCA
461738 AGTT
1 AGTT
461742 ACGAGAAGGA
Statistics
Matches: 2635, Mismatches: 43, Indels: 100
0.95 0.02 0.04
Matches are distributed among these distances:
892 149 0.06
894 29 0.01
895 294 0.11
896 1 0.00
897 6 0.00
898 1 0.00
899 1 0.00
900 1 0.00
901 41 0.02
902 117 0.04
903 301 0.11
904 4 0.00
905 108 0.04
906 130 0.05
907 7 0.00
908 360 0.14
909 30 0.01
910 1 0.00
911 127 0.05
912 265 0.10
913 3 0.00
914 73 0.03
915 1 0.00
916 104 0.04
917 1 0.00
922 303 0.11
923 71 0.03
924 106 0.04
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (912 bp):
AGTTTTTACACAAAACTTGAAACGGTGTCGCATAGAGATAGCTAATACTATCGGTTCGGTTTGGA
TCGGTTCTGGATTTTCAAACCGAAACCGAACCGAACCGATCGGTTTTTTTTAAAAAAAAACCAAA
CACACTAAATCGGTTTCGAATTTTTTCGGTTTTCGGATTTTTGGATCGGTTTTCGTTTATTTTTT
TGGATCGGATTGGATTTGAACACTCTTACATAACATATTATTTTTGACATTTTTACAACTAAGCT
GAAGTTAAAGAGGCATAAAAACAACTTAAAGTGGATCATATCATACAAAAGGACAAATAAAACAT
TGTTCACTGAACAACTAATACGGACAAGAAAAATGAAAGAACAGAGGAAGGGGCAAAGGAAACCT
TTTTAAGAAACTCCTCGTGCCAATTATCAAGCGTATCAAATGATTTCATAACATTAACATCGTAA
ACTAACACACAGCAATCGGCACCCCTATAGAAGGCAACTCTGAGACTCTGAAATCGCTCCTGTCC
TGCGGTATCCCATATCTATCCAATGCAATTCACACCACACCACCACACACCGCAAAAAACAACAA
CAACAACAACAAAACCCTTTCCCATATGCAATGGGGTAAGGAGGAGGTAGGTTAGTAGGCTGCCC
CCAACACCAGGTTGAGAGCAGCTTCCGTGGAAGACCTCCGGCAATTCAGAAAATTAAAAAAAATA
CAAATTAAATACAATGCATGTATAAATAAATACATAGTTGAACAGTCTTCATATGCAGTCATTCA
TATGCGCGTCTGTAATGAGAACCGTAAATACCCTGCCTAAAAATCTCTGCATATAGACAGAAAAC
GTAAGTCTTGGATTAATTTAAAAAGAGGAAACATGATGAGAAAGATACACGCATGTCAGCGCTAG
CA
Found at i:466851 original size:2 final size:2
Alignment explanation
Indices: 466844--466897 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
466834 GATTTAGTTT
466844 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
466886 TA TA TA TA TA TA
1 TA TA TA TA TA TA
466898 ACCTTGATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:470941 original size:52 final size:52
Alignment explanation
Indices: 470863--470962 Score: 191
Period size: 52 Copynumber: 1.9 Consensus size: 52
470853 AATTATAATA
470863 TCCTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTATGT
1 TCCTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTATGT
*
470915 TCCTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTTTCCTATTT
1 TCCTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTT
470963 CTATGTGCCC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.43
Consensus pattern (52 bp):
TCCTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTATGT
Found at i:474744 original size:41 final size:42
Alignment explanation
Indices: 474687--474772 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 42
474677 TCTAACTGAC
474687 TGCACAGAATATAGAACAATTGTTGGCAGTTTACAG-ATCTT
1 TGCACAGAATATAGAACAATTGTTGGCAGTTTACAGTATCTT
474728 TGCACAGAATATAGAACAATTGTTGGCAGTTTACAGTATCTT
1 TGCACAGAATATAGAACAATTGTTGGCAGTTTACAGTATCTT
474770 TGC
1 TGC
474773 CTCACTCGCC
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 36 0.82
42 8 0.18
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (42 bp):
TGCACAGAATATAGAACAATTGTTGGCAGTTTACAGTATCTT
Found at i:478016 original size:17 final size:17
Alignment explanation
Indices: 477994--478029 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
477984 TAATAAACTT
*
477994 ATAATTAAATTAGTATG
1 ATAATTAAATTAATATG
478011 ATAATTAAATTAATATG
1 ATAATTAAATTAATATG
478028 AT
1 AT
478030 TACTCTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (17 bp):
ATAATTAAATTAATATG
Found at i:478341 original size:15 final size:15
Alignment explanation
Indices: 478321--478369 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
478311 CTTAACTTGA
478321 TATTTTATTTAATAT
1 TATTTTATTTAATAT
478336 TATTTTA-TTAA-ACT
1 TATTTTATTTAATA-T
*
478350 TGATTTTATTAAAT-T
1 T-ATTTTATTTAATAT
478365 TATTT
1 TATTT
478370 ACTAAGTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
13 1 0.03
14 10 0.34
15 15 0.52
16 3 0.10
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (15 bp):
TATTTTATTTAATAT
Found at i:478347 original size:127 final size:126
Alignment explanation
Indices: 478199--478452 Score: 483
Period size: 126 Copynumber: 2.0 Consensus size: 126
478189 AACTAAATAA
478199 ATTTAAATATTATTTTATTAAACTTGATTTTATTAAATTATATTTACTAAGTTAAAATATTCATA
1 ATTTAAATATTATTTTATTAAACTTGATTTTATTAAATT-TATTTACTAAGTTAAAATATTCATA
478264 AATCTAGTTTACTTTTAATGTGAAAATTGAATAATAATTTAAGTAAACTTAACTTGATATTTT
65 AATCTAGTTTACTTTTAATGTGAAAATTGAAT-ATAATTTAAGTAAACTTAACTTGATATTTT
478327 ATTT-AATATTATTTTATTAAACTTGATTTTATTAAATTTATTTACTAAGTTAAAATATTCATAA
1 ATTTAAATATTATTTTATTAAACTTGATTTTATTAAATTTATTTACTAAGTTAAAATATTCATAA
478391 ATCTAGTTTACTTTTAATGTGAAAATTGAATATAATTTAAGTAAACTTAACTTGATATTTT
66 ATCTAGTTTACTTTTAATGTGAAAATTGAATATAATTTAAGTAAACTTAACTTGATATTTT
478452 A
1 A
478453 AAATCAAAAT
Statistics
Matches: 126, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
125 31 0.25
126 57 0.45
127 34 0.27
128 4 0.03
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (126 bp):
ATTTAAATATTATTTTATTAAACTTGATTTTATTAAATTTATTTACTAAGTTAAAATATTCATAA
ATCTAGTTTACTTTTAATGTGAAAATTGAATATAATTTAAGTAAACTTAACTTGATATTTT
Found at i:478485 original size:126 final size:127
Alignment explanation
Indices: 478207--478489 Score: 414
Period size: 126 Copynumber: 2.2 Consensus size: 127
478197 AAATTTAAAT
* * *
478207 ATTATTTTATTAAACTTGATTTTATTAAATTATATTTACTAAGTTAAAATATTCATAAATCTAGT
1 ATTATTTAATTAAACTAGATCTTATTAAATTATATTTACTAAGTTAAAATATTCATAAATCTAGT
* * *
478272 TTACTTTTAATGTGAAAATTGAATAATAATTTAAGTAAACTTAACTTGATATTTTATTTAAT
66 TTACTTTTAATGTGAAAATTGAATAATAATTTAAGTAAACTTAACTTGATATTTTAATCAAA
* * *
478334 ATTATTTTATTAAACTTGATTTTATTAAATT-TATTTACTAAGTTAAAATATTCATAAATCTAGT
1 ATTATTTAATTAAACTAGATCTTATTAAATTATATTTACTAAGTTAAAATATTCATAAATCTAGT
478398 TTACTTTTAATGTGAAAATTGAAT-ATAATTTAAGTAAACTTAACTTGATATTTTAAAATCAAA
66 TTACTTTTAATGTGAAAATTGAATAATAATTTAAGTAAACTTAACTTGATATTTT--AATCAAA
478461 A-TATATTAATTGAAA-TAGA-CTTATTAAAT
1 ATTAT-TTAATT-AAACTAGATCTTATTAAAT
478490 ATTAAAAACT
Statistics
Matches: 146, Mismatches: 6, Indels: 9
0.91 0.04 0.06
Matches are distributed among these distances:
125 30 0.21
126 69 0.47
127 44 0.30
128 3 0.02
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (127 bp):
ATTATTTAATTAAACTAGATCTTATTAAATTATATTTACTAAGTTAAAATATTCATAAATCTAGT
TTACTTTTAATGTGAAAATTGAATAATAATTTAAGTAAACTTAACTTGATATTTTAATCAAA
Found at i:479023 original size:20 final size:20
Alignment explanation
Indices: 478990--479050 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
478980 AACCCGTACA
** *
478990 AATATCAAGTAGAAGCAAGT
1 AATATCAAACAGAAGCAAGC
479010 AATATCAAACAGAAGCGAA-C
1 AATATCAAACAGAAGC-AAGC
*
479030 AATATAAAACAGAAGCAAGC
1 AATATCAAACAGAAGCAAGC
479050 A
1 A
479051 GAATCAAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 2 0.06
20 31 0.89
21 2 0.06
ACGTcount: A:0.56, C:0.15, G:0.16, T:0.13
Consensus pattern (20 bp):
AATATCAAACAGAAGCAAGC
Found at i:482123 original size:28 final size:28
Alignment explanation
Indices: 482088--482184 Score: 94
Period size: 28 Copynumber: 3.4 Consensus size: 28
482078 AACTATTTAA
482088 AATTAATATTAAAATAATTATATATTAT
1 AATTAATATTAAAATAATTATATATTAT
*
482116 AATTAATATTAATATAATTA-ATATTAAT
1 AATTAATATTAAAATAATTATATATT-AT
* *
482144 AACT-ATA-TAATATATAATGTATA-ATTTGT
1 AATTAATATTAA-A-ATAAT-TATATA-TTAT
482173 AATTAATATTAA
1 AATTAATATTAA
482185 TAAAATATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
26 3 0.05
27 8 0.14
28 29 0.52
29 7 0.12
30 6 0.11
31 3 0.05
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (28 bp):
AATTAATATTAAAATAATTATATATTAT
Found at i:482133 original size:15 final size:15
Alignment explanation
Indices: 482088--482144 Score: 82
Period size: 15 Copynumber: 3.9 Consensus size: 15
482078 AACTATTTAA
*
482088 AATTAATATTAAAAT
1 AATTAATATTAATAT
*
482103 AATT-ATA-TATTAT
1 AATTAATATTAATAT
482116 AATTAATATTAATAT
1 AATTAATATTAATAT
482131 AATTAATATTAATA
1 AATTAATATTAATA
482145 ACTATATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
13 8 0.22
14 6 0.16
15 23 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTAATATTAATAT
Found at i:482230 original size:17 final size:16
Alignment explanation
Indices: 482207--482255 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
482197 TATAAAGTTA
482207 ATATTATTTATAATAT
1 ATATTATTTATAATAT
*
482223 AGTATTA--TACAATAT
1 A-TATTATTTATAATAT
482238 ATATTATTTATAAT-T
1 ATATTATTTATAATAT
482253 ATA
1 ATA
482256 CATAATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 5 0.18
15 12 0.43
16 6 0.21
17 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATTATTTATAATAT
Found at i:482303 original size:22 final size:22
Alignment explanation
Indices: 482278--482345 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
482268 ATATGAATTG
482278 TATAGTTTATATATAATTCATA
1 TATAGTTTATATATAATTCATA
* *
482300 TATAATTTATATATAA-AC-TA
1 TATAGTTTATATATAATTCATA
* * *
482320 TGTAGTTTCTATATAGTTCATA
1 TATAGTTTATATATAATTCATA
482342 TATA
1 TATA
482346 AACTATATAG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 14 0.39
21 2 0.06
22 20 0.56
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (22 bp):
TATAGTTTATATATAATTCATA
Found at i:482310 original size:9 final size:10
Alignment explanation
Indices: 482234--482315 Score: 53
Period size: 11 Copynumber: 7.8 Consensus size: 10
482224 GTATTATACA
482234 ATATAT-ATT
1 ATATATAATT
*
482243 ATTTATAATT
1 ATATATAATT
*
482253 ATACATAATAT
1 ATATATAAT-T
482264 ATAAATATGAATT
1 AT--ATAT-AATT
*
482277 GTATAGT--TT
1 ATATA-TAATT
482286 ATATATAATT
1 ATATATAATT
482296 CATATATAATTT
1 -ATATATAA-TT
482308 ATATATAA
1 ATATATAA
482316 ACTATGTAGT
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
8 1 0.02
9 11 0.19
10 12 0.21
11 22 0.39
12 3 0.05
13 5 0.09
14 3 0.05
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (10 bp):
ATATATAATT
Found at i:482313 original size:13 final size:11
Alignment explanation
Indices: 482278--482315 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
482268 ATATGAATTG
*
482278 TATAGTTTATA
1 TATAATTTATA
*
482289 TATAATTCATA
1 TATAATTTATA
482300 TATAATTTATA
1 TATAATTTATA
482311 TATAA
1 TATAA
482316 ACTATGTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TATAATTTATA
Found at i:482343 original size:31 final size:31
Alignment explanation
Indices: 482298--482356 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
482288 ATATAATTCA
* *
482298 TATATAATTTATATATAAACTATGTAGTTTC
1 TATATAATTCATATATAAACTATATAGTTTC
*
482329 TATATAGTTCATATATAAACTATATAGT
1 TATATAATTCATATATAAACTATATAGT
482357 ATTATAGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (31 bp):
TATATAATTCATATATAAACTATATAGTTTC
Found at i:482405 original size:25 final size:25
Alignment explanation
Indices: 482349--482407 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
482339 ATATATAAAC
* **
482349 TATATAGTATTATAGTTTATACATGG
1 TATATA-TATTATACTTTATACATAA
* *
482375 TGTATATTTTATACTTTATACATAA
1 TATATATATTATACTTTATACATAA
482400 TATATATA
1 TATATATA
482408 AACTATATAG
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.49
Consensus pattern (25 bp):
TATATATATTATACTTTATACATAA
Found at i:482406 original size:2 final size:2
Alignment explanation
Indices: 482399--482529 Score: 74
Period size: 2 Copynumber: 63.5 Consensus size: 2
482389 TTTATACATA
* * *
482399 AT AT AT AT AA ACT AT AT AGT TT AT AT AT -T A- AT AC AT AT ACT
1 AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T
* * *
482440 TT AT AT AT A- ACT AT AT AGT TT AT AT AT A- ACT AT AT AGT TT AT
1 AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT A-T AT AT A-T AT AT
* *
482482 AT AT AA ACT AT AT AGT TT AT AT -T AT AT AT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
482525 AT AT A
1 AT AT A
482530 GTTGTTTTAA
Statistics
Matches: 99, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
1 5 0.05
2 85 0.86
3 9 0.09
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:482455 original size:19 final size:19
Alignment explanation
Indices: 482400--482532 Score: 152
Period size: 19 Copynumber: 7.0 Consensus size: 19
482390 TTATACATAA
482400 TATATATAAACTATATAGTT
1 TATATAT-AACTATATAGTT
*
482420 TATATATTAA-TACATATACTT
1 TATATA-TAACT--ATATAGTT
482441 TATATATAACTATATAGTT
1 TATATATAACTATATAGTT
482460 TATATATAACTATATAGTT
1 TATATATAACTATATAGTT
482479 TATATATAAACTATATAGTT
1 TATATAT-AACTATATAGTT
*
482499 TATAT-T-A-TATATA-TA
1 TATATATAACTATATAGTT
482514 TATATATATA-TATATAGTT
1 TATATATA-ACTATATAGTT
482533 GTTTTAATTT
Statistics
Matches: 100, Mismatches: 4, Indels: 19
0.81 0.03 0.15
Matches are distributed among these distances:
15 6 0.06
16 7 0.07
17 1 0.01
18 7 0.07
19 36 0.36
20 28 0.28
21 15 0.15
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.48
Consensus pattern (19 bp):
TATATATAACTATATAGTT
Found at i:482976 original size:207 final size:212
Alignment explanation
Indices: 482550--483359 Score: 1199
Period size: 215 Copynumber: 3.8 Consensus size: 212
482540 TTTTTTCTCA
*
482550 ACTTATTACTTTTTTCTATTTATT-AATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACA
1 ACTTATTACTTATTTCTATTT-TTAAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTAC-
* * *
482614 TTTTTGTATTAATTTCAACCTC-AAATTTAAAATTATTTCGATTTGAT--TC-TTTTTGTGTTGT
64 TTTTTTTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCTCATATGTGTGTTGT
**
482675 TTAATATATTTACTTTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTT
129 TTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTT
*
482740 GCACCTGAAATTGACCCAT
194 GCATCTGAAATTGACCCAT
*
482759 ACTTATTACTTATTTCTATTTTTAAATTGGCCCACAACTTTTTAAATGAGTATAATTTAGTA-TT
1 ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACTT
* * *
482823 TTTTTATTAATTTCAACCTCAAAACTTAAAATTATTTCAATTTGATCC-C-T-TTTGTGTTGTTT
66 TTTTTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCTCATATGTGTGTTGTTT
*
482885 AATATATTTAAATTTTTATTTGTAATTTCATATTTG-TCTATTTAGTCCTCCAAATTTTATTTGC
131 AATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGC
482949 ATCTGAAATTGACCCAT
196 ATCTGAAATTGACCCAT
* * *
482966 ACTGATTACTTATTTCTATTTTTAAATTGGCGCATAACTTTTTAAATGGGTATAATTTAGTACTT
1 ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACTT
* *
483031 TTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGATTTGATCCATCATCAATGTGTGTT
66 TTTT-TATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCC-TCAT--ATGTGTGTT
*
483096 GTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTAT
127 GTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTAT
* *
483161 TTGCATATGAAATTGATCCAT
192 TTGCATCTGAAATTGACCCAT
* * * * * * *
483182 AATTATTACATAATTCTATTTTTTAATTGGCCCATAAATTTTAAAATGAGTATAATTTAGTATTT
1 ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACTT
* *
483247 TTTTTATTAATTTCAACCTCACAATTTAAAAGTATTTCGATTTGATCACTCATCAATGTGTGTTG
66 TTTTTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATC-CTCAT--ATGTGTGTTG
*
483312 TTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
128 TTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
483360 ATTCTTAAAT
Statistics
Matches: 553, Mismatches: 34, Indels: 22
0.91 0.06 0.04
Matches are distributed among these distances:
207 122 0.22
208 77 0.14
209 99 0.18
211 1 0.00
212 1 0.00
215 151 0.27
216 102 0.18
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (212 bp):
ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACTT
TTTTTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCTCATATGTGTGTTGTTT
AATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGC
ATCTGAAATTGACCCAT
Found at i:483653 original size:15 final size:16
Alignment explanation
Indices: 483622--483657 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
483612 TCTACTTTTT
483622 AACTGCTTTAGACCTG
1 AACTGCTTTAGACCTG
*
483638 AACTGTTTTA-ACCTG
1 AACTGCTTTAGACCTG
483653 AACTG
1 AACTG
483658 GCAACGATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (16 bp):
AACTGCTTTAGACCTG
Found at i:484867 original size:22 final size:22
Alignment explanation
Indices: 484790--484875 Score: 70
Period size: 22 Copynumber: 3.8 Consensus size: 22
484780 AATAAGCTTA
484790 ATATATATTT-AAAAATCTATA-T
1 ATATAT-TTTCAAAAA-CTATACT
*
484812 ATTATATTTTCAAAATTA-TATAACA
1 A-TATATTTTCAAAA--ACTAT-ACT
* *
484837 ATATGTTTTTAAAAACTATACT
1 ATATATTTTCAAAAACTATACT
484859 ATATATTTTCAAAAACT
1 ATATATTTTCAAAAACT
484876 CCATAACTTC
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
22 22 0.43
23 15 0.29
24 12 0.24
25 2 0.04
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (22 bp):
ATATATTTTCAAAAACTATACT
Found at i:486650 original size:24 final size:24
Alignment explanation
Indices: 486623--486685 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
486613 TACAGAGGTC
486623 TGTGCTTTTGCAGCAGATGAAACT
1 TGTGCTTTTGCAGCAGATGAAACT
* * *
486647 TGTGCCTTTGCAGTAGATGAAGCT
1 TGTGCTTTTGCAGCAGATGAAACT
*
486671 TGTACTTTTGCAGCA
1 TGTGCTTTTGCAGCA
486686 ACGATTTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (24 bp):
TGTGCTTTTGCAGCAGATGAAACT
Found at i:489260 original size:12 final size:11
Alignment explanation
Indices: 489243--489272 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
489233 TAGTAAGATA
489243 AAAATAATAAT
1 AAAATAATAAT
489254 CAAAATAATAAT
1 -AAAATAATAAT
489266 AAAATAA
1 AAAATAA
489273 AAAATTCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:491638 original size:19 final size:21
Alignment explanation
Indices: 491614--491652 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
491604 AAGCTTAATA
491614 TATATTTT-AAAAT-ATATAT
1 TATATTTTCAAAATCATATAT
491633 TATATTTTCAAAATCATATA
1 TATATTTTCAAAATCATATA
491653 ATACGTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 5 0.28
21 5 0.28
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTTTCAAAATCATATAT
Found at i:491684 original size:24 final size:23
Alignment explanation
Indices: 491652--491768 Score: 76
Period size: 25 Copynumber: 4.9 Consensus size: 23
491642 AAAATCATAT
*
491652 AATACGTTTTAAAAATTATAGAAC
1 AATATGTTTTAAAAATTATA-AAC
*
491676 AATATGTTTTTAAAAACTAT--AC
1 AATATG-TTTTAAAAATTATAAAC
* * * *
491698 TATATATTTTCAAAAACTGTATATAT
1 AATATGTTTT-AAAAA-T-TATAAAC
* *
491724 TATATGTTTTCAAAATTATATAAC
1 AATATGTTTTAAAAATTATA-AAC
*
491748 AATATGTTTTTAAAAACTATA
1 AATATG-TTTTAAAAATTATA
491769 TTATATATTT
Statistics
Matches: 72, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
21 4 0.06
22 11 0.15
23 4 0.06
24 15 0.21
25 28 0.39
26 10 0.14
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (23 bp):
AATATGTTTTAAAAATTATAAAC
Found at i:491733 original size:72 final size:70
Alignment explanation
Indices: 491618--491886 Score: 286
Period size: 72 Copynumber: 3.8 Consensus size: 70
491608 TTAATATATA
* *
491618 TTTT-AAAA-TATA-TATTATATTTTC-AAAA-TCATATA--ATACGTTTTAAAAATTATAGAAC
1 TTTTAAAAACTATACTA-TATATTTTCAAAAACTTATATATTATATGTTTTAAAAATTATA-AAC
491676 AATATGT
64 AATATGT
*
491683 TTTTAAAAACTATACTATATATTTTCAAAAACTGTATATATTATATGTTTTCAAAATTATATAAC
1 TTTTAAAAACTATACTATATATTTTCAAAAACT-TATATATTATATGTTTTAAAAATTATA-AAC
491748 AATATGT
64 AATATGT
* * *
491755 TTTTAAAAACTATATTATATATTTTCAAAAAC-TATATATTATATGTTTTTTTAAAAA-AACTAT
1 TTTTAAAAACTATACTATATATTTTCAAAAACTTATATATTATATG---TTTTAAAAATTA-TAA
*
491818 ATAATATGT
62 ACAATATGT
* * * **
491827 TTTCAAAAACTATACTATATATTTTCAAAAATTATATATATTATATATTTTTGAAATTAT
1 TTTTAAAAACTATACTATATATTTTCAAAAACT-TATATATTATATGTTTTAAAAATTAT
491887 TATGTATAAT
Statistics
Matches: 173, Mismatches: 16, Indels: 24
0.81 0.08 0.11
Matches are distributed among these distances:
65 4 0.02
66 4 0.02
67 13 0.08
68 6 0.03
69 1 0.01
70 18 0.10
71 8 0.05
72 97 0.56
73 10 0.06
74 12 0.07
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (70 bp):
TTTTAAAAACTATACTATATATTTTCAAAAACTTATATATTATATGTTTTAAAAATTATAAACAA
TATGT
Found at i:491776 original size:24 final size:25
Alignment explanation
Indices: 491677--491878 Score: 126
Period size: 22 Copynumber: 8.4 Consensus size: 25
491667 TTATAGAACA
*
491677 ATATGTTTTTAAAAACTATACTA-T
1 ATATGTTTTTAAAAACTATATTATT
* *
491701 ATA--TTTTCAAAAACTGTATATATT
1 ATATGTTTTTAAAAACTATAT-TATT
* * * **
491725 ATATG-TTTTCAAAATTATATAACA
1 ATATGTTTTTAAAAACTATATTATT
491749 ATATGTTTTTAAAAACTATATTA-T
1 ATATGTTTTTAAAAACTATATTATT
*
491773 ATA--TTTTCAAAAACTATA-TATT
1 ATATGTTTTTAAAAACTATATTATT
491795 ATATGTTTTTTTAAAAAAACTATA-TA--
1 ATATG--TTTTT--AAAAACTATATTATT
* *
491821 ATATGTTTTCAAAAACTATACTA-T
1 ATATGTTTTTAAAAACTATATTATT
* *
491845 ATA--TTTTCAAAAATTATATATATT
1 ATATGTTTTTAAAAACTATAT-TATT
*
491869 ATATATTTTT
1 ATATGTTTTT
491879 GAAATTATTA
Statistics
Matches: 140, Mismatches: 20, Indels: 34
0.72 0.10 0.18
Matches are distributed among these distances:
21 2 0.01
22 55 0.39
23 6 0.04
24 27 0.19
25 25 0.18
26 13 0.09
28 12 0.09
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (25 bp):
ATATGTTTTTAAAAACTATATTATT
Found at i:491781 original size:46 final size:47
Alignment explanation
Indices: 491719--491840 Score: 140
Period size: 50 Copynumber: 2.5 Consensus size: 47
491709 AAAAACTGTA
*
491719 TATATTATATGTTTTCAAAATTATATAACAATATG-TTTTT-AAAAAC
1 TATATTATATGTTTTCAAAACTATAT-ACAATATGTTTTTTAAAAAAC
* **
491765 TATATTATATATTTTCAAAAACTATATATTATATGTTTTTTTAAAAAAAC
1 TATATTATATGTTTTC-AAAACTATATACAATATG-TTTTTT-AAAAAAC
*
491815 TATATAATATGTTTTCAAAAACTATA
1 TATATTATATGTTTTC-AAAACTATA
491841 CTATATATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
46 21 0.32
47 9 0.14
48 5 0.08
50 30 0.46
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (47 bp):
TATATTATATGTTTTCAAAACTATATACAATATGTTTTTTAAAAAAC
Found at i:491874 original size:28 final size:29
Alignment explanation
Indices: 491842--491905 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
491832 AAAACTATAC
*
491842 TATATATTTTCAAA-AATTATATATATTA
1 TATATATTTTCAAATAATTATATATAATA
* * *
491870 TATAT-TTTTGAAATTATTATGTATAATA
1 TATATATTTTCAAATAATTATATATAATA
491898 TCATATAT
1 T-ATATAT
491906 GCTATACAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 7 0.24
28 17 0.59
29 4 0.14
30 1 0.03
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (29 bp):
TATATATTTTCAAATAATTATATATAATA
Found at i:495798 original size:21 final size:21
Alignment explanation
Indices: 495769--495821 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
495759 ATTCTGACTA
495769 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
495790 TCGCGTTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCAAAT
* *
495811 TTGCAATGCGA
1 TCGCATTGCGA
495822 ATATGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:495838 original size:20 final size:20
Alignment explanation
Indices: 495813--495880 Score: 111
Period size: 20 Copynumber: 3.5 Consensus size: 20
495803 TTCCGAATTT
495813 GCAATGCGAATATGTAAATC
1 GCAATGCGAATATGTAAATC
*
495833 GCAATGCGAATACGTAAATC
1 GCAATGCGAATATGTAAATC
495853 GCAATGCGAATATGT-AATC
1 GCAATGCGAATATGTAAATC
*
495872 GCAACGCGA
1 GCAATGCGA
495881 TTCTGACTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 12 0.27
20 33 0.73
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (20 bp):
GCAATGCGAATATGTAAATC
Found at i:495933 original size:20 final size:21
Alignment explanation
Indices: 495869--495935 Score: 86
Period size: 20 Copynumber: 3.3 Consensus size: 21
495859 CGAATATGTA
495869 ATCGCAACGCGA-TTCTGACT
1 ATCGCAACGCGATTTCTGACT
* *
495889 ATCGCAATGCGATGT-TGACT
1 ATCGCAACGCGATTTCTGACT
*
495909 ATCGCAACGCGATTTCTGAAT
1 ATCGCAACGCGATTTCTGACT
495930 -TCGCAA
1 ATCGCAA
495936 TAGGTTTTAG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 35 0.88
21 5 0.12
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (21 bp):
ATCGCAACGCGATTTCTGACT
Found at i:499290 original size:20 final size:20
Alignment explanation
Indices: 499265--499313 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
499255 CAACGCAGAA
499265 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
499285 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
499305 ATCGCAACG
1 ATCGCAACG
499314 AGAGAATCGC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.35, C:0.27, G:0.22, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:499331 original size:54 final size:54
Alignment explanation
Indices: 499246--499348 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
499236 GACATTCATT
* **
499246 TGACTATCACAACGCAGAAATCGCAACGCGAATATGACTATCGCAACGCGGAAA
1 TGACTATCACAACGCAGAAATCGCAACGCGAAAATGAAAATCGCAACGCGGAAA
* *
499300 TGACTATCGCAACG-AGAGAATCGCAATGCGAAAATGAAAATCGCAACGC
1 TGACTATCACAACGCAGA-AATCGCAACGCGAAAATGAAAATCGCAACGC
499349 AAATTTAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
53 3 0.07
54 40 0.93
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (54 bp):
TGACTATCACAACGCAGAAATCGCAACGCGAAAATGAAAATCGCAACGCGGAAA
Found at i:499403 original size:14 final size:14
Alignment explanation
Indices: 499384--499437 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
499374 TCAGTTCGTA
499384 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
499398 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
499415 TATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
499431 TTGCGAT
1 TTGCGAT
499438 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.46
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:499415 original size:33 final size:33
Alignment explanation
Indices: 499362--499446 Score: 125
Period size: 33 Copynumber: 2.5 Consensus size: 33
499352 TTTAGTTTCG
* *
499362 CGTTACGATTTTTCAGTTCGTATTGCGATTCTCT
1 CGTTGCGA-TTTTCATTTCGTATTGCGATTCTCT
499396 CGTTGCGATTTTCATTTCGTATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGTATTGCGATTCTCT
**
499429 CGTTGCGATAGTCATTTC
1 CGTTGCGATTTTCATTTC
499447 CGCGTTGCGA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 40 0.85
34 7 0.15
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGTATTGCGATTCTCT
Found at i:499422 original size:19 final size:19
Alignment explanation
Indices: 499371--499424 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
499361 GCGTTACGAT
*
499371 TTTTCAGTTCGTATTGCGA
1 TTTTCATTTCGTATTGCGA
*
499390 --TTC-TCTCG--TTGCGA
1 TTTTCATTTCGTATTGCGA
499404 TTTTCATTTCGTATTGCGA
1 TTTTCATTTCGTATTGCGA
499423 TT
1 TT
499425 CTCTCGTTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 10
0.68 0.08 0.25
Matches are distributed among these distances:
14 6 0.22
16 6 0.22
17 7 0.26
19 8 0.30
ACGTcount: A:0.13, C:0.19, G:0.19, T:0.50
Consensus pattern (19 bp):
TTTTCATTTCGTATTGCGA
Found at i:499582 original size:14 final size:14
Alignment explanation
Indices: 499563--499599 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
499553 CATCAATTAA
499563 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
499577 ACAAATCATCTTTT
1 ACAAATCAACATTT
499591 ACAAATCAA
1 ACAAATCAA
499600 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:501029 original size:42 final size:42
Alignment explanation
Indices: 500970--501092 Score: 126
Period size: 42 Copynumber: 2.9 Consensus size: 42
500960 GTGAAGCGGG
* * * *
500970 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGA
** *
501012 CTCTTGAACGGTGGGAGGGGA-CTCTTGAGGGATGATAGGGGA
1 CTCTTGAACGGTGGGA-GGGACCTCTTGAACGATGACAGGGGA
*
501054 CTCTTGAACGATAGGG-GAGG-CCTCTTGAACGATGACAGG
1 CTCTTGAACGGT-GGGAG-GGACCTCTTGAACGATGACAGG
501093 TGAGTCGGGC
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.02
42 58 0.88
43 7 0.11
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGA
Found at i:501036 original size:21 final size:21
Alignment explanation
Indices: 500970--501063 Score: 66
Period size: 21 Copynumber: 4.5 Consensus size: 21
500960 GTGAAGCGGG
* *
500970 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGAGAGGGGA
* * * * *
500990 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGAGAGGGGA
*
501012 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGAGAGGGGA
* *
501033 CTCTTG-AGGGATGATAGGGGA
1 CTCTTGAACGG-TGAGAGGGGA
501054 CTCTTGAACG
1 CTCTTGAACG
501064 ATAGGGGAGG
Statistics
Matches: 53, Mismatches: 17, Indels: 5
0.71 0.23 0.07
Matches are distributed among these distances:
20 3 0.06
21 46 0.87
22 4 0.08
ACGTcount: A:0.21, C:0.18, G:0.37, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGGTGAGAGGGGA
Found at i:501068 original size:18 final size:19
Alignment explanation
Indices: 501045--501086 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
501035 CTTGAGGGAT
501045 GATAGGGGA-CTCTTGAAC
1 GATAGGGGAGCTCTTGAAC
501063 GATAGGGGAGGCCTCTTGAAC
1 GATAGGGGA-G-CTCTTGAAC
501084 GAT
1 GAT
501087 GACAGGTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.43
21 12 0.57
ACGTcount: A:0.26, C:0.17, G:0.36, T:0.21
Consensus pattern (19 bp):
GATAGGGGAGCTCTTGAAC
Found at i:502357 original size:31 final size:31
Alignment explanation
Indices: 502319--502443 Score: 216
Period size: 31 Copynumber: 4.0 Consensus size: 31
502309 CCCGAATGAC
* *
502319 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
502350 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
502381 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
502412 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
502443 C
1 C
502444 CCTCGACCCT
Statistics
Matches: 91, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
31 90 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:503161 original size:21 final size:21
Alignment explanation
Indices: 503136--503211 Score: 125
Period size: 21 Copynumber: 3.6 Consensus size: 21
503126 TTCTCTTAGG
*
503136 GGGTATCGGTACCTCCTCATA
1 GGGTATCGGTACCTCCCCATA
*
503157 GGGTATCGGCACCTCCCCATA
1 GGGTATCGGTACCTCCCCATA
*
503178 GGGTATCAGTACCTCCCCATA
1 GGGTATCGGTACCTCCCCATA
503199 GGGTATCGGTACC
1 GGGTATCGGTACC
503212 CTTATTGAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.20, C:0.32, G:0.25, T:0.24
Consensus pattern (21 bp):
GGGTATCGGTACCTCCCCATA
Found at i:504338 original size:20 final size:20
Alignment explanation
Indices: 504313--504358 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
504303 GCGATTCTTT
504313 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
504333 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
504353 CGTTGC
1 CGTTGC
504359 AATTTTGTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:504371 original size:34 final size:34
Alignment explanation
Indices: 504333--504425 Score: 127
Period size: 33 Copynumber: 2.8 Consensus size: 34
504323 GTCAAATTCG
504333 CGTTGCGATAGTCATTTTCGCGTTGCAATT-TTGT
1 CGTTGCGATAGTCATTTTCGCGTTGCAATTCTT-T
** * *
504367 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTTT
1 CGTTGCGATAGTCATTTTCGCGTTGCAATTCTTT
504400 CGTTGCGATAGTCATTTTCGCGTTGC
1 CGTTGCGATAGTCATTTTCGCGTTGC
504426 GATAGTCATT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
33 26 0.52
34 24 0.48
ACGTcount: A:0.13, C:0.20, G:0.23, T:0.44
Consensus pattern (34 bp):
CGTTGCGATAGTCATTTTCGCGTTGCAATTCTTT
Found at i:504425 original size:20 final size:20
Alignment explanation
Indices: 504400--504447 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
504390 GCGATTCTTT
504400 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
504420 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
504440 CGTTGCGA
1 CGTTGCGA
504448 AAGTAAACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.15, C:0.21, G:0.27, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:504426 original size:34 final size:34
Alignment explanation
Indices: 504333--504428 Score: 133
Period size: 34 Copynumber: 2.9 Consensus size: 34
504323 GTCAAATTCG
*
504333 CGTTGCGATAGTCATTTTCGCGTTGCAATTTTGT
1 CGTTGCGATAGTCATTTTCGCGTTGCGATTTTGT
** *
504367 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTT-T
1 CGTTGCGATAGTCATTTTCGCGTTGCGATT-TTGT
504400 CGTTGCGATAGTCATTTTCGCGTTGCGAT
1 CGTTGCGATAGTCATTTTCGCGTTGCGAT
504429 AGTCATTTTC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
33 26 0.49
34 27 0.51
ACGTcount: A:0.14, C:0.20, G:0.23, T:0.44
Consensus pattern (34 bp):
CGTTGCGATAGTCATTTTCGCGTTGCGATTTTGT
Found at i:504429 original size:87 final size:87
Alignment explanation
Indices: 504283--504445 Score: 308
Period size: 87 Copynumber: 1.9 Consensus size: 87
504273 AGAATCACAA
504283 TGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAT
1 TGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAT
504348 TTTCGCGTTGCAATTTTGTCGT
66 TTTCGCGTTGCAATTTTGTCGT
**
504370 TGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCAT
1 TGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAT
504435 TTTCGCGTTGC
66 TTTCGCGTTGC
504446 GAAAGTAAAC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 74 1.00
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.43
Consensus pattern (87 bp):
TGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAT
TTTCGCGTTGCAATTTTGTCGT
Found at i:506384 original size:20 final size:20
Alignment explanation
Indices: 506361--506410 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
506351 GAAACTTAAA
506361 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
506381 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
506401 ATCGCAACAC
1 ATCGCAACAC
506411 TAAATGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.18
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:506857 original size:22 final size:22
Alignment explanation
Indices: 506830--506871 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
506820 GAGATAGACG
506830 GATTTCGCCGGAGATGGGGAAT
1 GATTTCGCCGGAGATGGGGAAT
*
506852 GATTTCGTCGGAGATGGGGA
1 GATTTCGCCGGAGATGGGGA
506872 CGGATGTCGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.43, T:0.24
Consensus pattern (22 bp):
GATTTCGCCGGAGATGGGGAAT
Found at i:507077 original size:20 final size:20
Alignment explanation
Indices: 507047--507107 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
507037 GTGCTTTGAA
*
507047 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
507067 CATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
507087 AATCTCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
507107 A
1 A
507108 TTTGCATTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:507117 original size:20 final size:21
Alignment explanation
Indices: 507051--507120 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 21
507041 TTTGAAAATC
* *
507051 GCATTGCGATAGTCAGCA-TC
1 GCATTGCGATAGTCAGAATTT
* *
507071 GCGTTGCGATAGTCAGAATCT
1 GCATTGCGATAGTCAGAATTT
*
507092 -CGTTGCGATAGTCAG-ATTT
1 GCATTGCGATAGTCAGAATTT
507111 GCATTGCGAT
1 GCATTGCGAT
507121 TTACATATTC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.07
20 39 0.93
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (21 bp):
GCATTGCGATAGTCAGAATTT
Found at i:507134 original size:20 final size:20
Alignment explanation
Indices: 507111--507219 Score: 200
Period size: 20 Copynumber: 5.5 Consensus size: 20
507101 AGTCAGATTT
507111 GCATTGCGATTTACATATTC
1 GCATTGCGATTTACATATTC
507131 GCATTGCGATTTACATATTC
1 GCATTGCGATTTACATATTC
*
507151 GCATTGCGATTTACTTATTC
1 GCATTGCGATTTACATATTC
*
507171 GCGTTGCGATTTACATATTC
1 GCATTGCGATTTACATATTC
507191 GCATTGCGATTTACATATTC
1 GCATTGCGATTTACATATTC
507211 GCATTGCGA
1 GCATTGCGA
507220 ATTCGGAAAA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 85 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.39
Consensus pattern (20 bp):
GCATTGCGATTTACATATTC
Found at i:507158 original size:60 final size:60
Alignment explanation
Indices: 507094--507219 Score: 191
Period size: 60 Copynumber: 2.1 Consensus size: 60
507084 CAGAATCTCG
*
507094 TTGCGATAGT-CAGATTTGCATTGCGATTTACATATTCGCATTGCGATTTACATATTCGCA
1 TTGCGAT-GTACAGATTCGCATTGCGATTTACATATTCGCATTGCGATTTACATATTCGCA
* ** *
507154 TTGCGATTTACTTATTCGCGTTGCGATTTACATATTCGCATTGCGATTTACATATTCGCA
1 TTGCGATGTACAGATTCGCATTGCGATTTACATATTCGCATTGCGATTTACATATTCGCA
507214 TTGCGA
1 TTGCGA
507220 ATTCGGAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 1 0.02
60 59 0.98
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (60 bp):
TTGCGATGTACAGATTCGCATTGCGATTTACATATTCGCATTGCGATTTACATATTCGCA
Found at i:507240 original size:21 final size:21
Alignment explanation
Indices: 507216--507261 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
507206 TATTCGCATT
507216 GCGAATTCGGAAAATCGCAAC
1 GCGAATTCGGAAAATCGCAAC
* *
507237 GCGAATTTGGAAAATCGCAAT
1 GCGAATTCGGAAAATCGCAAC
507258 GCGA
1 GCGA
507262 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTCGGAAAATCGCAAC
Found at i:508032 original size:2 final size:2
Alignment explanation
Indices: 508027--508054 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
508017 TACACACACA
508027 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
508055 TCTGAAGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:508889 original size:19 final size:18
Alignment explanation
Indices: 508847--508889 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
508837 TTAATCATCC
508847 AATTATCAAAAAAAATTA
1 AATTATCAAAAAAAATTA
** *
508865 TTTTATTAAAAAAAATATA
1 AATTATCAAAAAAAAT-TA
508884 AATTAT
1 AATTAT
508890 AAACTAGTCA
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTATCAAAAAAAATTA
Found at i:510545 original size:16 final size:16
Alignment explanation
Indices: 510526--510584 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
510516 TGTAAATGAT
* *
510526 CTGACTTGTTATTGAC
1 CTGACTTGATATTCAC
*
510542 CTGA-TATGATATTTAC
1 CTGACT-TGATATTCAC
*
510558 CTGACTTGACATTCAC
1 CTGACTTGATATTCAC
510574 CTGACTT-ATAT
1 CTGACTTGATAT
510585 ATTACCATGG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
15 4 0.11
16 31 0.86
17 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (16 bp):
CTGACTTGATATTCAC
Found at i:510842 original size:23 final size:24
Alignment explanation
Indices: 510802--510855 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 24
510792 CAATGATTAA
510802 ATGTAAATTAATATAGTTTAATTT
1 ATGTAAATTAATATAGTTTAATTT
510826 ATGTAAATT-ATATAGTTTAATTT
1 ATGTAAATTAATATAGTTTAATTT
510849 ATGTAAA
1 ATGTAAA
510856 GAAAAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 21 0.70
24 9 0.30
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (24 bp):
ATGTAAATTAATATAGTTTAATTT
Found at i:514310 original size:13 final size:13
Alignment explanation
Indices: 514287--514326 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
514277 AAAACTTGGA
514287 TGAAGGGGGGAAAT
1 TGAA-GGGGGAAAT
514301 TGAAGGGGGAAAT
1 TGAAGGGGGAAAT
*
514314 TGAAGGGTGAAAT
1 TGAAGGGGGAAAT
514327 AAAAGAGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 21 0.84
14 4 0.16
ACGTcount: A:0.38, C:0.00, G:0.45, T:0.17
Consensus pattern (13 bp):
TGAAGGGGGAAAT
Found at i:514721 original size:17 final size:17
Alignment explanation
Indices: 514699--514734 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
514689 TTTAAATATT
514699 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
514716 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
514733 TC
1 TC
514735 TTAATGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (17 bp):
TCATGAAAAGATATTAA
Found at i:515550 original size:15 final size:15
Alignment explanation
Indices: 515527--515556 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
515517 TTGGAGGGGT
515527 GGATGACGGTCAGGG
1 GGATGACGGTCAGGG
*
515542 GGATTACGGTCAGGG
1 GGATGACGGTCAGGG
515557 AAAACAGAGT
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:0.20, C:0.13, G:0.50, T:0.17
Consensus pattern (15 bp):
GGATGACGGTCAGGG
Found at i:515850 original size:13 final size:13
Alignment explanation
Indices: 515827--515866 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
515817 AAAACTTGGA
515827 TGAAGGGGGGAAAT
1 TGAA-GGGGGAAAT
515841 TGAAGGGGGAAAT
1 TGAAGGGGGAAAT
*
515854 TGAAGGGTGAAAT
1 TGAAGGGGGAAAT
515867 AAAAGAGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 21 0.84
14 4 0.16
ACGTcount: A:0.38, C:0.00, G:0.45, T:0.17
Consensus pattern (13 bp):
TGAAGGGGGAAAT
Found at i:516257 original size:17 final size:17
Alignment explanation
Indices: 516235--516270 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
516225 TTTAAATATT
516235 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
516252 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
516269 TC
1 TC
516271 TTAATGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (17 bp):
TCATGAAAAGATATTAA
Found at i:517431 original size:19 final size:19
Alignment explanation
Indices: 517407--517456 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
517397 AAATGTAGGG
517407 TTAATTTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
517426 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
517445 ATAATTTTGTAT
1 TTAATTTTGTAT
517457 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:518467 original size:390 final size:389
Alignment explanation
Indices: 517732--518596 Score: 1334
Period size: 390 Copynumber: 2.2 Consensus size: 389
517722 GTCCAAGTAT
* *
517732 ACCGTTTTATGAGAAAAAGGTGTACAT-AAGTATCGACACTTGTTTTAATTTGTGTCGATCCCAT
1 ACCGGTTTATGAGAAACAGGTGTACATGAAGTATCGACACTT-TTTTAATTTGTGTCG-----AT
*
517796 ACTTTGTGTCCAG-ATGATTTCCTTACCAAGTGCATGGAATGTGTCGATACATTTATAAAAAGTA
60 ACTTTGTGTCCAGAATGATTTCCTTACCAAGTCCAT-GAATGTGTCGATACATTTATAAAAAGTA
517860 TCGATCCCAAAACATCGAGACCCATAATTATAATGTAAGGTAAATTATCAATCTAACGGTCTAAA
124 TCGATCCCAAAACATCGAGACCCATAATTATAATGTAAGGTAAATTATCAATCTAACGGTCTAAA
*
517925 TACACCGTTTATGAGAAAACAGGTCTACATAAAGTATCGACACTTGTTTAATTTGTGTCGATCAC
189 TACACCGTTTATGAGAAAACAGATCTACATAAAGTATCGACACTTGTTTAATTTGTGTCG---A-
**
517990 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAATGTGTCGATACATTTATAAAAA
250 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATCCAAATGTGTCGATACATTTATAAAAA
* *
518055 GTATCGATCTCAAAAACATCGAGACCCATAATTATAATGTTATAGGTAAATTATCAATCTAACCG
315 GTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
518120 GTCTAAATAC
380 GTCTAAATAC
* *
518130 ACTGGTTTATGAGAAACAGGTGTACATGAAGTATCAACACTTTTTTAATTTGTGTCGATACTTTG
1 ACCGGTTTATGAGAAACAGGTGTACATGAAGTATCGACACTTTTTTAATTTGTGTCGATACTTTG
518195 TGTCCAGAATGATTTCCTTACCAAGGTCACCAT-AATGTGTCGATACATTTAT-AAAAGTATCGA
66 TGTCCAGAATGATTTCCTTACCAA-GT--CCATGAATGTGTCGATACATTTATAAAAAGTATCGA
518258 TCCCAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAA-CTAACTGGTCT-AAT
128 TCCCAAAACATCGAGACCCATAATTATAATGT-A-AGGTAAATTATCAATCTAAC-GGTCTAAAT
* * * * *
518321 ACACGGTTTATGAGAAAACAGATGTACATGAAGTATCGACACTTTTTTAATTTGTGTCG-ATGCT
190 ACACCGTTTATGAGAAAACAGATCTACATAAAGTATCGACACTTGTTTAATTTGTGTCGAATACT
518385 TTGTGTCCAGAATGATTTCCTTACCAAG-GTCA-CCATAATGTGTCGATACATTTATAAAAAGTA
255 TTGTGTCCAGAATGATTTCCTTACCAAGTG-CATCCA-AATGTGTCGATACATTTATAAAAAGTA
*
518448 TCGATCCCAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAATCGGTC
318 TCGATCCCAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCGGTC
518513 TAAATAC
383 TAAATAC
*
518520 ACCGGTTTATGAGAAAACAGATGTACATGAAGTATCGACACTTTTTTAATTTGTGTCGATACTTT
1 ACCGGTTTATGAG-AAACAGGTGTACATGAAGTATCGACACTTTTTTAATTTGTGTCGATACTTT
518585 GTGTCCAGAATG
65 GTGTCCAGAATG
518597 TAAATGGTCA
Statistics
Matches: 437, Mismatches: 19, Indels: 29
0.90 0.04 0.06
Matches are distributed among these distances:
389 2 0.00
390 142 0.32
391 61 0.14
393 15 0.03
394 59 0.14
395 84 0.19
396 19 0.04
397 3 0.01
398 39 0.09
399 13 0.03
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (389 bp):
ACCGGTTTATGAGAAACAGGTGTACATGAAGTATCGACACTTTTTTAATTTGTGTCGATACTTTG
TGTCCAGAATGATTTCCTTACCAAGTCCATGAATGTGTCGATACATTTATAAAAAGTATCGATCC
CAAAACATCGAGACCCATAATTATAATGTAAGGTAAATTATCAATCTAACGGTCTAAATACACCG
TTTATGAGAAAACAGATCTACATAAAGTATCGACACTTGTTTAATTTGTGTCGAATACTTTGTGT
CCAGAATGATTTCCTTACCAAGTGCATCCAAATGTGTCGATACATTTATAAAAAGTATCGATCCC
AAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCGGTCTAAATAC
Found at i:518587 original size:198 final size:195
Alignment explanation
Indices: 517732--518660 Score: 1310
Period size: 198 Copynumber: 4.7 Consensus size: 195
517722 GTCCAAGTAT
*
517732 ACCGTTTTATGAGAAAA-AGGTGTACAT-AAGTATCGACACTTGTTTTAATTTGTGTCGATCCCA
1 ACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTT-TTTTAATTTGTGTCG-----A
*
517795 TACTTTGTGTCCAG-ATGATTTCCTTACCAAGT--GCATGGAATGTGTCGATACATTTATAAAAA
60 TACTTTGTGTCCAGAATGATTTCCTTACCAAGTCACCAT--AATGTGTCGATACATTTATAAAAA
517857 GTATCGATCCCAAAACATCGAGACCCATAATTATAATGT-A-AGGTAAATTATCAATCTAACGGT
123 GTATCGATCCCAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACGGT
517920 CTAAATAC
188 CTAAATAC
* * *
517928 ACC-GTTTATGAGAAAACAGGTCTACATAAAGTATCGACACTTGTTTAATTTGTGTCGATCACAT
1 ACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTTAATTTGTGTCG-----AT
**
517992 ACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGA-AATGTGTCGATACATTTATAAAAAG
61 ACTTTGTGTCCAGAATGATTTCCTTACCAAGT-CA-CCATAATGTGTCGATACATTTATAAAAAG
* *
518056 TATCGATCTCAAAAACATCGAGACCCATAATTATAATGTTATAGGTAAATTATCAATCTAACCGG
124 TATCGATC-CCAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAA-CGG
518121 TCTAAATAC
187 TCTAAATAC
* *
518130 ACTGGTTTATGAG-AAACAGGTGTACATGAAGTATCAACACTTTTTTAATTTGTGTCGATACTTT
1 ACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTTAATTTGTGTCGATACTTT
518194 GTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTAT-AAAAGTATCGA
66 GTGTCCAGAATGATTTCCTTACCAA-GTCACCATAATGTGTCGATACATTTATAAAAAGTATCGA
518258 TCCCAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAA-CTAACTGGTCT-AAT
130 TCCCAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAAC-GGTCTAAAT
518321 AC
194 AC
* *
518323 A-CGGTTTATGAGAAAACAGATGTACATGAAGTATCGACACTTTTTTAATTTGTGTCGATGCTTT
1 ACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTTAATTTGTGTCGATACTTT
518387 GTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTATAAAAAGTATCGA
66 GTGTCCAGAATGATTTCCTTACCAA-GTCACCATAATGTGTCGATACATTTATAAAAAGTATCGA
518452 TCCCAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAATCGGTCTAAA
130 TCCC-AAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAA-CGGTCTAAA
518517 TAC
193 TAC
*
518520 ACCGGTTTATGAGAAAACAGATGTACATGAAGTATCGACACTTTTTTAATTTGTGTCGATACTTT
1 ACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTTAATTTGTGTCGATACTTT
** ** * ** * * **
518585 GTGTCCAGAATGTAAATGGTCAAAAAGTGCACAAAAAAATGTCGATACATTTATAAAAAGTATCG
66 GTGTCCAGAATG-ATTTCCTTACCAAGT-CACCATAATGTGTCGATACATTTATAAAAAGTATCG
*
518650 ATCCTAAAACA
129 ATCCCAAAACA
518661 ATGAAATTCA
Statistics
Matches: 677, Mismatches: 32, Indels: 46
0.90 0.04 0.06
Matches are distributed among these distances:
192 10 0.01
193 108 0.16
194 24 0.04
195 102 0.15
196 68 0.10
197 92 0.14
198 117 0.17
199 71 0.10
200 1 0.00
201 21 0.03
202 54 0.08
203 9 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.32
Consensus pattern (195 bp):
ACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTTAATTTGTGTCGATACTTT
GTGTCCAGAATGATTTCCTTACCAAGTCACCATAATGTGTCGATACATTTATAAAAAGTATCGAT
CCCAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACGGTCTAAATAC
Found at i:518798 original size:17 final size:17
Alignment explanation
Indices: 518776--518811 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
518766 TTTGTCGATA
518776 TTTTG-CATAAATTAGGG
1 TTTTGCCAT-AATTAGGG
518793 TTTTGCCATAATTAGGG
1 TTTTGCCATAATTAGGG
518810 TT
1 TT
518812 GTTTGATTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.44
Consensus pattern (17 bp):
TTTTGCCATAATTAGGG
Found at i:518938 original size:15 final size:15
Alignment explanation
Indices: 518918--518968 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
518908 GAATTGGGGA
*
518918 TCTTCTCAACCCAGC
1 TCTTCTCAACCCACC
518933 TCTTCTCAACCCACC
1 TCTTCTCAACCCACC
*
518948 TCTTCTCAACCCACA
1 TCTTCTCAACCCACC
518963 TCTTCT
1 TCTTCT
518969 GAGGATATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.20, C:0.47, G:0.02, T:0.31
Consensus pattern (15 bp):
TCTTCTCAACCCACC
Found at i:520127 original size:12 final size:12
Alignment explanation
Indices: 520093--520130 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
520083 CAAGCGGTCA
*
520093 ATGAAGATGACG
1 ATGAAGATGATG
520105 ATGAAGATGATG
1 ATGAAGATGATG
*
520117 ATGATGATGATG
1 ATGAAGATGATG
520129 AT
1 AT
520131 TCAAACAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.39, C:0.03, G:0.32, T:0.26
Consensus pattern (12 bp):
ATGAAGATGATG
Found at i:521486 original size:24 final size:24
Alignment explanation
Indices: 521435--521487 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
521425 TTTCATTTAT
* * * *
521435 AATTAGAGTTTGAATTTCAATTTC
1 AATTTGAGTTTGAATTTAAATGTA
521459 AATTTGAGTTTGAATTTAAATGTA
1 AATTTGAGTTTGAATTTAAATGTA
521483 AATTT
1 AATTT
521488 TGGATCCACT
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:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATGTA
Found at i:523216 original size:201 final size:201
Alignment explanation
Indices: 522700--524127 Score: 1847
Period size: 201 Copynumber: 7.1 Consensus size: 201
522690 AATAAATTTG
* * *
522700 CTTTATTCATTCGTGTCGATACATGTTGTCCATAAAGTATTTCCAAACCAAGTGCACGAACAAAG
1 CTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAG
* * * * *
522765 TGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATATAATAG
66 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAG
* ** * * ** * * * * *
522830 GTAAAATAACTATGTAACTAGTCTAAATATACCGG-TTTATGAGAAAAGAGGTATAC-ATAAAGT
131 GTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAAT-ATGT
*
522893 ATGGACA
195 ATCGACA
** * * * * * *
522900 CTTTATAAATTTGT-ACTGATAC-TTTGTGTCCATAATGTGTTTTCCAACCAAAACAAGTTCAC-
1 CTTTATTCATTTGTGTC-GATACATGT-TGTCCAGAATGT-ATTT----CCAAACCAAGTGCACG
* * ** *
522962 AA-ATAAGTGCCGACACATTTATATCAAGTGTCGATCCCAAAAACATTGAAACCCGTAACTATAA
59 AACA-AAGTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCGTAACTATAA
* * *
523026 TGTAATATGTCACTTTACAATGTAACCGGTTTAAATTTACTGATTTTATGAGAAAATAGGTCTAC
123 TGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTAC
523091 AATATGTATCGACA
188 AATATGTATCGACA
* * *
523105 CTTTATTCATTTGTGTCGATACATGTTGTCTAGAATGTATTTCCAAACCAAATGCACGAAAAAAG
1 CTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAG
* * * *
523170 TGTCGATATATTTATAACAAGTGTCAATCCCAAAAACATCGAAACCCGTAACTATAATATAATAG
66 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAG
*
523235 GTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTATACAATATGTA
131 GTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTA
523300 TCGACA
196 TCGACA
*
523306 CTTTATTCATTTGTGTCGATACATGTTGTCCAAAATGTATTTCCAAACCAAGTGCACGAACAAAG
1 CTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAG
* * * *
523371 TGTTGATACATTTATAAAAAATATCGATCCCAAAAACATCGAGACCCGTAACTATAATGTAATAG
66 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAG
*
523436 GTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTG
131 GTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTA
523501 TCGACA
196 TCGACA
* *
523507 CTTTATTCATTTGTGTTGATACATGTTGTCCAGAATGTATTTCCAAACCAACTGCACGAACAAAG
1 CTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAG
* * *
523572 TGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCGTAACTATAATGTAATAT
66 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAG
* * *
523637 GTCACTTTACAATGTAACCAGTTTAAATTTACTGGTTTTATGAGAAAATAGGTCTACAATATGTG
131 GTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTA
*
523702 TCGGCA
196 TCGACA
*
523708 CTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCAC-TACAAAG
1 CTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAG
* * * *
523772 TGTCGATACATTTATAAAAAGTGTCGATCCTAAAAACATCGAAACACATAATTATAATGTAATAG
66 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAG
* * * * * * * * *
523837 GTAACATAACAATGTAACCGGTCTAAATATACTGGTTAT-TGA-AAAAAAGGTATAC-ATAATGT
131 GTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAAT-ATGT
*
523899 ATCGATA
195 ATCGACA
* * * * * ** *
523906 CTTTATACATTTGTGTCGACAC-TTTATGTCCATACTAAATTTTCCAAA-CAAGTTCACGAA-AA
1 CTTTATTCATTTGTGTCGATACATGT-TGTCCAGAATGTA-TTTCCAAACCAAGTGCACGAACAA
* * * *
523968 AGTGTCGATACATTTATAAAAAGTGTCGATCCTAAAAACATCAAAACCTGTAATTATAATGTAAT
64 AGTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAAT
* * *
524033 AGGTCACTTTACAATGTAACCAGTTGAAATTTACCGGTTTTATGAGATAATAGGTCTACAATATG
129 AGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATG
524098 TATCGACA
194 TATCGACA
524106 CTTTATTCATTTGTGTCGATAC
1 CTTTATTCATTTGTGTCGATAC
524128 TTTTTAAAAT
Statistics
Matches: 1078, Mismatches: 129, Indels: 42
0.86 0.10 0.03
Matches are distributed among these distances:
197 4 0.00
198 151 0.14
199 18 0.02
200 175 0.16
201 569 0.53
202 1 0.00
203 1 0.00
204 86 0.08
205 68 0.06
206 5 0.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (201 bp):
CTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAG
TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAG
GTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTA
TCGACA
Found at i:523913 original size:22 final size:21
Alignment explanation
Indices: 523887--523932 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
523877 GAAAAAAAGG
*
523887 TATACATAATGTATCGATACTT
1 TATACAT-ATGTATCGACACTT
* *
523909 TATACATTTGTGTCGACACTT
1 TATACATATGTATCGACACTT
523930 TAT
1 TAT
523933 GTCCATACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
TATACATATGTATCGACACTT
Found at i:527757 original size:198 final size:199
Alignment explanation
Indices: 527289--527758 Score: 533
Period size: 197 Copynumber: 2.4 Consensus size: 199
527279 GATTTTGTGT
* * * *
527289 CGATAATTATAATGTAATAGGTAAATTTCCAATGTAACCGG-TAGAAATATATCGGGTTCATGAG
1 CGATAATCATAATGTAATAGGTAAATTTACAATGTAACCGGTTA-AAATATA-CCGGTTAATGAG
* * * *
527353 AGAATAGGTCAACATAAAGTATCGACACTTTGTTTAATTTGTGTCGATACATTTTTTCAAAATGA
64 AAAATAGGTCAACATAAAGTATCGACACTCTGTTAAATATGTGTCGATACATTTTTTCAAAATGA
* * * *
527418 ATGGCAAACGAGGTGTACGCATAAAGTGTCGATACATTTGTAAAAAGTATCGATCCTCGAAACAT
129 AAGACAAACGAGGTGCACGCATAAAGTGTAGATACATTTGTAAAAAGTATCGATCCTCGAAACAT
*
527483 CGAAAT
194 CGAAAC
* * * * * *
527489 CGATAATTATTATGTAACAAGTAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATTAGCA
1 CGATAATCATAATGTAATAGGTAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATGAGAA
* * * *
527554 AATAGGTCTACATTATGTATCGATACTCT-TTAAATATGTGTCGATAC-TTTTTTCTAAAAT-AA
66 AATAGGTCAACATAAAGTATCGACACTCTGTTAAATATGTGTCGATACATTTTTTC-AAAATGAA
* *
527616 AGCACAAACGAGTTGCACGCATAAAGTGTAGATACA-TT-TAAAATTGTATCGATCC-CGAAAAC
130 AG-ACAAACGAGGTGCACGCATAAAGTGTAGATACATTTGTAAAA-AGTATCGATCCTCG-AAAC
527678 ATCGAAAC
192 ATCGAAAC
* * * * * *
527686 CGAT-ATACATAATGTAATAGGTCAATTTATAATGTAACCAGTTTAAATTTACCGGTTTTATGAG
1 CGATAAT-CATAATGTAATAGGTAAATTTACAATGTAACCGGTTAAAATATACCGG-TTAATGAG
527750 AAAATAGGT
64 AAAATAGGT
527759 TAATATAAGC
Statistics
Matches: 228, Mismatches: 35, Indels: 16
0.82 0.13 0.06
Matches are distributed among these distances:
196 9 0.04
197 76 0.33
198 64 0.28
199 33 0.14
200 44 0.19
201 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (199 bp):
CGATAATCATAATGTAATAGGTAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATGAGAA
AATAGGTCAACATAAAGTATCGACACTCTGTTAAATATGTGTCGATACATTTTTTCAAAATGAAA
GACAAACGAGGTGCACGCATAAAGTGTAGATACATTTGTAAAAAGTATCGATCCTCGAAACATCG
AAAC
Found at i:527863 original size:87 final size:87
Alignment explanation
Indices: 527761--527923 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
527751 AAATAGGTTA
*
527761 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATTTGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
*
527826 CCGGTTAAATGCCTATTTTATT
66 CCGATTAAATGCCTATTTTATT
*
527848 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
527913 CCGATTAAATG
66 CCGATTAAATG
527924 ATATAACATA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.40
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGATTAAATGCCTATTTTATT
Found at i:527895 original size:23 final size:23
Alignment explanation
Indices: 527845--527889 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
527835 TGCCTATTTT
*
527845 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
527868 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
527890 TGTTATTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:528823 original size:21 final size:21
Alignment explanation
Indices: 528794--528846 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
528784 TATTACATTA
* *
528794 ATATAACTATAATTTATAAATT
1 ATAT-ACTATAAGTTATAAAGT
*
528816 ATATACTATAGGTTATAAAGT
1 ATATACTATAAGTTATAAAGT
*
528837 ATAAACTATA
1 ATATACTATA
528847 TAGTACACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (21 bp):
ATATACTATAAGTTATAAAGT
Found at i:528940 original size:24 final size:22
Alignment explanation
Indices: 528892--528961 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 22
528882 AAGTTACATA
* *
528892 TATAGTTTATATA-ACATATA-
1 TATAGATTATATATATATATAC
* *
528912 AATAGATTGTATATATACGTATAC
1 TATAGATTATATATATA--TATAC
*
528936 TATAGGTTATATATATATATAC
1 TATAGATTATATATATATATAC
528958 TATA
1 TATA
528962 CATAGTTTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
20 10 0.26
21 2 0.05
22 9 0.23
23 4 0.10
24 14 0.36
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (22 bp):
TATAGATTATATATATATATAC
Found at i:528950 original size:26 final size:26
Alignment explanation
Indices: 528921--528979 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
528911 AAATAGATTG
528921 TATATATACGTATACTATAGGTTATATA
1 TATATATAC-TATAC-ATAGGTTATATA
* *
528949 TATATATACTATACATAGTTTATACA
1 TATATATACTATACATAGGTTATATA
528975 TATAT
1 TATAT
528980 GCACTATAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 15 0.52
27 5 0.17
28 9 0.31
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (26 bp):
TATATATACTATACATAGGTTATATA
Found at i:528972 original size:22 final size:22
Alignment explanation
Indices: 528893--528978 Score: 59
Period size: 20 Copynumber: 3.7 Consensus size: 22
528883 AGTTACATAT
* *
528893 ATAGTTTATATA-ACA-TATAA
1 ATAGTTTATATATATACTATAC
* *
528913 ATAGATTGTATATATACGTATAC
1 ATAGTTTATATATATAC-TATAC
528936 TATAGGTTATATATATATATACTATAC
1 -ATA-G-T-T-TATATATATACTATAC
*
528963 ATAGTTTATACATATA
1 ATAGTTTATATATATA
528979 TGCACTATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
20 10 0.20
21 2 0.04
22 9 0.18
23 5 0.10
24 4 0.08
25 2 0.04
26 3 0.06
27 6 0.12
28 10 0.20
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (22 bp):
ATAGTTTATATATATACTATAC
Done.