Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_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: 8415618
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 28 of 40
Found at i:5758866 original size:49 final size:49
Alignment explanation
Indices: 5758813--5759089 Score: 131
Period size: 53 Copynumber: 5.3 Consensus size: 49
5758803 ATTATTACAT
5758813 TATTATTAATATTAAATATATAATAT-ATTCATTATTAATAATTTAATA-A
1 TATTATTAATATTAAATATATAATATAATT--TTATTAATAATTTAATATA
** * *
5758862 TATTATTTCTATGAAATTAATAAATAATATAAATTTTATTAATAATTTATTATA
1 TATTATTAATATTAAA-T-AT--ATAATAT-AATTTTATTAATAATTTAATATA
* * * *
5758916 TATTATTAA-AATAAAGATATAATAT-CTTTTATTATTATAATATAATTGATTA
1 TATTATTAATATTAAATATATAATATAATTTTATTA--ATAATTTAA-T-A-TA
* * * * *
5758968 TTTTATTATAATATTAAAAATATAATATTATATTATTAGA-AATAATAATAAATA
1 TATTA-T-TAATATTAAATATATAATATAATTTTATTA-ATAAT-TTAAT--ATA
* *
5759022 TATT-TTAAATATTTTAATA-ATTAATAT--TTTTATTAAAATAATATTAAAATA
1 TATTATT-AATA-TTAAATATA-TAATATAATTTTATT--AATAAT-TTAATATA
*
5759073 TTTTATTAATATTAAAT
1 TATTATTAATATTAAAT
5759090 TCATAAAATA
Statistics
Matches: 176, Mismatches: 27, Indels: 49
0.70 0.11 0.19
Matches are distributed among these distances:
47 8 0.05
49 27 0.15
50 7 0.04
51 22 0.12
52 15 0.09
53 47 0.27
54 20 0.11
55 23 0.13
56 7 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (49 bp):
TATTATTAATATTAAATATATAATATAATTTTATTAATAATTTAATATA
Found at i:5758990 original size:32 final size:32
Alignment explanation
Indices: 5758954--5759023 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
5758944 TTATTATTAT
* * *
5758954 AATATAATTGATTATTTTATTA-TAATATTAA-A
1 AATATAA-T-ATTATATTATTAGAAATAATAATA
5758986 AATATAATATTATATTATTAGAAATAATAATA
1 AATATAATATTATATTATTAGAAATAATAATA
5759018 AATATA
1 AATATA
5759024 TTTTAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 11 0.33
31 8 0.24
32 14 0.42
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (32 bp):
AATATAATATTATATTATTAGAAATAATAATA
Found at i:5758999 original size:22 final size:23
Alignment explanation
Indices: 5758971--5759017 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
5758961 TTGATTATTT
5758971 TATTATAATATTAAAAAT-ATAA
1 TATTATAATATTAAAAATAATAA
* *
5758993 TATTATATTATTAGAAATAATAA
1 TATTATAATATTAAAAATAATAA
5759016 TA
1 TA
5759018 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TATTATAATATTAAAAATAATAA
Found at i:5759022 original size:22 final size:22
Alignment explanation
Indices: 5758979--5759022 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
5758969 TTTATTATAA
*
5758979 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
5759001 TATTAGAAATAATAATA-AATAT
1 TATTAAAAAT-ATAATATAATAT
5759023 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:5771828 original size:15 final size:15
Alignment explanation
Indices: 5771808--5771837 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5771798 CTTTCTCATA
5771808 GTTGTTGTTGGAATT
1 GTTGTTGTTGGAATT
*
5771823 GTTGTTGTTGTAATT
1 GTTGTTGTTGGAATT
5771838 ACAGCCTCGT
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:0.13, C:0.00, G:0.30, T:0.57
Consensus pattern (15 bp):
GTTGTTGTTGGAATT
Found at i:5776322 original size:21 final size:23
Alignment explanation
Indices: 5776289--5776333 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
5776279 GAAAAAAATG
*
5776289 TTTTTATTCATTTTTAACA-ATA
1 TTTTTAATCATTTTTAACATATA
5776311 TTTTTAAT-ATTTTTAACATATA
1 TTTTTAATCATTTTTAACATATA
5776333 T
1 T
5776334 ATATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTTAATCATTTTTAACATATA
Found at i:5776341 original size:21 final size:21
Alignment explanation
Indices: 5776298--5776343 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
5776288 GTTTTTATTC
* *
5776298 ATTTTTAACAATATTTTTAAT
1 ATTTTTAACAATATATATAAT
5776319 ATTTTTAACATATATATATATAT
1 ATTTTTAACA-ATATATATA-AT
5776342 AT
1 AT
5776344 ATAATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 7 0.33
23 4 0.19
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTTTAACAATATATATAAT
Found at i:5776384 original size:19 final size:18
Alignment explanation
Indices: 5776363--5776397 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5776353 TAATAATTTT
5776363 TTTTA-ATTTTTTATTATG
1 TTTTATATTTTTT-TTATG
5776381 TTTTATATTTTTTTTAT
1 TTTTATATTTTTTTTAT
5776398 TTAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTATATTTTTTTTATG
Found at i:5776713 original size:3 final size:3
Alignment explanation
Indices: 5776705--5776730 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5776695 GGACTTTAAT
5776705 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
5776731 TTATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:5778706 original size:26 final size:25
Alignment explanation
Indices: 5778668--5778716 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
5778658 AATATAGATA
*
5778668 AATGAAATTTTA-TTATTTTTAATC
1 AATGAAATTTTATTTACTTTTAATC
5778692 AATGATAATTTTTATTTACTTTTAA
1 AATGA-AA-TTTTATTTACTTTTAA
5778717 ATATTACAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 2 0.10
26 5 0.24
27 9 0.43
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (25 bp):
AATGAAATTTTATTTACTTTTAATC
Found at i:5781237 original size:21 final size:21
Alignment explanation
Indices: 5781191--5781243 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
5781181 GAGAGGCGTC
**
5781191 ATGTGGTGATGAAGTGAATGG
1 ATGTGGTGATGAAGTGAATAA
*
5781212 TTGTGGTGATGAAGTGAATAA
1 ATGTGGTGATGAAGTGAATAA
*
5781233 ATGTGATGATG
1 ATGTGGTGATG
5781244 TTGATAGTGA
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:0.30, C:0.00, G:0.38, T:0.32
Consensus pattern (21 bp):
ATGTGGTGATGAAGTGAATAA
Found at i:5790390 original size:60 final size:59
Alignment explanation
Indices: 5790261--5790411 Score: 171
Period size: 60 Copynumber: 2.5 Consensus size: 59
5790251 GTATCACATG
* * * *
5790261 TTCCTAAACTATGA-TCTTCATTTTAAATTGATCCTTAAATGTTTGAATATTTCAGTTTA
1 TTCCTAAACTATGACTC-TCATTTTAAACTAAACCTTAAATGTATGAATATTTCAGTTTA
* *
5790320 ATCCTTAAACTATGACTCTCATTTTAAACTAAACCTTAAACT-TATGAATATTTCAATTTTA
1 TTCC-TAAACTATGACTCTCATTTTAAACTAAACCTTAAA-TGTATGAATATTTC-AGTTTA
* * *
5790381 TTCCCAAACTATGACACTCATTCTAAACTAA
1 TTCCTAAACTATGACTCTCATTTTAAACTAA
5790412 TCCCTAACAT
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
59 3 0.04
60 64 0.82
61 11 0.14
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.41
Consensus pattern (59 bp):
TTCCTAAACTATGACTCTCATTTTAAACTAAACCTTAAATGTATGAATATTTCAGTTTA
Found at i:5790428 original size:60 final size:60
Alignment explanation
Indices: 5790302--5790430 Score: 154
Period size: 60 Copynumber: 2.1 Consensus size: 60
5790292 TCCTTAAATG
* * * *
5790302 TTTGAATATTTCAGTTTAATCCTTAAACTATGACTCTCATTTTAAACTAAACCTTAAACT
1 TTTGAATATTTCAGTTTAATCCTCAAACTATGACACTCATTCTAAACTAAACCCTAAACT
* * * *
5790362 TATGAATATTTCAATTTTATTCC-CAAACTATGACACTCATTCTAAACTAATCCCT-AACAT
1 TTTGAATATTTC-AGTTTAATCCTCAAACTATGACACTCATTCTAAACTAAACCCTAAAC-T
5790422 TTTGAATAT
1 TTTGAATAT
5790431 CCAAGTTTCA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
59 3 0.05
60 47 0.81
61 8 0.14
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (60 bp):
TTTGAATATTTCAGTTTAATCCTCAAACTATGACACTCATTCTAAACTAAACCCTAAACT
Found at i:5791670 original size:22 final size:21
Alignment explanation
Indices: 5791633--5791676 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 21
5791623 TGTGAAAAAT
5791633 AAAATATTAAAATTAT-TTTA
1 AAAATATTAAAATTATATTTA
*
5791653 AAAATATATAAATTTTATATTTA
1 AAAATAT-TAAA-ATTATATTTA
5791676 A
1 A
5791677 TTTTCTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 4 0.20
22 4 0.20
23 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AAAATATTAAAATTATATTTA
Found at i:5793262 original size:16 final size:16
Alignment explanation
Indices: 5793241--5793274 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
5793231 GTGATTCAAG
5793241 TAGTTTACCCTTAATT
1 TAGTTTACCCTTAATT
5793257 TAGTTTACCCTTAATT
1 TAGTTTACCCTTAATT
5793273 TA
1 TA
5793275 ATTAAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.06, T:0.50
Consensus pattern (16 bp):
TAGTTTACCCTTAATT
Found at i:5794862 original size:16 final size:17
Alignment explanation
Indices: 5794836--5794875 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
5794826 TTATTTATTC
*
5794836 AATTA-AAAAAATTTTA
1 AATTATAAAAAATTCTA
5794852 AA-TATAAAAAATTCTA
1 AATTATAAAAAATTCTA
5794868 AATTATAA
1 AATTATAA
5794876 TTAATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 14 0.67
17 5 0.24
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTATAAAAAATTCTA
Found at i:5794937 original size:67 final size:69
Alignment explanation
Indices: 5794796--5794945 Score: 223
Period size: 67 Copynumber: 2.2 Consensus size: 69
5794786 ATATAGATAT
5794796 TAAATTATAATTAATAAATAAAATAAATAATTATTTATTCAATTAAAAAAATTTTAAATATAAAA
1 TAAATTATAATTAATAAATAAAATAAATAATTATTTATTCAATT-AAAAAATTTTAAATATAAAA
*
5794861 AATTC
65 AACTC
* * **
5794866 TAAATTATAATTAATAAAT-AAGTCAATAATTATTTATTTGATT-AAAAATTTTAAATATAAAAA
1 TAAATTATAATTAATAAATAAAATAAATAATTATTTATTCAATTAAAAAATTTTAAATATAAAAA
*
5794929 ACTG
66 ACTC
5794933 TAAATTATAATTA
1 TAAATTATAATTA
5794946 TTTATTCGAC
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
67 35 0.47
69 20 0.27
70 19 0.26
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (69 bp):
TAAATTATAATTAATAAATAAAATAAATAATTATTTATTCAATTAAAAAATTTTAAATATAAAAA
ACTC
Found at i:5795113 original size:27 final size:30
Alignment explanation
Indices: 5795083--5795151 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 30
5795073 ATAATTAATA
5795083 AATAAAAATTAAAG-ATTATTT-TTT-ATT
1 AATAAAAATTAAAGAATTATTTCTTTCATT
* * *
5795110 AATAGAAGTT-ATGAATTATTTCTTTCATT
1 AATAAAAATTAAAGAATTATTTCTTTCATT
5795139 AATAAAAATTAAA
1 AATAAAAATTAAA
5795152 AACAATAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
26 2 0.06
27 15 0.47
28 3 0.09
29 11 0.34
30 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (30 bp):
AATAAAAATTAAAGAATTATTTCTTTCATT
Found at i:5797907 original size:31 final size:35
Alignment explanation
Indices: 5797872--5797943 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 35
5797862 ATATTCTCTC
* *
5797872 AATTTAGTCATACTTTT-AAT-AAGTTAA-AAT-A
1 AATTTAATCATAATTTTAAATGAAGTTAATAATAA
5797903 AATTTAATCATAATTTTAAATGAAGTTAATAATAA
1 AATTTAATCATAATTTTAAATGAAGTTAATAATAA
5797938 AATTTA
1 AATTTA
5797944 TTTAATAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 15 0.43
32 3 0.09
33 7 0.20
34 3 0.09
35 7 0.20
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.42
Consensus pattern (35 bp):
AATTTAATCATAATTTTAAATGAAGTTAATAATAA
Found at i:5798356 original size:31 final size:31
Alignment explanation
Indices: 5798321--5798379 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
5798311 GTTAAACTGT
5798321 AGTGACCACATCATAATTAAATAAAAACGAA
1 AGTGACCACATCATAATTAAATAAAAACGAA
*
5798352 AGTGACCACATCTTAATTAAATAAAAAC
1 AGTGACCACATCATAATTAAATAAAAAC
5798380 AAAAATAACC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.53, C:0.17, G:0.08, T:0.22
Consensus pattern (31 bp):
AGTGACCACATCATAATTAAATAAAAACGAA
Found at i:5799664 original size:25 final size:26
Alignment explanation
Indices: 5799636--5799685 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
5799626 TAATTTATAA
5799636 TTAAATT-TAAAGATACTGATTTGAG
1 TTAAATTATAAAGATACTGATTTGAG
*
5799661 TTAAATTATAAAGATGCTGATTTGA
1 TTAAATTATAAAGATACTGATTTGA
5799686 ATTTGATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (26 bp):
TTAAATTATAAAGATACTGATTTGAG
Found at i:5828897 original size:39 final size:39
Alignment explanation
Indices: 5828843--5828921 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
5828833 CATGAGTCGT
5828843 ATTAACACCAAATAACATGCTTTTCTTTAGGTTCAGTTG
1 ATTAACACCAAATAACATGCTTTTCTTTAGGTTCAGTTG
*
5828882 ATTAACACCAAATAACCTGCTTTTCTTTAGGTTCAGTTG
1 ATTAACACCAAATAACATGCTTTTCTTTAGGTTCAGTTG
5828921 A
1 A
5828922 AGACCATACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (39 bp):
ATTAACACCAAATAACATGCTTTTCTTTAGGTTCAGTTG
Found at i:5840750 original size:95 final size:95
Alignment explanation
Indices: 5840645--5840842 Score: 294
Period size: 95 Copynumber: 2.1 Consensus size: 95
5840635 AAAAAATTAT
* *
5840645 TTTATTTGAAAATTATT-ATCCGAATCGAATTAACTGAA-TTTTTTTCTGTAACCATTAATCAAA
1 TTTATTTGAAAATTATTAAT-CGAACCAAATTAACTGAATTTTTTTTCTGTAA-CATTAATCAAA
* * *
5840708 CTGAAATTATTTGACCGTTAATTGAACTAAAA
64 CCGAAATTATTTGACCGTTAATCGAACCAAAA
*
5840740 TTTATTTGAAAATTATTAATCGAACCAAATTAACTGAATTTTTTTTCTTTAACATTAATCAAACC
1 TTTATTTGAAAATTATTAATCGAACCAAATTAACTGAATTTTTTTTCTGTAACATTAATCAAACC
*
5840805 GAAATTATTTGACTGTTAATCGAACCAAAA
66 GAAATTATTTGACCGTTAATCGAACCAAAA
5840835 -TTATTTGA
1 TTTATTTGA
5840843 CCGTTAATCG
Statistics
Matches: 94, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
94 8 0.09
95 72 0.77
96 14 0.15
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (95 bp):
TTTATTTGAAAATTATTAATCGAACCAAATTAACTGAATTTTTTTTCTGTAACATTAATCAAACC
GAAATTATTTGACCGTTAATCGAACCAAAA
Found at i:5840830 original size:26 final size:26
Alignment explanation
Indices: 5840794--5841030 Score: 113
Period size: 26 Copynumber: 8.8 Consensus size: 26
5840784 TTCTTTAACA
* * *
5840794 TTAATCAAACCGAAATTATTTGACTG
1 TTAATCGAACCAAAATTATTTGACCG
5840820 TTAATCGAACCAAAATTATTTGACCG
1 TTAATCGAACCAAAATTATTTGACCG
***
5840846 TTAATCGAACCAAAATTTATTT-AAAA
1 TTAATCGAACCAAAA-TTATTTGACCG
* * ** * * *
5840872 TTTAT-TAACCGAATTTTTTTTCTTTAACCA
1 TTAATCGAACC-AA----AATTATTTGACCG
*
5840902 TTAATCGAACCGAAATTATTTGACCG
1 TTAATCGAACCAAAATTATTTGACCG
** * ***
5840928 TTAATCGAACTGGAATTTATTTGAAAA
1 TTAATCGAAC-CAAAATTATTTGACCG
* * *
5840955 TT-AT-TAACCAAAATTTTTTATTTAACCA
1 TTAATCGAACCAAAA----TTATTTGACCG
*
5840983 TTAATCGAACCAAAATTATTTGACCA
1 TTAATCGAACCAAAATTATTTGACCG
*
5841009 TTAATCGAACCCAAATTTATTT
1 TTAATCGAA-CCAAAATTATTT
5841031 TATTCGGCTA
Statistics
Matches: 159, Mismatches: 36, Indels: 31
0.70 0.16 0.14
Matches are distributed among these distances:
24 2 0.01
25 7 0.04
26 84 0.53
27 30 0.19
28 10 0.06
29 7 0.04
30 15 0.09
31 4 0.03
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (26 bp):
TTAATCGAACCAAAATTATTTGACCG
Found at i:5841018 original size:81 final size:82
Alignment explanation
Indices: 5840820--5841030 Score: 318
Period size: 81 Copynumber: 2.6 Consensus size: 82
5840810 TATTTGACTG
5840820 TTAATCGAACCAAAATTATTTGACCGTTAATCGAACCAAAATTTATTTAAAATTTATTAACCGAA
1 TTAATCGAACCAAAATTATTTGACCGTTAATCGAACCAAAATTTATTTAAAATTTATTAACCGAA
** *
5840885 TTTTTTTTCTTTAACCA
66 AATTTTTTATTTAACCA
* ***
5840902 TTAATCGAACCGAAATTATTTGACCGTTAATCGAACTGGAATTTATTTGAAAA-TTATTAACC-A
1 TTAATCGAACCAAAATTATTTGACCGTTAATCGAACCAAAATTTATTT-AAAATTTATTAACCGA
5840965 AAATTTTTTATTTAACCA
65 AAATTTTTTATTTAACCA
* *
5840983 TTAATCGAACCAAAATTATTTGACCATTAATCGAACCCAAATTTATTT
1 TTAATCGAACCAAAATTATTTGACCGTTAATCGAACCAAAATTTATTT
5841031 TATTCGGCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
81 59 0.51
82 53 0.46
83 4 0.03
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (82 bp):
TTAATCGAACCAAAATTATTTGACCGTTAATCGAACCAAAATTTATTTAAAATTTATTAACCGAA
AATTTTTTATTTAACCA
Found at i:5841307 original size:77 final size:79
Alignment explanation
Indices: 5841132--5841352 Score: 340
Period size: 77 Copynumber: 2.8 Consensus size: 79
5841122 ATTTGGTTTG
* *
5841132 GTTCGATTAACGGTTAAATAATTTTGGTTCGATTAATGGTTAAAGAAAAAAAATTGGTTAATAAT
1 GTTCGATTAACGGTCAAATAATTTCGGTTCGATTAAT-GTTAAAGAAAAAAAATTGGTTAAT-AT
*
5841197 TTTCAAATAAATTTCG
64 TTTCAAATAAATTTCA
5841213 GTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGTTAAAGAAAAAAAATCT-GTT-AT-TT
1 GTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGTTAAAGAAAAAAAAT-TGGTTAATATT
5841275 TTCAAATAAATTTCA
65 TTCAAATAAATTTCA
*
5841290 GTTCGATTAACGGTCAAATAATTTCGGTTTCTATTAATGTTAAAGAAAAAAAATTCGGTTAAT
1 GTTCGATTAACGGTCAAATAATTTCGG-TTCGATTAATGTTAAAGAAAAAAAATT-GGTTAAT
5841353 TTGGTTCGGT
Statistics
Matches: 131, Mismatches: 4, Indels: 11
0.90 0.03 0.08
Matches are distributed among these distances:
77 44 0.34
78 25 0.19
79 5 0.04
80 21 0.16
81 36 0.27
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.38
Consensus pattern (79 bp):
GTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGTTAAAGAAAAAAAATTGGTTAATATTT
TCAAATAAATTTCA
Found at i:5842296 original size:17 final size:17
Alignment explanation
Indices: 5842274--5842306 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
5842264 ACGCGTATGT
5842274 ATAGATATTATCTTTCG
1 ATAGATATTATCTTTCG
5842291 ATAGATATTATCTTTC
1 ATAGATATTATCTTTC
5842307 AACTTTCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.48
Consensus pattern (17 bp):
ATAGATATTATCTTTCG
Found at i:5843330 original size:15 final size:14
Alignment explanation
Indices: 5843310--5843386 Score: 68
Period size: 14 Copynumber: 5.4 Consensus size: 14
5843300 AAATAATTAA
5843310 AATAATATATTTTAT
1 AATAATATA-TTTAT
5843325 AATAATATATTTAT
1 AATAATATATTTAT
* *
5843339 AATTATTTATTATAT
1 AATAATATATT-TAT
* **
5843354 TATAA-ACGTTTA-
1 AATAATATATTTAT
5843366 AATTAATATATTTAT
1 AA-TAATATATTTAT
5843381 AATAAT
1 AATAAT
5843387 TTTAATATTT
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
12 1 0.02
13 5 0.10
14 25 0.52
15 17 0.35
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (14 bp):
AATAATATATTTAT
Found at i:5843418 original size:20 final size:20
Alignment explanation
Indices: 5843301--5843432 Score: 70
Period size: 20 Copynumber: 6.8 Consensus size: 20
5843291 AATATTTTAA
5843301 AATAATTAAAATAATATATTT
1 AATAATT-AAATAATATATTT
5843322 --T-A-T-AATAATATATTT
1 AATAATTAAATAATATATTT
** *
5843337 -ATAATTATTTATTATATTAT
1 AATAATTAAATAATATATT-T
*
5843357 AA-ACGTTTAAATTAATATATTT
1 AATA--ATTAAA-TAATATATTT
*
5843379 -ATAA-TAATTTTAATAT-TTT
1 AATAATTAA--ATAATATATTT
5843398 AATAATTAAATAATATATTT
1 AATAATTAAATAATATATTT
5843418 AATAATGT-AATAATA
1 AATAAT-TAAATAATA
5843433 AAAATTCTTA
Statistics
Matches: 85, Mismatches: 10, Indels: 33
0.66 0.08 0.26
Matches are distributed among these distances:
15 12 0.14
16 1 0.01
17 2 0.02
18 2 0.02
19 21 0.25
20 28 0.33
21 6 0.07
22 5 0.06
23 8 0.09
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (20 bp):
AATAATTAAATAATATATTT
Found at i:5843982 original size:16 final size:16
Alignment explanation
Indices: 5843969--5844000 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5843959 TAAAAATATA
5843969 TAAAAAATAAAATAAT
1 TAAAAAATAAAATAAT
*
5843985 TAAAAAATAAGATAAT
1 TAAAAAATAAAATAAT
5844001 AATTATTACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (16 bp):
TAAAAAATAAAATAAT
Found at i:5845469 original size:23 final size:23
Alignment explanation
Indices: 5845419--5845469 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
5845409 ATCTTATATT
5845419 ATATTTTAAAAAGTATTAATTAA
1 ATATTTTAAAAAGTATTAATTAA
* * *
5845442 TTATTTTAAATA-TATTTATTAAA
1 ATATTTTAAAAAGTATTAATT-AA
5845465 ATATT
1 ATATT
5845470 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAAGTATTAATTAA
Found at i:5845611 original size:52 final size:52
Alignment explanation
Indices: 5845515--5845613 Score: 132
Period size: 52 Copynumber: 1.9 Consensus size: 52
5845505 ATATTGTTCA
*
5845515 TTATTAATAATTTAATAATATTATTTCTATAAATTAATAAATAATATAAATT
1 TTATTAATAATTTAATAATATTATTTCTATAAATTAAAAAATAATATAAATT
*
5845567 TTATTAATAATTTATTATATATTATTAT-TA-AAA-TAAAAATATAATAT
1 TTATTAATAATTTAATA-ATATTATT-TCTATAAATTAAAAA-ATAATAT
5845614 CTTATATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
51 5 0.12
52 26 0.62
53 10 0.24
54 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (52 bp):
TTATTAATAATTTAATAATATTATTTCTATAAATTAAAAAATAATATAAATT
Found at i:5845672 original size:22 final size:23
Alignment explanation
Indices: 5845644--5845690 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
5845634 TTGAGTATTT
5845644 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
5845666 TATTATATTATTATAAATATTAA
1 TATTATAATATTAAAAATATTAA
5845689 TA
1 TA
5845691 AACATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:5845717 original size:55 final size:54
Alignment explanation
Indices: 5845600--5845761 Score: 126
Period size: 53 Copynumber: 3.1 Consensus size: 54
5845590 ATTATTAAAA
** * *
5845600 TAAAAATATAATATCTTATATTATTATAATATAATTGAGTATTTTATTATAATAT
1 TAAAAATATAATA-CTTATATTATTATAATATAATAAAATATTTTATAATAATAT
*
5845655 TAAAAATATAATA-TTATATTATTATAAATATTAATAAACATATTTTA-AAT-ATTT
1 TAAAAATATAATACTTATATTATTAT-AATA-TAATAAA-ATATTTTATAATAATAT
* * * * *
5845709 TAATAA-ATAATA-TT-T-TGATTAAAATGATATTAAAATACTTTAT--TAATAT
1 TAAAAATATAATACTTATATTATTATAAT-ATAATAAAATATTTTATAATAATAT
5845758 TAAA
1 TAAA
5845762 TTCATAAAAT
Statistics
Matches: 89, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
48 1 0.01
49 13 0.15
50 9 0.10
51 6 0.07
52 1 0.01
53 20 0.22
54 12 0.13
55 20 0.22
56 7 0.08
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (54 bp):
TAAAAATATAATACTTATATTATTATAATATAATAAAATATTTTATAATAATAT
Found at i:5852169 original size:51 final size:51
Alignment explanation
Indices: 5852093--5852193 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
5852083 TAAGGAAATG
* *
5852093 ATAGGCTGTAAAGAAATATTGGTTTGAACAGGTTGAAATTCCTTGTAACTA
1 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACTA
* *
5852144 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGTAATTCTTTGTAACT
1 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACT
5852194 CTCCCCCTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.34
Consensus pattern (51 bp):
ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACTA
Found at i:5862190 original size:21 final size:21
Alignment explanation
Indices: 5862164--5862217 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
5862154 AGTGCAAGTG
*
5862164 CATGGATGCACTGCAGGGATA
1 CATGGATGCACTACAGGGATA
* *
5862185 CATGGATGCACTACAGGGGTG
1 CATGGATGCACTACAGGGATA
*
5862206 CATCGATGCACT
1 CATGGATGCACT
5862218 TTGACATCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.20
Consensus pattern (21 bp):
CATGGATGCACTACAGGGATA
Found at i:5862343 original size:30 final size:30
Alignment explanation
Indices: 5862299--5862356 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
5862289 CTTTGAATAT
5862299 ATTCAATTAAGTCCAAAAA-CATTTTGTAA
1 ATTCAATTAAGTCCAAAAACCATTTTGTAA
5862328 ATTCAATTCAAGTCCAAAAACCATTTTGT
1 ATTCAATT-AAGTCCAAAAACCATTTTGT
5862357 CTTAAATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 8 0.30
30 11 0.41
31 8 0.30
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (30 bp):
ATTCAATTAAGTCCAAAAACCATTTTGTAA
Found at i:5862811 original size:12 final size:12
Alignment explanation
Indices: 5862794--5862819 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5862784 ATCCAAGTCT
5862794 AAAATATTTTAC
1 AAAATATTTTAC
5862806 AAAATATTTTAC
1 AAAATATTTTAC
5862818 AA
1 AA
5862820 GTCTAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATATTTTAC
Found at i:5865098 original size:22 final size:22
Alignment explanation
Indices: 5865046--5865124 Score: 101
Period size: 22 Copynumber: 3.7 Consensus size: 22
5865036 CGGTGTTTGA
5865046 GTGCATGGATGCACT--T-CAT
1 GTGCATGGATGCACTAGTGCAT
*
5865065 GGTGCATCGATGCACTAGTGCAT
1 -GTGCATGGATGCACTAGTGCAT
*
5865088 GTGCATGGATGCACTAGTGCAG
1 GTGCATGGATGCACTAGTGCAT
*
5865110 GGGCATGGATGCACT
1 GTGCATGGATGCACT
5865125 GCAGGGATGC
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
20 14 0.27
22 35 0.67
23 3 0.06
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (22 bp):
GTGCATGGATGCACTAGTGCAT
Found at i:5865149 original size:13 final size:13
Alignment explanation
Indices: 5865116--5865149 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
5865106 GCAGGGGCAT
*
5865116 GGATGCACTGCAG
1 GGATGCATTGCAG
5865129 GGATGCATTGCAG
1 GGATGCATTGCAG
*
5865142 GGGTGCAT
1 GGATGCAT
5865150 GGATGCACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.21, C:0.18, G:0.41, T:0.21
Consensus pattern (13 bp):
GGATGCATTGCAG
Found at i:5865259 original size:29 final size:29
Alignment explanation
Indices: 5865227--5865289 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 29
5865217 GAAACCTTTT
5865227 AAAATTTTGAATAAATTCAATT-AAGTCCAA
1 AAAATTTTG--TAAATTCAATTCAAGTCCAA
5865257 AAACATTTTGTAAATTCAATTCAAGTCCAA
1 AAA-ATTTTGTAAATTCAATTCAAGTCCAA
5865287 AAA
1 AAA
5865290 CCATTTTGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
29 11 0.35
30 14 0.45
31 6 0.19
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (29 bp):
AAAATTTTGTAAATTCAATTCAAGTCCAA
Found at i:5865285 original size:30 final size:30
Alignment explanation
Indices: 5865238--5865297 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
5865228 AAATTTTGAA
5865238 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
5865267 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
5865298 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:5876270 original size:22 final size:22
Alignment explanation
Indices: 5876242--5876286 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
5876232 GTGCATGGCT
5876242 TGTACGTTTTGACCATATTAGC
1 TGTACGTTTTGACCATATTAGC
5876264 TGTACGTTTTGACCATATTAGC
1 TGTACGTTTTGACCATATTAGC
5876286 T
1 T
5876287 ACAACTCTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (22 bp):
TGTACGTTTTGACCATATTAGC
Found at i:5886788 original size:10 final size:10
Alignment explanation
Indices: 5886743--5886780 Score: 76
Period size: 10 Copynumber: 3.8 Consensus size: 10
5886733 TGGAGATTAG
5886743 ACTTTGTATT
1 ACTTTGTATT
5886753 ACTTTGTATT
1 ACTTTGTATT
5886763 ACTTTGTATT
1 ACTTTGTATT
5886773 ACTTTGTA
1 ACTTTGTA
5886781 ATTATTTGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.58
Consensus pattern (10 bp):
ACTTTGTATT
Found at i:5899816 original size:23 final size:23
Alignment explanation
Indices: 5899790--5899867 Score: 129
Period size: 23 Copynumber: 3.4 Consensus size: 23
5899780 TAAATACACT
5899790 GAAGTGCCACGTAGAATTGCACC
1 GAAGTGCCACGTAGAATTGCACC
5899813 GAAGTGCCACGTAGAATTGCACC
1 GAAGTGCCACGTAGAATTGCACC
* *
5899836 GTAGTGCCGCGTAGAATTGCACC
1 GAAGTGCCACGTAGAATTGCACC
*
5899859 GTAGTGCCA
1 GAAGTGCCA
5899868 TATAATAATG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.27, C:0.26, G:0.28, T:0.19
Consensus pattern (23 bp):
GAAGTGCCACGTAGAATTGCACC
Found at i:5900873 original size:21 final size:21
Alignment explanation
Indices: 5900841--5900883 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
5900831 TGTTTATTTA
*
5900841 ATTGAGAGTGCATTGATGCAC
1 ATTGAGAGTGCATCGATGCAC
5900862 ATTGA-AGATGCATCGATGCAC
1 ATTGAGAG-TGCATCGATGCAC
5900883 A
1 A
5900884 CAACCCAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (21 bp):
ATTGAGAGTGCATCGATGCAC
Found at i:5906517 original size:21 final size:20
Alignment explanation
Indices: 5906436--5906537 Score: 98
Period size: 21 Copynumber: 5.0 Consensus size: 20
5906426 ACGAGAGGAG
* *
5906436 CATTTATAAAGACGAGAATGT
1 CATTCATAAAGACGAGAA-GC
*
5906457 CATTCATCAAGACGAGAATGC
1 CATTCATAAAGACGAGAA-GC
* *
5906478 CATTCATCAAGACAAGAAGAC
1 CATTCATAAAGACGAGAAG-C
*
5906499 CCTTCATAAAGACGAGAAGAC
1 CATTCATAAAGACGAGAAG-C
*
5906520 C-TTCGTAAAGACGAGAAG
1 CATTCATAAAGACGAGAAG
5906538 TCCACATCGC
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
20 17 0.24
21 55 0.76
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.19
Consensus pattern (20 bp):
CATTCATAAAGACGAGAAGC
Found at i:5912262 original size:55 final size:55
Alignment explanation
Indices: 5912120--5912657 Score: 567
Period size: 55 Copynumber: 9.9 Consensus size: 55
5912110 GTGAAGCAAA
* * * * ****
5912120 AGAAGATT-TTCGAGTTCTATACTCCCTGAAGAAAGATGGAGTGAACCTGTAAGA
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTTC
*
5912174 AGAAGATTA-TCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCAAACCCGTTTTC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTTC
* * * ****
5912228 AGAAGATTGTTCGAGTTCTATACTTCCTGGAGAAAGAGCGAAGCGAACCCGTAAGA
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAGAAAGAG-GGAGCGAACCCGTTTTC
* * *
5912284 AGAAGA-TCTTCGAGTTCTATACTTCCTGAAGAAAGAGAGAGCGAGCCCGTTTTC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTTC
* * * * *
5912338 AGAAGATCATTCAAGTTCTATACTTCCTGAAAGAAAGAGGGAGTGAGCCCATTTGT-
1 AGAAGATTATTCGAGTTCTATACTTCCTG-AAGAAAGAGGGAGCGAACCCGTTT-TC
* * * * *
5912394 AAAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGAGAGCGAACCCGTTTTT
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTTC
* *
5912449 AGAAGATT-TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAGCCCGTTTTC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTTC
* * *
5912503 AGAAGATCATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCC
1 AGAAGATTATTCGAGTTCTATACTTCCTG-AAGAAAGAGGGAGCGAACCCGTTTTC
* * * ** * *
5912559 AAAAGATTATTCGAGTTCTATAC-TCCTTAAAGAAA-A---AGGGAATTCGCTTAC
1 AGAAGATTATTCGAGTTCTATACTTCC-TGAAGAAAGAGGGAGCGAACCCGTTTTC
*
5912610 AGAAGATTATTCGAGTTCTATACTCCCT-AGAGAAAGAGGGAGCGAACC
1 AGAAGATTATTCGAGTTCTATACTTCCTGA-AGAAAGAGGGAGCGAACC
5912658 TGTAAGAAGA
Statistics
Matches: 403, Mismatches: 65, Indels: 31
0.81 0.13 0.06
Matches are distributed among these distances:
50 1 0.00
51 37 0.09
52 3 0.01
54 119 0.30
55 135 0.33
56 107 0.27
57 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (55 bp):
AGAAGATTATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTTC
Found at i:5912455 original size:165 final size:164
Alignment explanation
Indices: 5912119--5912654 Score: 633
Period size: 165 Copynumber: 3.3 Consensus size: 164
5912109 AGTGAAGCAA
* * * **** *
5912119 AAGAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGATGGAGTGAACCTGTAAGAAGAAGATTA-
1 AAGAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGA-GGAGCGAGCCCGTTTTCAGAAGATCAT
* *
5912183 TCGAGTTCTATACTTCCTG-AAGAAAGAGGGAGCAAACCCGTTTTCAGAAGATTGTTCGAGTTCT
65 TCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTT-AAAAGATTATTCGAGTTCT
* ** *
5912247 ATACTTCCTGGAGAAAGAGCGAAGCGAACCCGTAAG
129 ATACTCCCTAAAGAAAGAGAGAAGCGAACCCGTAAG
* *
5912283 AAGAAGATCTTCGAGTTCTATACTTCCTGAAGAAAGAGAGAGCGAGCCCGTTTTCAGAAGATCAT
1 AAGAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAG-GAGCGAGCCCGTTTTCAGAAGATCAT
* ** * *
5912348 TCAAGTTCTATACTTCCTGAAAGAAAGAGGGAGTGAGCCCATTTGTAAAAGATTATTCGAGTTCT
65 TCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTT-TAAAAGATTATTCGAGTTCT
***
5912413 ATACTCCCTAAAGAAAGAGAG-AGCGAACCCGTTTT
129 ATACTCCCTAAAGAAAGAGAGAAGCGAACCCGTAAG
*
5912448 TAGAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAGCCCGTTTTCAGAAGATCAT
1 AAGAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGA-GGAGCGAGCCCGTTTTCAGAAGATCAT
*
5912513 TCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTATTCGAGTTCT
65 TCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTT-TAAAAGATTATTCGAGTTCT
* ** *
5912578 ATACTCCTTAAAGAAA-A-AG--G-GAATTCGCTTA-
129 ATACTCCCTAAAGAAAGAGAGAAGCGAACCCG-TAAG
*
5912609 CAGAAGATTATTCGAGTTCTATACTCCCT-AGAGAAAGAGGGAGCGA
1 AAGAAGATT-TTCGAGTTCTATACTCCCTGA-AGAAAGA-GGAGCGA
5912655 ACCTGTAAGA
Statistics
Matches: 325, Mismatches: 39, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
161 14 0.04
162 37 0.11
163 3 0.01
164 53 0.16
165 162 0.50
166 55 0.17
167 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (164 bp):
AAGAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGAGCGAGCCCGTTTTCAGAAGATCATT
CGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTTAAAAGATTATTCGAGTTCTAT
ACTCCCTAAAGAAAGAGAGAAGCGAACCCGTAAG
Found at i:5912734 original size:216 final size:218
Alignment explanation
Indices: 5912176--5912713 Score: 543
Period size: 216 Copynumber: 2.5 Consensus size: 218
5912166 CTGTAAGAAG
* * * * ****
5912176 AAGATTA-TCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCAAACCCGTTTTCAGAAGATTGTTC
1 AAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGAGAGCGAACCCGTAAGAAGAAGA-TGTTC
* * * * * * * ***
5912240 GAGTTCTATACTTCCTGGAGAAAGAGCGAAGCGAACCCGTAAGAAGAAGATC-TTCGAGTTCTAT
65 GAGTTCCATAATCCCTGAAGAAAGAG-GGAGAGAGCCCGT-TTTAGAAGATCATTCGAGTTCTAT
* * * *
5912304 ACTTCCTG-AAGAAAGAGAGAGCGAGCCCGTTTTCAGAAGATCATTCAAGTTCTATACTTCCTGA
128 ACTTCCTGAAAGAAAGAGAGAGCAAACCCGTTTCCAAAAGATCATTCAAGTTCTATACTTCCTGA
* * **
5912368 AAGAAAGAGGGAGTGAGCCCATTTGTAA
193 AAGAAAAAGGGAAT-AGCCCA-TTACAA
**** *
5912396 AAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGAGAGCGAACCCGTTTTTAGAAGATTTTCG
1 AAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGAGAGCGAACCCGTAAGAAGAAGATGTTCG
* * *
5912461 AGTTCTATACTCCCTGAAGAAAGAGGGAGCGAGCCCGTTTTCAGAAGATCATTCGAGTTCTATAC
66 AGTTCCATAATCCCTGAAGAAAGAGGGAGAGAGCCCGTTTT-AGAAGATCATTCGAGTTCTATAC
* * * *
5912526 TTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTATTCGAGTTCTATAC-TCCTTAAA
130 TTCCTGAAAGAAAGAGAGAGCAAACCCGTTTCCAAAAGATCATTCAAGTTCTATACTTCCTGAAA
* * *
5912590 GAAAAAGGGAAT-TCGC-TTACAG
195 GAAAAAGGGAATAGCCCATTACAA
* * *
5912612 AAGATTATTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTAAGAAGAAGATGTTCG
1 AAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGAGAGCGAACCCGTAAGAAGAAGATGTTCG
*
5912677 AGTTCCATAATCCCT-AGAGAAATAGGGAGTAGA-CCCG
66 AGTTCCATAATCCCTGA-AGAAAGAGGGAG-AGAGCCCG
5912714 ATTGTTGAAG
Statistics
Matches: 272, Mismatches: 40, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
215 1 0.00
216 88 0.32
217 2 0.01
218 2 0.01
219 19 0.07
220 72 0.26
221 88 0.32
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (218 bp):
AAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGAGAGCGAACCCGTAAGAAGAAGATGTTCG
AGTTCCATAATCCCTGAAGAAAGAGGGAGAGAGCCCGTTTTAGAAGATCATTCGAGTTCTATACT
TCCTGAAAGAAAGAGAGAGCAAACCCGTTTCCAAAAGATCATTCAAGTTCTATACTTCCTGAAAG
AAAAAGGGAATAGCCCATTACAA
Found at i:5912756 original size:55 final size:55
Alignment explanation
Indices: 5912694--5913464 Score: 863
Period size: 55 Copynumber: 14.2 Consensus size: 55
5912684 TAATCCCTAG
* * * *
5912694 AGAAATAGGGAGTAGACCCGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * *
5912749 A-AGAATAGGGAGTAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
1 AGA-AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * * * *
5912804 AGGAATAGGGAGTAGACACGATTATTGAAGATTGTTCGAGTCTCATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * * * * *
5912859 AGGAATAGGGAGCATACACG-TT-TTCAAAAGATT-TTCGAGT-TCTATACTCCCTGG
1 AGAAATAGGGGGCAGACGCGATTGTT--GAAGATTGTTCGAGTCT-TATACTCTCTGA
* ** * *
5912913 AGAAAGAGGGAAC-GAACTCGATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAG-ACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * *
5912966 AGAAATAGGGGGCAGACGCAATAGTTGAAGATTGTTCGGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* *
5913021 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * *
5913076 AGAAATAGGGGGCAGACGCAATTGATGAAGATTG-T-GGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * *
5913129 AGAAACAGGGGGCAGACACAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* *
5913184 AGAAATAGGGGGCAGACGCGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * **
5913237 AGAAAAAGGGGGCAGACGCAATCATTGAAGATTGTTCG-GATCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAG-TCTTATACTCTCTGA
* * * * *
5913292 AGAAATAGGGGGCAGATGCGATTGATAAAGATT-AT-GGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* *
5913345 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
** * * *
5913400 AGAAATAGGGGGCAGACAAGTTTGTTGAAGA-TGATTCAAGTCTTATACCCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTG-TTCGAGTCTTATACTCTCTGA
5913455 AGAAATAGGG
1 AGAAATAGGG
5913465 AGCGAACCCA
Statistics
Matches: 625, Mismatches: 69, Indels: 44
0.85 0.09 0.06
Matches are distributed among these distances:
53 179 0.29
54 53 0.08
55 391 0.63
56 2 0.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (55 bp):
AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
Found at i:5913142 original size:108 final size:109
Alignment explanation
Indices: 5912694--5913464 Score: 880
Period size: 108 Copynumber: 7.1 Consensus size: 109
5912684 TAATCCCTAG
* * * * * *
5912694 AGAAATAGGGAGTAGACCCGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGAA-AGAATAGG
1 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGA-AATAGG
* * * * * *
5912758 GAGTAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
65 GGGCAGACGCGATTGATGAAGATTG-TCGGGTCTTATACTCTCTGA
* * * * * ** * *
5912804 AGGAATAGGGAGTAGACACGATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGGG
1 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
* * * * * * * * * *
5912869 AGCATACACGTTTTCA-AAAGATTTTCGAGT-TCTATACTCCCTGG
66 GGCAGACGCG-ATTGATGAAGATTGTCGGGTCT-TATACTCTCTGA
* ** * * * *
5912913 AGAAAGAGGGAAC-GAACTCGATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGG
1 AGAAATAGGGGGCAG-ACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGG
* * *
5912975 GGGCAGACGCAATAGTTGAAGATTGTTCGGGTCTTATACTCTCTGA
65 GGGCAGACGCGATTGATGAAGATTG-TCGGGTCTTATACTCTCTGA
5913021 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
1 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
*
5913086 GGCAGACGCAATTGATGAAGATTGT-GGGTCTTATACTCTCTGA
66 GGCAGACGCGATTGATGAAGATTGTCGGGTCTTATACTCTCTGA
* *
5913129 AGAAACAGGGGGCAGACACAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
1 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
5913194 GGCAGACGCGATTGATGAAGATTGT-GGGTCTTATACTCTCTGA
66 GGCAGACGCGATTGATGAAGATTGTCGGGTCTTATACTCTCTGA
* *
5913237 AGAAAAAGGGGGCAGACGCAATCATTGAAGATTGTTCG-GATCTTATACTCTCTGAAGAAATAGG
1 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAG-TCTTATACTCTCTGAAGAAATAGG
* * *
5913301 GGGCAGATGCGATTGATAAAGATTAT-GGGTCTTATACTCTCTGA
65 GGGCAGACGCGATTGATGAAGATTGTCGGGTCTTATACTCTCTGA
5913345 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
1 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
** * * ** *
5913410 GGCAGACAAGTTTGTTGAAGA-TGATTCAAGTCTTATACCCTCTGA
66 GGCAGACGCGATTGATGAAGATTG--TCGGGTCTTATACTCTCTGA
5913455 AGAAATAGGG
1 AGAAATAGGG
5913465 AGCGAACCCA
Statistics
Matches: 578, Mismatches: 68, Indels: 30
0.86 0.10 0.04
Matches are distributed among these distances:
106 1 0.00
107 39 0.07
108 343 0.59
109 47 0.08
110 146 0.25
111 2 0.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (109 bp):
AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
GGCAGACGCGATTGATGAAGATTGTCGGGTCTTATACTCTCTGA
Found at i:5913430 original size:163 final size:164
Alignment explanation
Indices: 5912694--5913464 Score: 772
Period size: 163 Copynumber: 4.7 Consensus size: 164
5912684 TAATCCCTAG
* * * * * *
5912694 AGAAATAGGGAGTAGACCCGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGAA-AGAATAGG
1 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGA-AATAGG
* * * * * * *
5912758 GAGTAGACACGATTGTTGAAGATTGTTC-GAGTCTCATACTCTCTGAAGGAATAGGGAGTAGACA
65 GGGCAGACAAG-TTGTTGAAGATTGTTCGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACA
* *
5912822 CGATT-ATTGAAGATTGTTCGAGTCTCATACTCTCTGA
128 CAATTGA-TGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * * * * * * * *
5912859 AGGAATAGGGAGCATACAC-GT-TTTCAAAAGATT-TTCGAGT-TCTATACTCCCTGGAGAAAGA
1 AGAAATAGGGGGCAGACGCAATCGTT--GAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAATA
** ** *
5912920 GGGAAC-GAACTCGATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGA
63 GGGGGCAG-ACAAG-TTGTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGA
* * * *
5912982 CGCAATAGTTGAAGATTGTTCGGGTCTTATACTCTCTGA
126 CACAATTGATGAAGATTGTTCGAGTCTTATACTCTCTGA
5913021 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
1 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
* * *
5913086 GGCAGACGCAA-TTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAACAGGGGGCAGACAC
66 GGCAGA--CAAGTTGTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACAC
* *
5913148 AATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
129 AATTGATGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * * *
5913184 AGAAATAGGGGGCAGACGCGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAAAAGGG
1 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
** **
5913247 GGCAGACGCAA-TCATTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGATGC
66 GGCAGA--CAAGTTGTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACAC
* * * *
5913311 GATTGATAAAGATT-AT-GGGTCTTATACTCTCTGA
129 AATTGATGAAGATTGTTCGAGTCTTATACTCTCTGA
5913345 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
1 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
* *
5913410 GGCAGACAAGTTTGTTGAAGA-TGATTC-AAGTCTTATACCCTCTGAAGAAATAGGG
66 GGCAGACAAG-TTGTTGAAGATTG-TTCGGA-TCTTATACTCTCTGAAGAAATAGGG
5913465 AGCGAACCCA
Statistics
Matches: 513, Mismatches: 71, Indels: 46
0.81 0.11 0.07
Matches are distributed among these distances:
161 98 0.19
162 87 0.17
163 258 0.50
164 48 0.09
165 22 0.04
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (164 bp):
AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
GGCAGACAAGTTGTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACACAA
TTGATGAAGATTGTTCGAGTCTTATACTCTCTGA
Found at i:5917245 original size:23 final size:23
Alignment explanation
Indices: 5917215--5917270 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
5917205 CAGTGCTGAC
5917215 TGATTCAGCAAAACAATGTTGAA
1 TGATTCAGCAAAACAATGTTGAA
*
5917238 TGATTCAGCAAAATAATGTTGAA
1 TGATTCAGCAAAACAATGTTGAA
*
5917261 TGATTTAGCA
1 TGATTCAGCA
5917271 TATAAGTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (23 bp):
TGATTCAGCAAAACAATGTTGAA
Found at i:5918047 original size:2 final size:2
Alignment explanation
Indices: 5918040--5918119 Score: 87
Period size: 2 Copynumber: 41.5 Consensus size: 2
5918030 TTTATGCTTT
5918040 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
5918080 TC T- TT TA TGC T- TT TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5918120 GCCGTTTGCA
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
1 4 0.06
2 64 0.93
3 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (2 bp):
TA
Found at i:5918985 original size:20 final size:20
Alignment explanation
Indices: 5918931--5918984 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
5918921 GATAACTCAC
*
5918931 AAAAAAGGAGGAAAATACGG
1 AAAAAAGGAGGAAAATACGA
5918951 AAAAAAGGAGGAAAATACGA
1 AAAAAAGGAGGAAAATACGA
5918971 AAAAAAGGA-GAAAA
1 AAAAAAGGAGGAAAA
5918985 AAAATGAAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.67, C:0.04, G:0.26, T:0.04
Consensus pattern (20 bp):
AAAAAAGGAGGAAAATACGA
Found at i:5921359 original size:2 final size:2
Alignment explanation
Indices: 5921352--5921382 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
5921342 CTGACAGGCT
*
5921352 TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5921383 TAAATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:5924887 original size:72 final size:72
Alignment explanation
Indices: 5924796--5924935 Score: 264
Period size: 72 Copynumber: 1.9 Consensus size: 72
5924786 ACGTTCTTCT
5924796 CTAATCTTATACGAGTCAAAATATTGGTAAAACCAATAACGATAATCTTTAGGA-CCTGGTTGAT
1 CTAATCTTATACGAGTCAAAATATTGGTAAAACCAATAACGATAATCTTTAGGACCCT-GTTGAT
5924860 TGAATTCC
65 TGAATTCC
5924868 CTAATCTTATACGAGTCAAAATATTGGTAAAACCAATAACGATAATCTTTAGGACCCTGTTGATT
1 CTAATCTTATACGAGTCAAAATATTGGTAAAACCAATAACGATAATCTTTAGGACCCTGTTGATT
5924933 GAA
66 GAA
5924936 ACAAGAATTT
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
72 64 0.96
73 3 0.04
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.31
Consensus pattern (72 bp):
CTAATCTTATACGAGTCAAAATATTGGTAAAACCAATAACGATAATCTTTAGGACCCTGTTGATT
GAATTCC
Found at i:5933287 original size:23 final size:22
Alignment explanation
Indices: 5933226--5933297 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 22
5933216 TGTTGCACAC
*
5933226 TTATCTTTACTTGTGTTGCACGTT
1 TTATCTTTACTT-TGTGGCACG-T
*
5933250 TTATCTCTGT-TTTTGTGGCACGT
1 TTATCT-T-TACTTTGTGGCACGT
5933273 TTATCTTTACCTTTGTGGCACGT
1 TTATCTTTA-CTTTGTGGCACGT
5933296 TT
1 TT
5933298 TTCCAGTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
21 1 0.02
22 1 0.02
23 21 0.51
24 14 0.34
25 3 0.07
26 1 0.02
ACGTcount: A:0.11, C:0.18, G:0.18, T:0.53
Consensus pattern (22 bp):
TTATCTTTACTTTGTGGCACGT
Found at i:5963615 original size:7 final size:7
Alignment explanation
Indices: 5963584--5963696 Score: 57
Period size: 7 Copynumber: 14.6 Consensus size: 7
5963574 TATTTGCTTG
*
5963584 AAGAAGA
1 AAGAAAA
*
5963591 AATAAAA
1 AAGAAAA
* *
5963598 GAGAAAG
1 AAGAAAA
5963605 AAGAAAA
1 AAGAAAA
5963612 AAGAAAA
1 AAGAAAA
5963619 AAGAAAA
1 AAGAAAA
5963626 ATGATGGAAAA
1 A--A--GAAAA
5963637 AACGAAAA
1 AA-GAAAA
*
5963645 GAAAAAAA
1 -AAGAAAA
5963653 GAAGAGAAA
1 -AAGA-AAA
5963662 AAGGAAAA
1 AA-GAAAA
5963670 AA-ATAATA
1 AAGA-AA-A
5963678 AAGAGAAA
1 AAGA-AAA
*
5963686 ATGAAAA
1 AAGAAAA
5963693 AAGA
1 AAGA
5963697 GAAATAAAAG
Statistics
Matches: 83, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
6 1 0.01
7 37 0.45
8 27 0.33
9 12 0.14
11 6 0.07
ACGTcount: A:0.74, C:0.01, G:0.19, T:0.05
Consensus pattern (7 bp):
AAGAAAA
Found at i:5963635 original size:25 final size:24
Alignment explanation
Indices: 5963606--5963694 Score: 76
Period size: 25 Copynumber: 3.6 Consensus size: 24
5963596 AAGAGAAAGA
*
5963606 AGAAAAAAGAAAAAAGAAAAATGATG
1 AGAAAAAAGAAAAAA-AAAAA-GAAG
5963632 -GAAAAAACGAAAAGAAAAAAAGAAG
1 AGAAAAAA-GAAAA-AAAAAAAGAAG
* *
5963657 AGAAAAAGGAAAAAAATAATA-AAG
1 AGAAAAAAGAAAAAAA-AAAAGAAG
*
5963681 AG-AAAATGAAAAAA
1 AGAAAAAAGAAAAAA
5963695 GAGAAATAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
23 11 0.20
24 8 0.15
25 18 0.33
26 16 0.29
27 2 0.04
ACGTcount: A:0.75, C:0.01, G:0.18, T:0.06
Consensus pattern (24 bp):
AGAAAAAAGAAAAAAAAAAAGAAG
Found at i:5963648 original size:13 final size:13
Alignment explanation
Indices: 5963587--5963700 Score: 52
Period size: 13 Copynumber: 8.1 Consensus size: 13
5963577 TTGCTTGAAG
5963587 AAGAAATAAAAGAGA
1 AAGAAA-AAAAGA-A
5963602 AAGAAGAAAAAAGAA
1 AAG-A-AAAAAAGAA
5963617 AA-AAGAAAAATG-A
1 AAGAA-AAAAA-GAA
** *
5963630 TGGAAAAAACGAA
1 AAGAAAAAAAGAA
5963643 AAGAAAAAAAGAA
1 AAGAAAAAAAGAA
* *
5963656 GAGAAAAAGGAAAAA
1 AAGAAAAA--AAGAA
* *
5963671 AATAATAAAGAGAA
1 AAGAA-AAAAAGAA
5963685 AATGAAAAAAGAGAA
1 AA-GAAAAAA-AGAA
5963700 A
1 A
5963701 TAAAAGGAGG
Statistics
Matches: 74, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
12 2 0.03
13 29 0.39
14 11 0.15
15 20 0.27
16 10 0.14
17 2 0.03
ACGTcount: A:0.75, C:0.01, G:0.19, T:0.05
Consensus pattern (13 bp):
AAGAAAAAAAGAA
Found at i:5963661 original size:26 final size:26
Alignment explanation
Indices: 5963606--5963701 Score: 78
Period size: 24 Copynumber: 3.8 Consensus size: 26
5963596 AAGAGAAAGA
*
5963606 AGAAAAAAGAAAAAAGAAAAATGATG
1 AGAAAAAAGAAAAAAGAAAAATGAAG
5963632 -GAAAAAACGAAAAGAA-AAAAA-GAAG
1 AGAAAAAA-GAAAA-AAGAAAAATGAAG
* * *
5963657 AG-AAAAAGGAAAAA-AATAATAAAG
1 AGAAAAAAGAAAAAAGAAAAATGAAG
* *
5963681 AG-AAAATGAAAAAAGAGAAAT
1 AGAAAAAAGAAAAAAGAAAAAT
5963702 AAAAGGAGGG
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
23 6 0.11
24 19 0.33
25 19 0.33
26 11 0.19
27 2 0.04
ACGTcount: A:0.74, C:0.01, G:0.19, T:0.06
Consensus pattern (26 bp):
AGAAAAAAGAAAAAAGAAAAATGAAG
Found at i:5964897 original size:51 final size:51
Alignment explanation
Indices: 5964836--5965444 Score: 943
Period size: 51 Copynumber: 11.9 Consensus size: 51
5964826 AAATTCGTTT
5964836 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
*
5964887 GTTGAAGATTGAGTCCTATACTCTCTGAA-GAATAGGGAGCGGACAAGTTT
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
5964937 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
* *
5964988 GTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAAGTTT
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
5965039 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
5965090 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
* *
5965141 GTTGAAGATTGAGTCCAATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
* *
5965192 GTTGAAGATTGGGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
** *
5965243 GTTGAAGATTGAGTCCTATACTCTCTGAATAAATAGGGAGCGGACAAGTTT
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
* * * * * *
5965294 GTTGAAGATTTAGTTCTATACTCCCTGAACGG-ATAGGGAGCGAACACGTTT
1 GTTGAAGATTGAGTCCTATACTCTCTGAA-GGAATAGGGAGCGGACAAGTTC
* * ** *
5965345 GTTAAAGATTGAGTCCTGTACTCTCTGAAGGAATAGGGAGCGGACCTGTTT
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
* * *
5965396 ATTGAAGATTTTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGAC
1 GTTGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
5965445 TCGTTTTATT
Statistics
Matches: 518, Mismatches: 33, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
50 51 0.10
51 433 0.84
54 2 0.00
55 32 0.06
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.27
Consensus pattern (51 bp):
GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
Found at i:5965148 original size:153 final size:153
Alignment explanation
Indices: 5964836--5965551 Score: 954
Period size: 153 Copynumber: 4.6 Consensus size: 153
5964826 AAATTCGTTT
* *
5964836 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGT
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTTGTTGAAGATTGAGT
*
5964901 CCTATACTCTCTGAA-GAATAGGGAGCGGACAAGTTTGTTGAAGATTGAGTCCTATACTCTCTGA
66 CCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGA
5964965 AGGAATAGGGAGCGGACAAGTTC
131 AGGAATAGGGAGCGGACAAGTTC
*
5964988 GTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAAGTTTGTTGAAGATTGAGT
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTTGTTGAAGATTGAGT
5965053 CCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGA
66 CCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGA
5965118 AGGAATAGGGAGCGGACAAGTTC
131 AGGAATAGGGAGCGGACAAGTTC
* * *
5965141 GTTGAAGATTGAGTCCAATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGGGT
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTTGTTGAAGATTGAGT
*
5965206 CCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGA
66 CCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGA
** *
5965271 ATAAATAGGGAGCGGACAAGTTT
131 AGGAATAGGGAGCGGACAAGTTC
* * * * * * * *
5965294 GTTGAAGATTTAGTTCTATACTCCCTGAACGGATAGGGAGCGAACACGTTTGTTAAAGATTGAGT
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTTGTTGAAGATTGAGT
* ** ** *
5965359 CCTGTACTCTCTGAAGGAATAGGGAGCGGACCTGTTTATTGAAGATTTTTCGAGTTCTATACTCT
66 CCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-GAGTCCTATACTCT
* ** *
5965424 CTGAAGGAATAGAGAGCGGACTCGTTTT
127 CTGAAGGAATAGGGAGCGGACAAG-TTC
* * * *
5965452 ATTGAAGATTGTTCAAGTCTTATACTCTCTGAATGAATAGAGAGCAGACACA-TTT-TATGAAGA
1 GTTGAAGATTG----AGTCCTATACTCTCTGAATGAATAGGGAGCGGACA-AGTTTGT-TGAAGA
*
5965515 TTGCTCGAGTCTTATACT-TCCTGAAGGAATAGGGAGC
60 -T--T-GAGTCCTATACTCT-CTGAAGGAATAGGGAGC
5965552 AGGCTCGTCA
Statistics
Matches: 499, Mismatches: 48, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
152 78 0.16
153 309 0.62
156 2 0.00
157 32 0.06
158 12 0.02
161 1 0.00
162 35 0.07
163 1 0.00
165 2 0.00
166 27 0.05
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.28
Consensus pattern (153 bp):
GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTTGTTGAAGATTGAGT
CCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGA
AGGAATAGGGAGCGGACAAGTTC
Found at i:5965552 original size:55 final size:54
Alignment explanation
Indices: 5965363--5965553 Score: 226
Period size: 55 Copynumber: 3.5 Consensus size: 54
5965353 TTGAGTCCTG
* * *
5965363 TACTCTCTGAAGGAATAGGGAGCGGACCTGTTTATTGAAGATTTTTCGAGT-TCTA
1 TACTCTCTGAAGGAATAGAGAGCAGACCT-TTTATTGAAGATTGTTCGAGTCT-TA
* *
5965418 TACTCTCTGAAGGAATAGAGAGCGGACTCGTTTTATTGAAGATTGTTCAAGTCTTA
1 TACTCTCTGAAGGAATAGAGAGCAGAC-C-TTTTATTGAAGATTGTTCGAGTCTTA
* *
5965474 TACTCTCTGAATGAATAGAGAGCAGACACATTTTA-TGAAGATTGCTCGAGTCTTA
1 TACTCTCTGAAGGAATAGAGAGCAGAC-C-TTTTATTGAAGATTGTTCGAGTCTTA
*
5965529 TACT-TCCTGAAGGAATAGGGAGCAG
1 TACTCT-CTGAAGGAATAGAGAGCAG
5965554 GCTCGTCATT
Statistics
Matches: 121, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
54 1 0.01
55 65 0.54
56 53 0.44
57 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (54 bp):
TACTCTCTGAAGGAATAGAGAGCAGACCTTTTATTGAAGATTGTTCGAGTCTTA
Found at i:5965581 original size:55 final size:54
Alignment explanation
Indices: 5965363--5965581 Score: 198
Period size: 55 Copynumber: 4.0 Consensus size: 54
5965353 TTGAGTCCTG
* * *
5965363 TACTCTCTGAAGGAATAGGGAGC-GGAC-CTGTTTATTGAAGATTTTTCGAGT-TCTA
1 TACTCTCTGAAGGAATAGAGAGCAGG-CTC-GTTT-TTGAAGATTGTTCAAGTCT-TA
5965418 TACTCTCTGAAGGAATAGAGAGC-GGACTCGTTTTATTGAAGATTGTTCAAGTCTTA
1 TACTCTCTGAAGGAATAGAGAGCAGG-CTCG-TTT-TTGAAGATTGTTCAAGTCTTA
* * * * * *
5965474 TACTCTCTGAATGAATAGAGAGCAGACACATTTTATGAAGATTGCTCGAGTCTTA
1 TACTCTCTGAAGGAATAGAGAGCAGGCTCGTTTT-TGAAGATTGTTCAAGTCTTA
* *
5965529 TACT-TCCTGAAGGAATAGGGAGCAGGCTCGTCATTTGAAGA-TGTTTCAAGTCT
1 TACTCT-CTGAAGGAATAGAGAGCAGGCTCGT-TTTTGAAGATTG-TTCAAGTCT
5965582 CATTTATCCT
Statistics
Matches: 139, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
54 4 0.03
55 85 0.61
56 48 0.35
57 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (54 bp):
TACTCTCTGAAGGAATAGAGAGCAGGCTCGTTTTTGAAGATTGTTCAAGTCTTA
Found at i:5974767 original size:13 final size:12
Alignment explanation
Indices: 5974726--5974783 Score: 54
Period size: 11 Copynumber: 5.2 Consensus size: 12
5974716 TCTTTCTATC
5974726 TCCT-CGTCTGT
1 TCCTCCGTCTGT
* *
5974737 TTCTCTGT-TGT
1 TCCTCCGTCTGT
5974748 T-CTCCGTCTGT
1 TCCTCCGTCTGT
5974759 TCGCTCCGT-TGT
1 TC-CTCCGTCTGT
5974771 T-CTCCGTCTGT
1 TCCTCCGTCTGT
5974782 TC
1 TC
5974784 TTTTTTATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
10 11 0.29
11 15 0.39
12 6 0.16
13 6 0.16
ACGTcount: A:0.00, C:0.33, G:0.19, T:0.48
Consensus pattern (12 bp):
TCCTCCGTCTGT
Found at i:5974773 original size:23 final size:23
Alignment explanation
Indices: 5974730--5974783 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
5974720 TCTATCTCCT
* *
5974730 CGTCTGTT-TCTCTGTTGTTCTC
1 CGTCTGTTCGCTCCGTTGTTCTC
5974752 CGTCTGTTCGCTCCGTTGTTCTC
1 CGTCTGTTCGCTCCGTTGTTCTC
5974775 CGTCTGTTC
1 CGTCTGTTC
5974784 TTTTTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 8 0.28
23 21 0.72
ACGTcount: A:0.00, C:0.31, G:0.20, T:0.48
Consensus pattern (23 bp):
CGTCTGTTCGCTCCGTTGTTCTC
Found at i:5974777 original size:10 final size:11
Alignment explanation
Indices: 5974730--5974784 Score: 60
Period size: 10 Copynumber: 4.9 Consensus size: 11
5974720 TCTATCTCCT
5974730 CGTCTGTTTCTC
1 CGTCTG-TTCTC
*
5974742 TGT-TGTTCTC
1 CGTCTGTTCTC
5974752 CGTCTGTTCGCTC
1 CGTCTGTT--CTC
5974765 CGT-TGTTCTC
1 CGTCTGTTCTC
5974775 CGTCTGTTCT
1 CGTCTGTTCT
5974785 TTTTTATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
10 13 0.35
11 12 0.32
12 6 0.16
13 6 0.16
ACGTcount: A:0.00, C:0.31, G:0.20, T:0.49
Consensus pattern (11 bp):
CGTCTGTTCTC
Found at i:5975209 original size:3 final size:3
Alignment explanation
Indices: 5975177--5975250 Score: 76
Period size: 3 Copynumber: 24.0 Consensus size: 3
5975167 TTGTAATATT
* * * *
5975177 TAA TAAA TAA TATA TAT TAT TAA TAT TAA TAA TAA TTA TAA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
5975224 TAA TAA TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
5975251 ATTTAAATTT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
3 53 0.90
4 6 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:5975249 original size:18 final size:18
Alignment explanation
Indices: 5975170--5975256 Score: 86
Period size: 18 Copynumber: 4.5 Consensus size: 18
5975160 CTTGGGCTTG
5975170 TAATATTTAATAAATAAT-A
1 TAAT-TTTAAT-AATAATAA
*
5975189 TATATTATTAATATTAATAA
1 TA-ATT-TTAATAATAATAA
5975209 TAATTATAATAATAATAATAA
1 TAATT-T--TAATAATAATAA
5975230 TAATTTTAATAATAATAA
1 TAATTTTAATAATAATAA
*
5975248 TAAATTTAA
1 TAATTTTAA
5975257 ATTTAAAATG
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
18 20 0.33
19 13 0.22
20 11 0.18
21 16 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATTTTAATAATAATAA
Found at i:5985245 original size:21 final size:21
Alignment explanation
Indices: 5985194--5985246 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
5985184 ATTATAACTA
5985194 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
5985215 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
5985236 TCGCAATGCGA
1 TCGCAATGCGA
5985247 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:5985298 original size:41 final size:41
Alignment explanation
Indices: 5985236--5985472 Score: 157
Period size: 41 Copynumber: 5.8 Consensus size: 41
5985226 TTTTCCCAAT
5985236 TCGCAATGCGAA-TAAGTAAATCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATTAAGTAAATCGCAATGCGAATAAGTAAA
** * * *
5985276 TCGCAATGCGAATTTGGAAAATCGCAATGCG-AT-ACTGACTA
1 TCGCAATGCGAATTAAGTAAATCGCAATGCGAATAAGT-A-AA
*** * * * * *
5985317 TCGCAATGC-AATTTTCCTAATTCGCATTGCGATTTACGT-AT
1 TCGCAATGCGAA-TTAAGTAAATCGCAATGCGA-ATAAGTAAA
** * * * *
5985358 TCGCGTTGCGATTTTCA-TAATTCGCAATGCGAATACGTAAA
1 TCGCAATGCGA-ATTAAGTAAATCGCAATGCGAATAAGTAAA
* * *
5985399 TCGCAACGCG-ATTAAGTAAATCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTAAGTAAATCGCAATGCGAA-TAAGTAAA
*
5985440 TCGCAATGCGAA-TACGTAAATCGCAATGCGAAT
1 TCGCAATGCGAATTAAGTAAATCGCAATGCGAAT
5985473 CTTACTATCG
Statistics
Matches: 151, Mismatches: 33, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
39 5 0.03
40 38 0.25
41 102 0.68
42 4 0.03
43 1 0.01
44 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (41 bp):
TCGCAATGCGAATTAAGTAAATCGCAATGCGAATAAGTAAA
Found at i:5985303 original size:61 final size:59
Alignment explanation
Indices: 5985236--5985470 Score: 172
Period size: 61 Copynumber: 3.9 Consensus size: 59
5985226 TTTTCCCAAT
* *
5985236 TCGCAATGCGAATAAGTAAATCGCAATGCGAATAAGTAAATCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAATGCGAATACGTAAATCGCAATGCG-ATTTAG-AAA
* * * * * * * *
5985297 TCGCAATGCG-AT-ACTGACTATCGCAATGC-AATTTTCCTAATTCGCATTGCGATTTACGTAT
1 TCGCAATGCGAATAAGT-A-AATCGCAATGCGAA--TACGTAAATCGCAATGCGATTTA-GAAA
** * * * * *
5985358 TCGCGTTGCGATTTTCA-TAATTCGCAATGCGAATACGTAAATCGCAACGCGATTAAGTAAA
1 TCGCAATGCGA--ATAAGTAAATCGCAATGCGAATACGTAAATCGCAATGCGATTTAG-AAA
* *
5985419 TCGCAATGCGAATTAGGAAAATCGCAATGCGAATACGTAAATCGCAATGCGA
1 TCGCAATGCGAA-TAAGTAAATCGCAATGCGAATACGTAAATCGCAATGCGA
5985471 ATCTTACTAT
Statistics
Matches: 130, Mismatches: 31, Indels: 26
0.70 0.17 0.14
Matches are distributed among these distances:
59 2 0.02
60 7 0.05
61 92 0.71
62 23 0.18
63 3 0.02
64 2 0.02
65 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (59 bp):
TCGCAATGCGAATAAGTAAATCGCAATGCGAATACGTAAATCGCAATGCGATTTAGAAA
Found at i:5985351 original size:21 final size:21
Alignment explanation
Indices: 5985317--5985389 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
5985307 ATACTGACTA
* *
5985317 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
5985338 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
5985358 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
5985379 TCGCAATGCGA
1 TCGCAATGCGA
5985390 ATACGTAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:5985482 original size:20 final size:20
Alignment explanation
Indices: 5985236--5985490 Score: 169
Period size: 20 Copynumber: 12.6 Consensus size: 20
5985226 TTTTCCCAAT
*
5985236 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATACGTAAA
*
5985256 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATACGTAAA
** *
5985276 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
5985297 TCGCAATGCG-ATAC-TGACTA
1 TCGCAATGCGAATACGT-A-AA
* * *
5985317 TCGCAATGC-AATTTTCCTAAT
1 TCGCAATGCGAA--TACGTAAA
* * *
5985338 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGA-ATACGTAAA
** * * * *
5985358 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGA-ATACGTAAA
5985379 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
5985399 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* *
5985419 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
5985440 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
5985460 TCGCAATGCGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
5985480 TCGCAATGCGA
1 TCGCAATGCGA
5985491 TTTACATAGC
Statistics
Matches: 189, Mismatches: 34, Indels: 24
0.77 0.14 0.10
Matches are distributed among these distances:
19 5 0.03
20 124 0.66
21 55 0.29
22 4 0.02
23 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:5986067 original size:19 final size:19
Alignment explanation
Indices: 5986043--5986087 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
5986033 GCAACGAGAG
* *
5986043 AATCGCAACGCGGAATAAA
1 AATCGCAACGCGAAACAAA
*
5986062 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
5986081 AATCGCA
1 AATCGCA
5986088 TTGCGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:5986172 original size:52 final size:53
Alignment explanation
Indices: 5986088--5986189 Score: 152
Period size: 52 Copynumber: 1.9 Consensus size: 53
5986078 CAAAATCGCA
** ** *
5986088 TTGCGATTTTCATTTCGCGTTGCGATTTTCA-TTTCGCGTTGCTATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATAGTCATTTTCGCGTTGCGATTCTCTCG
5986140 TTGCGATAGTCATTTCGCGTTGCGATAGTCATTTTCGCGTTGCGATTCTC
1 TTGCGATAGTCATTTCGCGTTGCGATAGTCATTTTCGCGTTGCGATTCTC
5986190 ATTATCTCGT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 27 0.61
53 17 0.39
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.44
Consensus pattern (53 bp):
TTGCGATAGTCATTTCGCGTTGCGATAGTCATTTTCGCGTTGCGATTCTCTCG
Found at i:5986177 original size:20 final size:20
Alignment explanation
Indices: 5986138--5986205 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
5986128 GCTATTCTCT
5986138 CGTTGCGATAGTCA-TTTCG
1 CGTTGCGATAGTCATTTTCG
5986157 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
** * *
5986177 CGTTGCGATTCTCATTATCT
1 CGTTGCGATAGTCATTTTCG
5986197 CGTTGCGAT
1 CGTTGCGAT
5986206 TTTCATTTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
19 14 0.32
20 30 0.68
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.40
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:5986211 original size:20 final size:19
Alignment explanation
Indices: 5986083--5986214 Score: 130
Period size: 19 Copynumber: 7.1 Consensus size: 19
5986073 GAAACCAAAA
*
5986083 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
5986102 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
5986121 TCGCGTTGC--TATTC---
1 TCGCGTTGCGATTTTCATT
* **
5986135 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
5986154 TCGCGTTGCGATAGTCATTT
1 TCGCGTTGCGATTTTCA-TT
*
5986174 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
5986193 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
5986213 TC
1 TC
5986215 AACCAAAAGA
Statistics
Matches: 97, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
14 8 0.08
16 4 0.04
17 4 0.04
19 47 0.48
20 34 0.35
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:5989760 original size:14 final size:14
Alignment explanation
Indices: 5989741--5989776 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
5989731 ATTGTTTAAT
5989741 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
5989755 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
5989769 TGATTTGT
1 TGATTTGT
5989777 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:5989907 original size:19 final size:19
Alignment explanation
Indices: 5989883--5990019 Score: 134
Period size: 19 Copynumber: 7.7 Consensus size: 19
5989873 AAAAAGTACT
*
5989883 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
5989902 ATCGCAACGCGAATTGAAA
1 ATCGCAACGCGAAATGAAA
*
5989921 ATCGCAACGCGAATTGAAA
1 ATCGCAACGCGAAATGAAA
*
5989940 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
*
5989954 ATCGCAACGTGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
5989973 ATCGCAA--CG--A-CAAA
1 ATCGCAACGCGAAATGAAA
5989987 ATCGCAACGCGAAACT-AAA
1 ATCGCAACGCGAAA-TGAAA
5990006 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
5990020 CTAAATTCGC
Statistics
Matches: 99, Mismatches: 8, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.20
15 1 0.01
16 3 0.03
17 3 0.03
18 2 0.02
19 70 0.71
ACGTcount: A:0.45, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:5989962 original size:33 final size:33
Alignment explanation
Indices: 5989883--5990019 Score: 159
Period size: 33 Copynumber: 4.0 Consensus size: 33
5989873 AAAAAGTACT
*
5989883 ATCGCAATGCGAAATGAAAATCGCAACGCGAATTGAAA
1 ATCGCAACGCGAAATGAAAATCGCAA--CG-A--GAAA
* *
5989921 ATCGCAACGCGAATTGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
* *
5989954 ATCGCAACGTGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
*
5989987 ATCGCAACGCGAAACT-AAAATCGCAACGCGAAA
1 ATCGCAACGCGAAA-TGAAAATCGCAACGAGAAA
5990020 CTAAATTCGC
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
33 60 0.68
34 1 0.01
35 1 0.01
36 2 0.02
38 24 0.27
ACGTcount: A:0.45, C:0.22, G:0.20, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
Found at i:5990009 original size:52 final size:50
Alignment explanation
Indices: 5989883--5990019 Score: 132
Period size: 52 Copynumber: 2.7 Consensus size: 50
5989873 AAAAAGTACT
* * *
5989883 ATCGCAATGCGAAA-TGAAAATCGCAACGCGAATTGAAAATCGCAACGCGA
1 ATCGCAAAGCGAAACT-AAAATCGCAACGCGAAATGAAAATCGCAACGCAA
* * * * * *
5989933 ATTGAAAATCGCAACGAGAGAATCGCAACGTGAAATGAAAATCGCAACGACAAA
1 ATCGCAAAGCGAAACTA-A-AATCGCAACGCGAAATGAAAATCGCAACG-C-AA
*
5989987 ATCGCAACGCGAAACTAAAATCGCAACGCGAAA
1 ATCGCAAAGCGAAACTAAAATCGCAACGCGAAA
5990020 CTAAATTCGC
Statistics
Matches: 66, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
50 10 0.15
51 1 0.02
52 41 0.62
53 2 0.03
54 12 0.18
ACGTcount: A:0.45, C:0.22, G:0.20, T:0.12
Consensus pattern (50 bp):
ATCGCAAAGCGAAACTAAAATCGCAACGCGAAATGAAAATCGCAACGCAA
Found at i:5990073 original size:33 final size:32
Alignment explanation
Indices: 5990029--5990155 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
5990019 ACTAAATTCG
5990029 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* *
5990062 CGTTGCAATTTTCATTTCGCATTGCGAAATT-CG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
5990095 CGTTGTGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
5990128 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
5990156 AGTAATTTTC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:5990105 original size:66 final size:66
Alignment explanation
Indices: 5990022--5990154 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
5990012 ACGCGAAACT
5990022 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCAATTTTCATTTCGCATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCAATTTTCATTTCGCATTGC
5990087 G
66 G
* * *
5990088 AAATTCGCGTTGTGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCAATTTTCATTTCGCATTGC
5990153 G
66 G
5990154 A
1 A
5990155 TAGTAATTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.42
Consensus pattern (66 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCAATTTTCATTTCGCATTGC
G
Found at i:5992464 original size:12 final size:12
Alignment explanation
Indices: 5992447--5992471 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5992437 TCTTCGGGGA
5992447 CTTTTTCTTCTT
1 CTTTTTCTTCTT
5992459 CTTTTTCTTCTT
1 CTTTTTCTTCTT
5992471 C
1 C
5992472 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:5993510 original size:20 final size:20
Alignment explanation
Indices: 5993485--5993556 Score: 99
Period size: 20 Copynumber: 3.5 Consensus size: 20
5993475 TTTTCCTAAT
*
5993485 TCGCAATGTGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
5993505 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
** *
5993525 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
5993546 TCGCAATGCGA
1 TCGCAATGCGA
5993557 TACTGACTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
20 31 0.66
21 16 0.34
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:5993570 original size:20 final size:20
Alignment explanation
Indices: 5993545--5993602 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
5993535 AATTTGGAAA
* *
5993545 ATCGCAATGCGATACTGACT
1 ATCGCAACGAGATACTGACT
*
5993565 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATACTGACT
* *
5993585 TTCGCAACGAGATTCTGA
1 ATCGCAACGAGATACTGA
5993603 AAATCGCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (20 bp):
ATCGCAACGAGATACTGACT
Found at i:5993609 original size:20 final size:20
Alignment explanation
Indices: 5993541--5993611 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
5993531 TGCGAATTTG
* * *
5993541 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATTCT
**
5993561 GACTATCGCAACGAGATTCT
1 GAAAATCGCAACGAGATTCT
***
5993581 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATTCT
5993601 GAAAATCGCAA
1 GAAAATCGCAA
5993612 TCATCTTCAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (20 bp):
GAAAATCGCAACGAGATTCT
Found at i:5993898 original size:20 final size:20
Alignment explanation
Indices: 5993825--5993900 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
5993815 CAACGGGGAA
*
5993825 ATCGCAACGCGAAAATGGCT
1 ATCGCAACTCGAAAATGGCT
* ***
5993845 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACTCGAAAATG-GCT
5993865 ATCGCAACGT-GAAAATGGCT
1 ATCGCAAC-TCGAAAATGGCT
*
5993885 ATCGCAACTAGAAAAT
1 ATCGCAACTCGAAAAT
5993901 CGCAATGCGA
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
19 6 0.14
20 31 0.72
21 6 0.14
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (20 bp):
ATCGCAACTCGAAAATGGCT
Found at i:5993962 original size:19 final size:19
Alignment explanation
Indices: 5993919--5994043 Score: 197
Period size: 19 Copynumber: 6.8 Consensus size: 19
5993909 GAAATGAAAA
5993919 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
5993935 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
5993952 CCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
5993971 TCGCATTACGATTTTCATT
1 TCGCATTGCGATTTTCATT
5993990 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5994009 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5994028 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
5994044 TCGTTGCGAT
Statistics
Matches: 100, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
14 11 0.11
16 3 0.03
17 2 0.02
19 84 0.84
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:5995672 original size:43 final size:42
Alignment explanation
Indices: 5995625--5995718 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
5995615 CCTCTTCAAC
* * *
5995625 GATGACAGTGGCCTCTTGAACGGTGGGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGGGGACTCTTGAGG
* *
5995668 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGGGGACTCTTGAGG
*
5995710 AATGACAGG
1 GATGACAGG
5995719 TGAGTCGGGC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 23 0.52
43 21 0.48
ACGTcount: A:0.21, C:0.15, G:0.43, T:0.21
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGGGGACTCTTGAGG
Found at i:5996081 original size:20 final size:20
Alignment explanation
Indices: 5996056--5996094 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5996046 GAAGAATAGT
5996056 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAC
* *
5996076 TTACTTTTGCAACGCGAAA
1 TTACTTTCGCAACACGAAA
5996095 ATGACAATCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAC
Found at i:5996107 original size:20 final size:19
Alignment explanation
Indices: 5996084--5996148 Score: 76
Period size: 20 Copynumber: 3.3 Consensus size: 19
5996074 ACTTACTTTT
5996084 GCAACGCGAAAATGACAATC
1 GCAACGCG-AAATGACAATC
* *
5996104 GCAACGCGGAAATGGCTATC
1 GCAACGC-GAAATGACAATC
* *
5996124 GCAATGCGAAATGAAAATC
1 GCAACGCGAAATGACAATC
5996143 GCAACG
1 GCAACG
5996149 ACAAAATCGC
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
19 14 0.38
20 22 0.59
21 1 0.03
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.12
Consensus pattern (19 bp):
GCAACGCGAAATGACAATC
Found at i:5996201 original size:19 final size:19
Alignment explanation
Indices: 5996179--5996309 Score: 84
Period size: 19 Copynumber: 7.3 Consensus size: 19
5996169 ACAAACCGCA
5996179 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
5996198 TTGCGA-TTT--TGT--CG
1 TTGCGATTTTCATTTCGCG
*
5996212 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCG
*
5996231 TTGCGA-TTT--TGT--CG
1 TTGCGATTTTCATTTCGCG
*
5996245 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCG
***
5996264 TTGCGATAGCCATTTCCGCG
1 TTGCGATTTTCATTT-CGCG
** *
5996284 TTGCGATAGTCATTTTCGTG
1 TTGCGATTTTCA-TTTCGCG
5996304 TTGCGA
1 TTGCGA
5996310 AAGTAAACTA
Statistics
Matches: 87, Mismatches: 13, Indels: 23
0.71 0.11 0.19
Matches are distributed among these distances:
14 15 0.17
15 6 0.07
16 4 0.05
17 4 0.05
18 6 0.07
19 26 0.30
20 23 0.26
21 3 0.03
ACGTcount: A:0.13, C:0.20, G:0.23, T:0.44
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:5996215 original size:14 final size:14
Alignment explanation
Indices: 5996196--5996254 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
5996186 TTTCATTTCG
5996196 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
5996210 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
5996227 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
5996243 CGTTGCGATTTT
1 CGTTGCGATTTT
5996255 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 18 0.47
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:5996221 original size:33 final size:33
Alignment explanation
Indices: 5996179--5996270 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
5996169 ACAAACCGCA
*
5996179 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
5996212 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
5996245 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
5996271 AGCCATTTCC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:5996289 original size:20 final size:19
Alignment explanation
Indices: 5996255--5996309 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
5996245 TTGCGATTTT
*
5996255 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
5996274 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
5996294 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
5996310 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:5996873 original size:18 final size:18
Alignment explanation
Indices: 5996850--5996897 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
5996840 CGGGTCGATC
5996850 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
5996868 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
5996886 AGGTGATGGCTC
1 AGGTGATGGCTC
5996898 CCAAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:5998242 original size:20 final size:20
Alignment explanation
Indices: 5998217--5998259 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
5998207 AATAGTTTCT
*
5998217 GAAAATGAAAATTGCAACAC
1 GAAAATGAAAATCGCAACAC
*
5998237 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
5998257 GAA
1 GAA
5998260 TTTGACTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.53, C:0.16, G:0.19, T:0.12
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:5998565 original size:22 final size:22
Alignment explanation
Indices: 5998538--5998581 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
5998528 GATGGAGATA
5998538 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
5998560 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
5998582 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:5998799 original size:20 final size:20
Alignment explanation
Indices: 5998774--5998840 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
5998764 GTATTATCTC
*
5998774 GTTGCGAAAGTCAGTATTGA
1 GTTGCGAAAGTCAGTATCGA
* *
5998794 GTTGCGAAATTAAGTATCGA
1 GTTGCGAAAGTCAGTATCGA
*
5998814 GTTGCGAAAGTCAGTATCGG
1 GTTGCGAAAGTCAGTATCGA
5998834 GTTGCGA
1 GTTGCGA
5998841 TTTTGTATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.28, C:0.12, G:0.31, T:0.28
Consensus pattern (20 bp):
GTTGCGAAAGTCAGTATCGA
Found at i:5998867 original size:41 final size:41
Alignment explanation
Indices: 5998754--5998885 Score: 140
Period size: 41 Copynumber: 3.2 Consensus size: 41
5998744 GAAAATCGTA
* * *
5998754 TTGCGATTATGTATTATCTCGTTGCGAAAGTCAGTATTGAG
1 TTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGTATCGAG
** * * * *
5998795 TTGCGAAATT-AAGTATCGAGTTGCGAAAGTCAGTATCGGG
1 TTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGTATCGAG
* * *
5998835 TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTACCGCG
1 TTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGTATCGAG
*
5998876 TTGAGATTTT
1 TTGCGATTTT
5998886 CCAAATTCGC
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
40 32 0.44
41 40 0.56
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (41 bp):
TTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGTATCGAG
Found at i:5998906 original size:21 final size:21
Alignment explanation
Indices: 5998880--5998943 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
5998870 ACCGCGTTGA
5998880 GATTTTCCAAATTCGCATTGC
1 GATTTTCCAAATTCGCATTGC
5998901 GATTTTCCAAATTCGCATTGC
1 GATTTTCCAAATTCGCATTGC
* **
5998922 GA-TTTACTTATTCGCATTGC
1 GATTTTCCAAATTCGCATTGC
5998942 GA
1 GA
5998944 ATTGGGAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 17 0.43
21 23 0.57
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (21 bp):
GATTTTCCAAATTCGCATTGC
Found at i:6001474 original size:17 final size:18
Alignment explanation
Indices: 6001454--6001529 Score: 68
Period size: 19 Copynumber: 4.2 Consensus size: 18
6001444 ATTTTTTATT
6001454 AAAAATTCT-TATTTAAA
1 AAAAATTCTATATTTAAA
*
6001471 AAAAATTCTAAATTATAAA
1 AAAAATTCTATATT-TAAA
*
6001490 AAAAA-TCGTATCTTTTAAA
1 AAAAATTC-TAT-ATTTAAA
*
6001509 AAAAATATCT-TAATTAAA
1 AAAAAT-TCTATATTTAAA
6001527 AAA
1 AAA
6001530 TTCCTAACTT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
17 9 0.19
18 13 0.27
19 21 0.44
20 3 0.06
21 2 0.04
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.34
Consensus pattern (18 bp):
AAAAATTCTATATTTAAA
Found at i:6001490 original size:18 final size:17
Alignment explanation
Indices: 6001454--6001493 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
6001444 ATTTTTTATT
* *
6001454 AAAAATTCTTATTTAAA
1 AAAAATTCTAAATTAAA
6001471 AAAAATTCTAAATTATAA
1 AAAAATTCTAAATTA-AA
6001489 AAAAA
1 AAAAA
6001494 ATCGTATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAATTCTAAATTAAA
Found at i:6001530 original size:16 final size:16
Alignment explanation
Indices: 6001508--6001547 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
6001498 TATCTTTTAA
*
6001508 AAAAAATATCTTAA-TT
1 AAAAAAT-TCCTAACTT
6001524 AAAAAATTCCTAACTT
1 AAAAAATTCCTAACTT
6001540 AAAAAATT
1 AAAAAATT
6001548 ATTACAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAAATTCCTAACTT
Found at i:6001917 original size:4 final size:4
Alignment explanation
Indices: 6001908--6001956 Score: 59
Period size: 4 Copynumber: 13.0 Consensus size: 4
6001898 TTAGGAGGTA
* *
6001908 ATTT ATTT ATTT A-TT AATT -TTT ATTT ATTT ATTT ATTG ATTT A-TT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
6001953 ATTT
1 ATTT
6001957 TTATATTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
3 8 0.21
4 31 0.79
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:6001933 original size:22 final size:23
Alignment explanation
Indices: 6001908--6001964 Score: 82
Period size: 22 Copynumber: 2.5 Consensus size: 23
6001898 TTAGGAGGTA
6001908 ATTTATTTATTTATTAATTT-TT
1 ATTTATTTATTTATTAATTTATT
*
6001930 ATTTATTTATTTATTGATTTATT
1 ATTTATTTATTTATTAATTTATT
6001953 ATTT-TTATATTT
1 ATTTATT-TATTT
6001965 TAATTTGAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 21 0.66
23 11 0.34
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (23 bp):
ATTTATTTATTTATTAATTTATT
Found at i:6006800 original size:201 final size:200
Alignment explanation
Indices: 6006468--6006973 Score: 597
Period size: 201 Copynumber: 2.5 Consensus size: 200
6006458 GTCTAGTGTG
* * * *
6006468 TACCGATATTAGCCTTAACTTAAAGATAAGTTCCAATACTATGCCTCTAATCTTTTAAATTACA-
1 TACCGATATTAACCTCAACTTAAAGATAAGTTCCAATACTACGCCTTTAATCTTTTAAATTA-AG
* *
6006532 AAAATTTTCCTATTAACTTCCTGGAAATACCCCTTGAACATGCATATGAAGCTATTTTACATTGT
65 AAAATTTTCCTATTAACTTCCTGGAAATACCCCTTGAACATGCATATCAAGCTATTATACATTGT
* * * * *
6006597 TCTTTATGCACAAAACAAAGCTTTGGAATCATTTTCAACGCAATTTTTAACCCGCTTATAATGTC
130 TCTTCATGCACAAAACAAAGCTCTGGAACCATTTTCAACGCAATTTTTAACACGCTTATAAT-AC
6006662 TCATATA
194 TCATATA
** * * * *
6006669 TATTGATATTAACTTCAACTTAGAGATAAGTTCCAATACTACGCCTTTAATATTTTAAATTATGA
1 TACCGATATTAACCTCAACTTAAAGATAAGTTCCAATACTACGCCTTTAATCTTTTAAATTAAGA
* * * *
6006734 TAATTTTCTTATTAACTTCCTGGGAATACCCCTTGAACATGCCTATCAAG-TCATTATAGC-TTG
66 AAATTTTCCTATTAACTTCCTGGAAATACCCCTTGAACATGCATATCAAGCT-ATTATA-CATTG
* * ** * *
6006797 TTCTTCATGCACAAAACCAAGCTCTGGAACCATTTTCAATGTGATTTTTAACATGTTTATAATAC
129 TTCTTCATGCACAAAACAAAGCTCTGGAACCATTTTCAACGCAATTTTTAACACGCTTATAATAC
* *
6006862 TCGTATG
194 TCATATA
* * * *
6006869 TACCGATATTAGCCTCAACTTAAAGATAGGTTACAATACTACGCCTTTAACCTTTCT-AATTAAG
1 TACCGATATTAACCTCAACTTAAAGATAAGTTCCAATACTACGCCTTTAATCTTT-TAAATTAAG
* * * * *
6006933 AAAATTTTCCAATTAACTTCCCGAAAATACTCCTCGAACAT
65 AAAATTTTCCTATTAACTTCCTGGAAATACCCCTTGAACAT
6006974 ACCTAACACT
Statistics
Matches: 254, Mismatches: 47, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
200 92 0.36
201 161 0.63
202 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.36
Consensus pattern (200 bp):
TACCGATATTAACCTCAACTTAAAGATAAGTTCCAATACTACGCCTTTAATCTTTTAAATTAAGA
AAATTTTCCTATTAACTTCCTGGAAATACCCCTTGAACATGCATATCAAGCTATTATACATTGTT
CTTCATGCACAAAACAAAGCTCTGGAACCATTTTCAACGCAATTTTTAACACGCTTATAATACTC
ATATA
Found at i:6007205 original size:25 final size:24
Alignment explanation
Indices: 6007171--6007241 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
6007161 CACAGATAAG
6007171 AATAATATTATTTTCATATATAAAA
1 AATAATATTATTTT-ATATATAAAA
* *
6007196 AATATTATTATTTTATGAAATAAAA
1 AATAATATTATTTTAT-ATATAAAA
* *
6007221 AA-AGTATTGTTTTAATATATA
1 AATAATATTATTTT-ATATATA
6007242 TTCTTAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 15 0.38
25 24 0.62
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (24 bp):
AATAATATTATTTTATATATAAAA
Found at i:6012362 original size:21 final size:21
Alignment explanation
Indices: 6012336--6012436 Score: 103
Period size: 21 Copynumber: 4.7 Consensus size: 21
6012326 GGTTCTACGC
6012336 GGTCCTTTGGGACATATATGT
1 GGTCCTTTGGGACATATATGT
* * *
6012357 GGTCCTTTAGGACAATTCTACGT
1 GGTCCTTTGGGAC-A-TATATGT
* *
6012380 GGTCATTCGGGACATATATGT
1 GGTCCTTTGGGACATATATGT
* *
6012401 GGTCCTTTAGGACATCTATGT
1 GGTCCTTTGGGACATATATGT
**
6012422 GGTCCTCCGGGACAT
1 GGTCCTTTGGGACAT
6012437 CCAATATGGC
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
21 46 0.73
22 2 0.03
23 15 0.24
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (21 bp):
GGTCCTTTGGGACATATATGT
Found at i:6012392 original size:44 final size:43
Alignment explanation
Indices: 6012328--6012436 Score: 157
Period size: 44 Copynumber: 2.5 Consensus size: 43
6012318 GAGTCGAGGG
* *
6012328 TTCTACGCGGTCCTTTGGGACATATATGTGGTCCTTTAGGACAA
1 TTCTACGTGGTCCTTCGGGACATATATGTGGTCCTTTAGGAC-A
*
6012372 TTCTACGTGGTCATTCGGGACATATATGTGGTCCTTTAGGACA
1 TTCTACGTGGTCCTTCGGGACATATATGTGGTCCTTTAGGACA
* *
6012415 -TCTATGTGGTCCTCCGGGACAT
1 TTCTACGTGGTCCTTCGGGACAT
6012437 CCAATATGGC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 19 0.32
43 1 0.02
44 39 0.66
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (43 bp):
TTCTACGTGGTCCTTCGGGACATATATGTGGTCCTTTAGGACA
Found at i:6016220 original size:64 final size:64
Alignment explanation
Indices: 6016151--6016368 Score: 203
Period size: 64 Copynumber: 3.4 Consensus size: 64
6016141 AATGTGCACT
* * **
6016151 GATGCATTGGTAATGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAATTC-ATGCA
1 GATGCATAGGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAA-TCGATGCA
6016213 TC
63 TC
* * * *
6016215 GATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCGGTGCATC
1 GATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCGATGCATC
* ** * * * ** *
6016279 GATGCATAAGG-AGTGCATCGATGCATCTCAGCAATAATACAACATCGAATACATTTTATGCACC
1 GATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCGATGCATC
6016343 GATGCATCA-GTAGTGCATCGATGCAT
1 GATGCAT-AGGTAGTGCATCGATGCAT
6016369 ACCTTCATTA
Statistics
Matches: 127, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
63 3 0.02
64 117 0.92
65 7 0.06
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (64 bp):
GATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCGATGCATC
Found at i:6017062 original size:31 final size:31
Alignment explanation
Indices: 6017024--6017148 Score: 216
Period size: 31 Copynumber: 4.0 Consensus size: 31
6017014 AGGGTCGAGG
6017024 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
6017055 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
6017086 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
6017117 GTTTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
6017148 G
1 G
6017149 GTCCTTCGAG
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:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:6017436 original size:17 final size:18
Alignment explanation
Indices: 6017410--6017443 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6017400 AATGATAATG
6017410 ATGATATATGTT-TATGT
1 ATGATATATGTTATATGT
*
6017427 ATGATTTATGTTATATG
1 ATGATATATGTTATATG
6017444 AAATATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (18 bp):
ATGATATATGTTATATGT
Found at i:6020248 original size:64 final size:64
Alignment explanation
Indices: 6020180--6020356 Score: 196
Period size: 64 Copynumber: 2.8 Consensus size: 64
6020170 TAAAATAAAG
** *
6020180 ACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGA-A
1 ACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAAT-ACA
* * * *
6020244 ACATCGAATGCAA-TCGGTGCATCGATGCATAAGGAGTGCATCGATACATCTCAGCAATAATACA
1 ACATCGAATGCAATTC-ATGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATACA
* * * * * * *
6020308 ACATCGAATACATTTTATGCACCGATGCATCAGTAGTGGATTGATGCAT
1 ACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCAT
6020357 ACCTTCATTA
Statistics
Matches: 93, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
63 3 0.03
64 89 0.96
65 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (64 bp):
ACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATACA
Found at i:6021051 original size:31 final size:31
Alignment explanation
Indices: 6021013--6021122 Score: 175
Period size: 31 Copynumber: 3.5 Consensus size: 31
6021003 AGGGTCGAGG
*
6021013 GTTTACCTATGTTCTTCGGGACATATTGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
6021044 GTTTACCTATATTCTTCGAGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
6021075 GTTTACCTATGTTCTTCGGTACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
6021106 GTTTACCTAGGTTCTTC
1 GTTTACCTATGTTCTTC
6021123 AGAATCTATG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Done.