Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009458.1 Hibiscus syriacus cultivar Beakdansim tig00113719_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: 1407308
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:863533 original size:23 final size:23
Alignment explanation
Indices: 863507--863556 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
863497 AACGAACGCC
*
863507 AAATGAACATGTTCGTGAACATT
1 AAATGAACATGTTCGTGAACAAT
*
863530 AAATGAACATGTTTGTGAACAAT
1 AAATGAACATGTTCGTGAACAAT
863553 AAAT
1 AAAT
863557 AAACGAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (23 bp):
AAATGAACATGTTCGTGAACAAT
Found at i:868454 original size:187 final size:187
Alignment explanation
Indices: 868123--868697 Score: 1030
Period size: 187 Copynumber: 3.1 Consensus size: 187
868113 TCCACACGAA
*
868123 TTTGAAGCTATTGAGTGAAAATTGACGGCTTAGATTAACTCTTTGTTTTCTCTTGAATATCTTCT
1 TTTGAAGCTATTGAGTGAAAATTGACGGCTTAGATTAACTCTTTGTTTTCTCGTGAATATCTTCT
* *
868188 CATTTC--AATCCCTAGGGTTAATCTCAATCTATTTACACTCATCCCACAATCCTAAATCTGTAC
66 CATTTCTTAATCCCTAGGGTTAATCTCAATCTATTTACATTCATCCCACAATCTTAAATCTGTAC
868251 ATTGTGTAATTGGATTCTATTCCCCGTATATATGTACATATATAAACAAAACTCGAC
131 ATTGTGTAATTGGATTCTATTCCCCGTATATATGTACATATATAAACAAAACTCGAC
868308 TTTGAAGCTATTGAGTGAAAATTGACGGCTTAGATTAACTCTTTGTTTTCTCGTGAATATCTTCT
1 TTTGAAGCTATTGAGTGAAAATTGACGGCTTAGATTAACTCTTTGTTTTCTCGTGAATATCTTCT
* *
868373 CATTTCTTAATCCCTAGAGTTAATCTCAATCTATTTACATTCATCCCACAATCTTAAATCTGTAT
66 CATTTCTTAATCCCTAGGGTTAATCTCAATCTATTTACATTCATCCCACAATCTTAAATCTGTAC
*
868438 ATTGTGTAATTGGATTCTATTCCCCGTATATATGTATATATATAAACAAAACTCGAC
131 ATTGTGTAATTGGATTCTATTCCCCGTATATATGTACATATATAAACAAAACTCGAC
*
868495 TTTGAAGCTATTGAGTGAAAATTGACGGCTTAGATTAACTCTTTATTTTCTCGTGAATATCTTCT
1 TTTGAAGCTATTGAGTGAAAATTGACGGCTTAGATTAACTCTTTGTTTTCTCGTGAATATCTTCT
* *
868560 CATTT-TCTAATCTCTAGGGTTAATCTCAATCTATTTATATTCATCCCACAATCTTAAATCTGTA
66 CATTTCT-TAATCCCTAGGGTTAATCTCAATCTATTTACATTCATCCCACAATCTTAAATCTGTA
*
868624 CATTGTGTAATTGGATTCTATTCCCCGTATATATGTACACATATAAACAAAACTCGAC
130 CATTGTGTAATTGGATTCTATTCCCCGTATATATGTACATATATAAACAAAACTCGAC
868682 TTTGAAGCTATTGAGT
1 TTTGAAGCTATTGAGT
868698 ACTTGCCCAT
Statistics
Matches: 374, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
185 70 0.19
186 1 0.00
187 303 0.81
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (187 bp):
TTTGAAGCTATTGAGTGAAAATTGACGGCTTAGATTAACTCTTTGTTTTCTCGTGAATATCTTCT
CATTTCTTAATCCCTAGGGTTAATCTCAATCTATTTACATTCATCCCACAATCTTAAATCTGTAC
ATTGTGTAATTGGATTCTATTCCCCGTATATATGTACATATATAAACAAAACTCGAC
Found at i:873646 original size:23 final size:23
Alignment explanation
Indices: 873616--873667 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
873606 GCAGATAGAG
*
873616 GTTGCTCTCCTTCAAAAGCTTAT
1 GTTGCTCTCCTTCAAAAGCTAAT
873639 GTTGCTCTCCTTCAAAAGCTAAT
1 GTTGCTCTCCTTCAAAAGCTAAT
873662 GTTGCT
1 GTTGCT
873668 GCATGTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.38
Consensus pattern (23 bp):
GTTGCTCTCCTTCAAAAGCTAAT
Found at i:876813 original size:60 final size:60
Alignment explanation
Indices: 876693--876825 Score: 153
Period size: 61 Copynumber: 2.2 Consensus size: 60
876683 TTGGGTGACA
* * * * *
876693 ATTTTATAACTTTTAATAGTCGGATGACTTAACAAAGCAACATCCTATTGTTGAGGAACT
1 ATTTTATAACTTTTAATAGTCGGATGACTCAACAAAACAACACCCTATAGTCGAGGAACT
* * * *
876753 ATTTTGTAACTTTTTGATAGTCGGGTGACTCAACAAAATAACACCCTATAGTCGA-GAACT
1 ATTTTATAAC-TTTTAATAGTCGGATGACTCAACAAAACAACACCCTATAGTCGAGGAACT
876813 A-TTTATATACTTT
1 ATTTTATA-ACTTT
876826 ACTCTAAATT
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
59 8 0.13
60 17 0.28
61 36 0.59
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (60 bp):
ATTTTATAACTTTTAATAGTCGGATGACTCAACAAAACAACACCCTATAGTCGAGGAACT
Found at i:877174 original size:31 final size:31
Alignment explanation
Indices: 877129--877206 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
877119 ATGTAAAAAT
* *
877129 TTTGATAAAATTTAATGATTATTTTGTAA-CA
1 TTTGAT-AAATTTAATGATCAATTTGTAATCA
877160 GTTTGATAAATTTAATGATCAATTTGTAATCA
1 -TTTGATAAATTTAATGATCAATTTGTAATCA
*
877192 TTTGATAACTTTAAT
1 TTTGATAAATTTAAT
877207 CATTTTGTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
31 34 0.81
32 8 0.19
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.47
Consensus pattern (31 bp):
TTTGATAAATTTAATGATCAATTTGTAATCA
Found at i:877223 original size:18 final size:17
Alignment explanation
Indices: 877186--877220 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
877176 GATCAATTTG
877186 TAATCATTTGATAACTT
1 TAATCATTTGATAACTT
877203 TAATCATTTTG-TAACTT
1 TAATCA-TTTGATAACTT
877220 T
1 T
877221 TAAAAGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.51
Consensus pattern (17 bp):
TAATCATTTGATAACTT
Found at i:879707 original size:18 final size:19
Alignment explanation
Indices: 879676--879720 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
879666 ATACGAAAGT
879676 TTTA-AAAAATTTAA-AAA
1 TTTATAAAAATTTAATAAA
*
879693 TTTATTAAAAA-TTAATACA
1 TTTA-TAAAAATTTAATAAA
879712 TTTATAAAA
1 TTTATAAAA
879721 TTGTCACTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 4 0.17
18 9 0.38
19 11 0.46
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
TTTATAAAAATTTAATAAA
Found at i:881998 original size:27 final size:27
Alignment explanation
Indices: 881951--882024 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
881941 ATTTTGTATA
*
881951 TATTAACTT-A-TTAAATATATTTTAT
1 TATTAACTTAATTTAAAAATATTTTAT
881976 TATTAACTTAATTTAAAAATATTTTAT
1 TATTAACTTAATTTAAAAATATTTTAT
*
882003 T-TTAATTTTAATTTAAAAATAT
1 TATTAA-CTTAATTTAAAAATAT
882025 AGATTTTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.20
26 5 0.11
27 30 0.68
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (27 bp):
TATTAACTTAATTTAAAAATATTTTAT
Found at i:882735 original size:2 final size:2
Alignment explanation
Indices: 882728--882760 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
882718 CATGTTTGAT
882728 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
882761 TTGAAATGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:884454 original size:57 final size:57
Alignment explanation
Indices: 884366--884479 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 57
884356 ACTACCTTCA
* * *
884366 AATAAATATTATTTTGTATTAATCTACACCTTTAAAAATTATTCTGTTTATAAAACT
1 AATAAATATTATTATGTATTAATCTACACCTTTAAAAATTATTCCGTTCATAAAACT
884423 AATAAATATTATTATGTATTAATCTACACCTTTAAAAATTATTCCGTTCATAAAACT
1 AATAAATATTATTATGTATTAATCTACACCTTTAAAAATTATTCCGTTCATAAAACT
884480 GAAAACTAGA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (57 bp):
AATAAATATTATTATGTATTAATCTACACCTTTAAAAATTATTCCGTTCATAAAACT
Found at i:884464 original size:30 final size:30
Alignment explanation
Indices: 884368--884465 Score: 96
Period size: 30 Copynumber: 3.4 Consensus size: 30
884358 TACCTTCAAA
* *
884368 TAAATATTATTTTGTATTAATCTACACCTT
1 TAAAAATTATTATGTATTAATCTACACCTT
* * * *
884398 TAAAAATTATTCTGT-TT-A--TAAAACTAA
1 TAAAAATTATTATGTATTAATCTACACCT-T
*
884425 TAAATATTATTATGTATTAATCTACACCTT
1 TAAAAATTATTATGTATTAATCTACACCTT
884455 TAAAAATTATT
1 TAAAAATTATT
884466 CCGTTCATAA
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
26 5 0.10
27 13 0.25
28 3 0.06
29 3 0.06
30 23 0.44
31 5 0.10
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (30 bp):
TAAAAATTATTATGTATTAATCTACACCTT
Found at i:884504 original size:57 final size:57
Alignment explanation
Indices: 884386--884505 Score: 127
Period size: 57 Copynumber: 2.1 Consensus size: 57
884376 ATTTTGTATT
* * * * ** **
884386 AATCTACACCTTTAAAAATTATTCTGTTTATAAAACTAATAAATATTATTATGTATT
1 AATCTACACCTTTAAAAATTATTCCGTTCATAAAACTAATAAATATGATCAAATACA
*
884443 AATCTACACCTTTAAAAATTATTCCGTTCATAAAACTGAA-AACTA-GACTCAAATACA
1 AATCTACACCTTTAAAAATTATTCCGTTCATAAAACT-AATAAATATGA-TCAAATACA
884500 AATCTA
1 AATCTA
884506 ACTATATAAG
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
56 1 0.02
57 49 0.94
58 2 0.04
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.36
Consensus pattern (57 bp):
AATCTACACCTTTAAAAATTATTCCGTTCATAAAACTAATAAATATGATCAAATACA
Found at i:893154 original size:152 final size:152
Alignment explanation
Indices: 892878--893182 Score: 610
Period size: 152 Copynumber: 2.0 Consensus size: 152
892868 ATCATGTCAC
892878 AGTCAACATGTTAACGTTCAACTCAAAATATCATCCATTTTTAATGGAAAATGATGAGTTTGAAA
1 AGTCAACATGTTAACGTTCAACTCAAAATATCATCCATTTTTAATGGAAAATGATGAGTTTGAAA
892943 TATAATGAATAGTCAGGTGACCATTTTGTAACTTTTAATAGTCGAGGGACTTAACAAAACAACAA
66 TATAATGAATAGTCAGGTGACCATTTTGTAACTTTTAATAGTCGAGGGACTTAACAAAACAACAA
893008 TATATAGTCAGAAGACTATTTT
131 TATATAGTCAGAAGACTATTTT
893030 AGTCAACATGTTAACGTTCAACTCAAAATATCATCCATTTTTAATGGAAAATGATGAGTTTGAAA
1 AGTCAACATGTTAACGTTCAACTCAAAATATCATCCATTTTTAATGGAAAATGATGAGTTTGAAA
893095 TATAATGAATAGTCAGGTGACCATTTTGTAACTTTTAATAGTCGAGGGACTTAACAAAACAACAA
66 TATAATGAATAGTCAGGTGACCATTTTGTAACTTTTAATAGTCGAGGGACTTAACAAAACAACAA
893160 TATATAGTCAGAAGACTATTTT
131 TATATAGTCAGAAGACTATTTT
893182 A
1 A
893183 TAATTTTTAA
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 153 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (152 bp):
AGTCAACATGTTAACGTTCAACTCAAAATATCATCCATTTTTAATGGAAAATGATGAGTTTGAAA
TATAATGAATAGTCAGGTGACCATTTTGTAACTTTTAATAGTCGAGGGACTTAACAAAACAACAA
TATATAGTCAGAAGACTATTTT
Found at i:893286 original size:15 final size:15
Alignment explanation
Indices: 893268--893323 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
893258 TTTATTTATT
893268 ATTATTATTATTAAA
1 ATTATTATTATTAAA
893283 ATTATTATTATTAAA
1 ATTATTATTATTAAA
*
893298 TATTATTATATATT-AT
1 -ATTATTAT-TATTAAA
893314 ATTATTATTA
1 ATTATTATTA
893324 AATAATTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
14 2 0.05
15 23 0.61
16 9 0.24
17 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTATTATTATTAAA
Found at i:893301 original size:28 final size:28
Alignment explanation
Indices: 893270--893334 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
893260 TATTTATTAT
893270 TATTATTATTAAAAT-TATTATTATTAAA
1 TATTATTA-TAAAATATATTATTATTAAA
* *
893298 TATTATTATATATTATATTATTATTAAA
1 TATTATTATAAAATATATTATTATTAAA
893326 TAATTATTA
1 T-ATTATTA
893335 CATGCCCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 4 0.12
28 22 0.67
29 7 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TATTATTATAAAATATATTATTATTAAA
Found at i:893303 original size:10 final size:10
Alignment explanation
Indices: 893288--893334 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
893278 TTAAAATTAT
893288 TATTATTAAA
1 TATTATTAAA
*
893298 TATTATTATA
1 TATTATTAAA
*
893308 TATTA-T-AT
1 TATTATTAAA
893316 TATTATTAAA
1 TATTATTAAA
893326 TAATTATTA
1 T-ATTATTA
893335 CATGCCCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
8 5 0.17
9 2 0.07
10 16 0.53
11 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
TATTATTAAA
Found at i:893334 original size:3 final size:3
Alignment explanation
Indices: 893263--893323 Score: 70
Period size: 3 Copynumber: 20.0 Consensus size: 3
893253 ATTTATTTAT
** *
893263 TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA TTAA ATA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA T-TA
893310 TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA
893324 AATAATTATT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 42 0.86
4 5 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:895368 original size:3 final size:3
Alignment explanation
Indices: 895360--895419 Score: 61
Period size: 3 Copynumber: 19.3 Consensus size: 3
895350 TTCAAATTTT
*
895360 TTA TTA TTA CTTA TTA TTT TTA TATA TTA TTA TTA TTA TT- TTA TT-
1 TTA TTA TTA -TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
895405 TTA TTTA TTTA TTA T
1 TTA -TTA -TTA TTA T
895420 ATTCAATAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
2 4 0.08
3 33 0.66
4 13 0.26
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:895376 original size:13 final size:12
Alignment explanation
Indices: 895360--895419 Score: 61
Period size: 13 Copynumber: 4.8 Consensus size: 12
895350 TTCAAATTTT
895360 TTATTATTACTTA
1 TTATTATTA-TTA
*
895373 TTATTTTTATATA
1 TTATTATTAT-TA
895386 TTATTATTATTA
1 TTATTATTATTA
895398 TT-TTATT-TTA
1 TTATTATTATTA
895408 TTTATTTATTAT
1 -TTA-TTATTAT
895420 ATTCAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
10 3 0.08
11 7 0.17
12 5 0.12
13 24 0.60
14 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (12 bp):
TTATTATTATTA
Found at i:895381 original size:19 final size:19
Alignment explanation
Indices: 895357--895421 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
895347 TCTTTCAAAT
895357 TTTTTAT-TATTACTTATTA
1 TTTTTATATATTA-TTATTA
895376 TTTTTATATATTATTATTA
1 TTTTTATATATTATTATTA
*
895395 TTATT-T-TATT-TTATTTA
1 TTTTTATATATTATTA-TTA
895412 TTTATTATAT
1 TTT-TTATAT
895422 TCAATAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
16 3 0.08
17 9 0.23
18 3 0.08
19 18 0.46
20 6 0.15
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTTATATATTATTATTA
Found at i:895422 original size:26 final size:26
Alignment explanation
Indices: 895355--895419 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
895345 TTTCTTTCAA
895355 ATTT-TTTATTATTACTTATTATTTTT
1 ATTTATTTATTATTA-TTATTATTTTT
* *
895381 ATATA-TTATTATTATTATTTTATTTT
1 ATTTATTTATTATTATTATTAT-TTTT
895407 ATTTATTTATTAT
1 ATTTATTTATTAT
895420 ATTCAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
25 6 0.18
26 20 0.61
27 7 0.21
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (26 bp):
ATTTATTTATTATTATTATTATTTTT
Found at i:897015 original size:14 final size:14
Alignment explanation
Indices: 896996--897038 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
896986 TTTTAAATAA
896996 TTTACATTTACATT
1 TTTACATTTACATT
* *
897010 TTTACATTCACATA
1 TTTACATTTACATT
*
897024 TTTACATTTGCATT
1 TTTACATTTACATT
897038 T
1 T
897039 GGCATCTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.28, C:0.16, G:0.02, T:0.53
Consensus pattern (14 bp):
TTTACATTTACATT
Found at i:902807 original size:114 final size:114
Alignment explanation
Indices: 902540--902880 Score: 556
Period size: 114 Copynumber: 3.0 Consensus size: 114
902530 AAGTGCCATG
*
902540 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
902605 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTTAAAGATGAATT
66 TGGTTTGGTATGAACCCC-AAAACCAATCATTGGATTTAAAAGATGAATT
* *
902655 TGCTCATAGTAGAAATAAGAAAACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATATGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
902720 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
* *
902769 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * * * *
902834 TGATTCGGTAGGAACCCCAGAACCGATCATTGGAATTGAAAGATGAA
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAA
902881 CTGCATGATC
Statistics
Matches: 211, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
114 131 0.62
115 80 0.38
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
Found at i:905369 original size:22 final size:22
Alignment explanation
Indices: 905338--905392 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
905328 ATCTACACTC
* *
905338 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTACCTT
* *
905360 TTTAAAGATGACAGATTATCTT
1 TTCAAAGATGACAGATTACCTT
905382 TTCAAAGATGA
1 TTCAAAGATGA
905393 AAGCTTTATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTACCTT
Found at i:905999 original size:116 final size:116
Alignment explanation
Indices: 905816--906273 Score: 868
Period size: 116 Copynumber: 4.0 Consensus size: 116
905806 TTTCCAGTTC
905816 GAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
1 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
905878 GTTCAACCTTTTGTTTAAATTCATCATATGATGGATTAACATTGCCAGGTA
66 GTTCAACCTTTTGTTTAAATTCATCATATGATGGATTAACATTGCCAGGTA
905929 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
1 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
905994 GTTCAACCTTTTGTTTAAATTCATCATATGATGGATTAACATTGCCAGGTA
66 GTTCAACCTTTTGTTTAAATTCATCATATGATGGATTAACATTGCCAGGTA
* *
906045 GAGTTCATAATGAGAAGAACTTGTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTT
1 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
906110 GTTCAACCTTTTGTTTAAATTCATCATATGATGGATTAACATTGCCAGGTA
66 GTTCAACCTTTTGTTTAAATTCATCATATGATGGATTAACATTGCCAGGTA
*
906161 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTT
1 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
906226 GTTCAACCTTTTGTTTAAATTCATCATATGATGGATTAACATTGCCAG
66 GTTCAACCTTTTGTTTAAATTCATCATATGATGGATTAACATTGCCAG
906274 ATCCGCTTTT
Statistics
Matches: 339, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
113 19 0.06
115 1 0.00
116 319 0.94
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (116 bp):
GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
GTTCAACCTTTTGTTTAAATTCATCATATGATGGATTAACATTGCCAGGTA
Found at i:906181 original size:232 final size:229
Alignment explanation
Indices: 905816--906349 Score: 888
Period size: 232 Copynumber: 2.3 Consensus size: 229
905806 TTTCCAGTTC
905816 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
905881 CAACCTTTTGTTTAAATTCATCATATGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAG
66 CAACCTTTTGTTTAAATTCATCATATGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAG
905946 AACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTA
131 AACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTA
906011 AATTCATCATATGATGGATTAACATTGCCAGGTA
196 AATTCATCATATGATGGATTAACATTGCCAGGTA
*
906045 GAGTTCATAATGAGAAGAACTTGTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTT
1 GAGTTCATAATGAGAAGAAC---TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
906110 GTTCAACCTTTTGTTTAAATTCATCATATGATGGATTAACATTGCCAGGTAGAGTTCATAATGAG
63 GTTCAACCTTTTGTTTAAATTCATCATATGATGGATTAACATTGCCAGGTAGAGTTCATAATGAG
*
906175 AAGAACTCGTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
128 AAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
906240 TTAAATTCATCATATGATGGATTAACATTGCCAGATCCGCTTTTCCAGA
193 TTAAATTCATCATATGATGGATTAACATTGCCAG----G----T----A
*
906289 GGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGAAGAA
1 -G-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
906350 CTCATCAAGA
Statistics
Matches: 284, Mismatches: 4, Indels: 20
0.92 0.01 0.06
Matches are distributed among these distances:
229 20 0.07
232 204 0.72
236 1 0.00
240 1 0.00
243 37 0.13
244 1 0.00
245 1 0.00
246 19 0.07
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.30
Consensus pattern (229 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
CAACCTTTTGTTTAAATTCATCATATGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAG
AACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTA
AATTCATCATATGATGGATTAACATTGCCAGGTA
Found at i:906641 original size:15 final size:15
Alignment explanation
Indices: 906617--906687 Score: 90
Period size: 15 Copynumber: 4.6 Consensus size: 15
906607 ATTTATTTAT
*
906617 TTATTAATTATTATTA
1 TTATT-ATTATTAATA
*
906633 TTATTATTATTAAAA
1 TTATTATTATTAATA
906648 TTATTATTATTAAATA
1 TTATTATTATT-AATA
906664 TTATTATATATT-ATA
1 TTATTAT-TATTAATA
906679 TTATTATTA
1 TTATTATTA
906688 AATAATTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
14 2 0.04
15 29 0.58
16 15 0.30
17 4 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATTATTATTAATA
Found at i:906685 original size:31 final size:30
Alignment explanation
Indices: 906605--906687 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 30
906595 TTTACCCATT
*
906605 TTATT-TAT-TTAT-TTATTAATTATTATTA
1 TTATTATATATTATATTATT-ATTATTAATA
*
906633 TTATTAT-TATTAAAATTATTATTATTAAATA
1 TTATTATATATT-ATATTATTATTATT-AATA
906664 TTATTATATATTATATTATTATTA
1 TTATTATATATTATATTATTATTA
906688 AATAATTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
28 6 0.13
29 3 0.07
30 7 0.15
31 26 0.57
32 4 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (30 bp):
TTATTATATATTATATTATTATTATTAATA
Found at i:906698 original size:3 final size:3
Alignment explanation
Indices: 906617--906687 Score: 81
Period size: 3 Copynumber: 23.0 Consensus size: 3
906607 ATTTATTTAT
** *
906617 TTA TTAA TTA TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA TTAA ATA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
906664 TTA TTA TATA TTA -TA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA
906688 AATAATTATT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
2 2 0.03
3 48 0.83
4 8 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:907101 original size:19 final size:19
Alignment explanation
Indices: 907079--907115 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
907069 GACAGAGAAA
907079 AGAGAGACAGA-AAATACAC
1 AGAGAGA-AGAGAAATACAC
907098 AGAGAGAAGAGAAATACA
1 AGAGAGAAGAGAAATACA
907116 AAAAAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.59, C:0.11, G:0.24, T:0.05
Consensus pattern (19 bp):
AGAGAGAAGAGAAATACAC
Found at i:913782 original size:15 final size:14
Alignment explanation
Indices: 913760--913789 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
913750 TTTTCCTTTC
913760 TGTTTTTTATTTAT
1 TGTTTTTTATTTAT
913774 TGTTATTTTATTTAT
1 TGTT-TTTTATTTAT
913789 T
1 T
913790 TCATCTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (14 bp):
TGTTTTTTATTTAT
Found at i:914862 original size:19 final size:18
Alignment explanation
Indices: 914827--914868 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
914817 TCACTAACTC
* *
914827 TTTTTATTTTTTTTTATT
1 TTTTTATTTATTATTATT
914845 TTTTTATTTAATTATTATT
1 TTTTTATTT-ATTATTATT
914864 TTTTT
1 TTTTT
914869 TCTTGTTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTATTTATTATTATT
Found at i:919221 original size:165 final size:165
Alignment explanation
Indices: 918927--919988 Score: 1524
Period size: 165 Copynumber: 6.4 Consensus size: 165
918917 AAAACAAACT
**
918927 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
* * * * * **
918992 GCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTA-AAAGGGTTATCTG-TGACCAAAAGA
66 GCTTCGAGGGCACATCATTTGCAGCACAACTTAAGTCTAGAAA-GGTTATCTGCCAACC-AAAGA
919055 CCTTTGAGTTCGACTACGCTCAGCT-CAACGACACATC
129 CCTTTGAGTTCGACTACGCTCAGCTCCAA-GACACATC
* *
919092 ATTTGCAGCATAACTTAAGTCGATAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
* * * *
919157 GCTTCGAGGGCATATCATTTGCAACACAACTTAAGTCTAGAAAGGTTGTCTGCCAGCCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCACAACTTAAGTCTAGAAAGGTTATCTGCCAACCAAAGACC
* *
919222 TTTGAGTTCGACTACGCTCAGCTCCAAGGCGCATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGACACATC
919257 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
* * *
919322 GC-TCTGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGAC
66 GCTTC-GAGGGCACATCATTTGCAGCACAACTTAAGTCTAGAAAGGTTATCTGCCAACCAAAGAC
*
919386 CTTTGAGTTCGACTACGCTCAGCTCCAAGACATATC
130 CTTTGAGTTCGACTACGCTCAGCTCCAAGACACATC
* *
919422 ATTTGCAGCATAGCTTAAGTCGATAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
* * * *
919487 GCTTCGAGGACATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCACAACTTAAGTCTAGAAAGGTTATCTGCCAACCAAAGACC
* *
919552 TTTGAGTTCGACTACGCTCAGCTCCAAGGCGCATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGACACATC
* *
919587 ATTTGCAACATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCTTCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
* * *
919652 GC-TCTGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAAGGTTATCTACCAACCAAAGAC
66 GCTTC-GAGGGCACATCATTTGCAGCACAACTTAAGTCTAGAAAGGTTATCTGCCAACCAAAGAC
*
919716 CTTTGAGTTCGACTACGCTCAGCTCCAAGACATATC
130 CTTTGAGTTCGACTACGCTCAGCTCCAAGACACATC
* *
919752 ATTTGCAGCATAGCTTAAGTCGATAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
* * * * *
919817 GCTTCGAGGACATATCATTTGTAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCACAACTTAAGTCTAGAAAGGTTATCTGCCAACCAAAGACC
* * *
919882 TTCGAGTTCGACTACGCTCAGCTCCAATG-CATATT
131 TTTGAGTTCGACTACGCTCAGCTCCAA-GACACATC
* * * * * * *
919917 ATTTGCAGTACAACTTAAGTCTAGAGGGGTTGTCTGCCAACAGAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--CA-AAGACCTTCGAGTTCGATTACA
919982 CTCAGCT
62 CTCAGCT
919989 CAGAGGCAAA
Statistics
Matches: 809, Mismatches: 76, Indels: 20
0.89 0.08 0.02
Matches are distributed among these distances:
164 4 0.00
165 761 0.94
166 14 0.02
168 2 0.00
169 28 0.03
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (165 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTGCAGCACAACTTAAGTCTAGAAAGGTTATCTGCCAACCAAAGACC
TTTGAGTTCGACTACGCTCAGCTCCAAGACACATC
Found at i:919528 original size:330 final size:330
Alignment explanation
Indices: 918927--919994 Score: 1739
Period size: 330 Copynumber: 3.2 Consensus size: 330
918917 AAAACAAACT
**
918927 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
* * * * **
918992 GCT-TCGAGGGCACATCATTTACAGTATAACTCAAGGCTAA-AAGGGTTATCTG-TGACCAAAAG
66 GCTCT-GAGGGCACATCATTTGCAGCATAACTTAAGTC-AAGAAGGGTTATCTGCCAACC-AAAG
* *
919054 ACCTTTGAGTTCGACTACGCTCAGCT-CAACGACACATCATTTGCAGCATAACTTAAGTCGATAA
128 ACCTTTGAGTTCGACTACGCTCAGCTCCAA-GACATATCATTTGCAGCATAGCTTAAGTCGATAA
* * *
919118 GGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTGCAACA
192 GGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGACATATCATTTGCAGCA
* *
919183 CAACTTAAGTCTAGAAAGGTTGTCTGCCAGCCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCA
257 CAACTTAAGTCTAGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCA
919248 AGGCGCATC
322 AGGCGCATC
919257 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
919322 GCTCTGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTCTGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACC
919387 TTTGAGTTCGACTACGCTCAGCTCCAAGACATATCATTTGCAGCATAGCTTAAGTCGATAAGGGC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGACATATCATTTGCAGCATAGCTTAAGTCGATAAGGGC
919452 TATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGACATATCATTTGCAGCACAAC
196 TATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGACATATCATTTGCAGCACAAC
919517 TTAAGTCTAGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
261 TTAAGTCTAGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
919582 GCATC
326 GCATC
* *
919587 ATTTGCAACATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCTTCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
* *
919652 GCTCTGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAAGGTTATCTACCAACCAAAGACC
66 GCTCTGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACC
919717 TTTGAGTTCGACTACGCTCAGCTCCAAGACATATCATTTGCAGCATAGCTTAAGTCGATAAGGGC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGACATATCATTTGCAGCATAGCTTAAGTCGATAAGGGC
*
919782 TATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGACATATCATTTGTAGCACAAC
196 TATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGACATATCATTTGCAGCACAAC
* *
919847 TTAAGTCTAGAAGGGTTGTCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAATGC
261 TTAAGTCTAGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
** *
919912 ATATT
326 GCATC
* * * * * * *
919917 ATTTGCAGTACAACTTAAGTCTAGAGGGGTTGTCTGCCAACAGAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--CA-AAGACCTTCGAGTTCGATTACA
*
919982 CTCAGCTCAGAGG
62 CTCAGCTCTGAGG
919995 CAAACCAAGT
Statistics
Matches: 695, Mismatches: 35, Indels: 12
0.94 0.05 0.02
Matches are distributed among these distances:
329 2 0.00
330 649 0.93
331 8 0.01
333 2 0.00
334 34 0.05
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (330 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
GCTCTGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACC
TTTGAGTTCGACTACGCTCAGCTCCAAGACATATCATTTGCAGCATAGCTTAAGTCGATAAGGGC
TATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGACATATCATTTGCAGCACAAC
TTAAGTCTAGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
GCATC
Found at i:921811 original size:15 final size:14
Alignment explanation
Indices: 921789--921818 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
921779 TTTTCCTTTC
921789 TGTTTTTTATTTAT
1 TGTTTTTTATTTAT
921803 TGTTATTTTATTTAT
1 TGTT-TTTTATTTAT
921818 T
1 T
921819 TCATCTAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (14 bp):
TGTTTTTTATTTAT
Found at i:922923 original size:60 final size:60
Alignment explanation
Indices: 922810--922989 Score: 158
Period size: 60 Copynumber: 3.0 Consensus size: 60
922800 GTCCTCAATC
* * * *
922810 TATGACTCTCATTCTAAATTAGTTCCT-AAACTTTT-ATACATTTCAA-TTCCATCCTTAAAA
1 TATGACTATTATTCTAAATTAG-TCCTCAAAATTTTGA-ACATTTCAATTTTCATCC-TAAAA
**
922870 TATGACTATTATTCTAAATTAGTCCTCAAAATTTTGAACATTT-AATTTTCATCCATAAGC
1 TATGACTATTATTCTAAATTAGTCCTCAAAATTTTGAACATTTCAATTTTCATCC-TAAAA
* * * * *
922930 TATGA-TTTTCATCCTAAATTGGTCC-CAAACTTTTTGAATATTTCAATTTT-ATCCTAAAA
1 TATGACTATT-ATTCTAAATTAGTCCTCAAA-ATTTTGAACATTTCAATTTTCATCCTAAAA
922989 T
1 T
922990 GTTCGTATAT
Statistics
Matches: 100, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
59 17 0.17
60 76 0.76
61 7 0.07
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.43
Consensus pattern (60 bp):
TATGACTATTATTCTAAATTAGTCCTCAAAATTTTGAACATTTCAATTTTCATCCTAAAA
Found at i:923206 original size:60 final size:60
Alignment explanation
Indices: 923105--923256 Score: 182
Period size: 60 Copynumber: 2.5 Consensus size: 60
923095 TGGATGAATC
* * *
923105 TGGGGATGAAATT-GAAATATATAAAAGTTTAGGGACCAATTTAGAATGGGATTCATAGTT
1 TGGGGATGAAATTAG-AATATATAAAAGTTTAAGGACCAATTTAGAATGAGAGTCATAGTT
* * *
923165 TGGGGATGAAATTAGAATGT-TAAAAGGTTTAAGGACTAATTTAGAATGAGAGTCATGGTT
1 TGGGGATGAAATTAGAATATATAAAA-GTTTAAGGACCAATTTAGAATGAGAGTCATAGTT
** * *
923225 TAAGGATGAAATTAGAATATTTAAAAATTTAA
1 TGGGGATGAAATTAGAATATATAAAAGTTTAA
923257 AGAATAATAT
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
59 5 0.06
60 68 0.86
61 6 0.08
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.32
Consensus pattern (60 bp):
TGGGGATGAAATTAGAATATATAAAAGTTTAAGGACCAATTTAGAATGAGAGTCATAGTT
Found at i:923290 original size:60 final size:60
Alignment explanation
Indices: 923168--923290 Score: 133
Period size: 60 Copynumber: 2.0 Consensus size: 60
923158 CATAGTTTGG
* * * * * * *
923168 GGATGAAATTAGAATGTTAAAAGGTTTAAGGACTAATTTAGAATGAGAGTCATGGTTTAA
1 GGATGAAATTAGAATGTTAAAAGATTTAAAGAATAATTGAGAATGAGAGACATAGTTCAA
* *
923228 GGATGAAATTAGAATATTTAAAA-ATTTAAAGAATAATATGA-AATGATAGACATAGTTCAA
1 GGATGAAATTAGAAT-GTTAAAAGATTTAAAGAATAAT-TGAGAATGAGAGACATAGTTCAA
923288 GGA
1 GGA
923291 CATATGATGA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
60 44 0.85
61 8 0.15
ACGTcount: A:0.46, C:0.03, G:0.21, T:0.30
Consensus pattern (60 bp):
GGATGAAATTAGAATGTTAAAAGATTTAAAGAATAATTGAGAATGAGAGACATAGTTCAA
Found at i:929345 original size:2 final size:2
Alignment explanation
Indices: 929338--929369 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
929328 ATTTATAGAT
929338 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
929370 CATACATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:938589 original size:16 final size:16
Alignment explanation
Indices: 938546--938591 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
938536 AAATAAAAAT
*
938546 ATAACATTTAAATTATA
1 ATAA-ATTTAAACTATA
938563 ATATCAATTTAAACTATA
1 ATA--AATTTAAACTATA
938581 ATAAATTTAAA
1 ATAAATTTAAA
938592 AAATTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 8 0.31
17 3 0.12
18 14 0.54
19 1 0.04
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (16 bp):
ATAAATTTAAACTATA
Found at i:938681 original size:18 final size:19
Alignment explanation
Indices: 938645--938686 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
938635 AAAATATAAA
938645 AATAAAAATATATAATTAT
1 AATAAAAATATATAATTAT
*
938664 AATAAAAATATAT-TTTAT
1 AATAAAAATATATAATTAT
938682 AATAA
1 AATAA
938687 CTCACTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATAAAAATATATAATTAT
Found at i:940682 original size:22 final size:23
Alignment explanation
Indices: 940657--940702 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
940647 TAATAAACAA
940657 AAACAAATG-AACGAATATAAAC
1 AAACAAATGAAACGAATATAAAC
940679 AAACAAATGTAAACGAATATAAAC
1 AAACAAATG-AAACGAATATAAAC
940703 GAGCAAACGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 9 0.41
24 13 0.59
ACGTcount: A:0.63, C:0.13, G:0.09, T:0.15
Consensus pattern (23 bp):
AAACAAATGAAACGAATATAAAC
Found at i:940709 original size:24 final size:24
Alignment explanation
Indices: 940666--940715 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
940656 AAAACAAATG
*
940666 AACGAATATAAACAAACAAATGTA
1 AACGAATATAAACAAACAAACGTA
* *
940690 AACGAATATAAACGAGCAAACGTA
1 AACGAATATAAACAAACAAACGTA
940714 AA
1 AA
940716 TGAACACAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.60, C:0.14, G:0.12, T:0.14
Consensus pattern (24 bp):
AACGAATATAAACAAACAAACGTA
Found at i:941020 original size:10 final size:10
Alignment explanation
Indices: 941005--941056 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
940995 AATATAAACG
941005 AACGAACATA
1 AACGAACATA
941015 AACGAACATA
1 AACGAACATA
* *
941025 CACGGACATAAA
1 AACGAACAT--A
941037 TGAACGAACATA
1 --AACGAACATA
941049 AACGAACA
1 AACGAACA
941057 GATTATTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 25 0.74
12 2 0.06
14 7 0.21
ACGTcount: A:0.56, C:0.21, G:0.13, T:0.10
Consensus pattern (10 bp):
AACGAACATA
Found at i:942116 original size:20 final size:21
Alignment explanation
Indices: 942078--942116 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
942068 AAAAAATATT
*
942078 TAAAATATTATTATTTTTATC
1 TAAAATATTAATATTTTTATC
942099 TAAAATATTAAT-TTTTTA
1 TAAAATATTAATATTTTTA
942117 ATATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
TAAAATATTAATATTTTTATC
Found at i:942863 original size:20 final size:20
Alignment explanation
Indices: 942827--942864 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
942817 ATTTTTTTGG
942827 AATTCTAAATTTCTTCTTAA
1 AATTCTAAATTTCTTCTTAA
*
942847 AATTC-AAAGTTTTTTCTT
1 AATTCTAAA-TTTCTTCTT
942865 TTAATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.32, C:0.13, G:0.03, T:0.53
Consensus pattern (20 bp):
AATTCTAAATTTCTTCTTAA
Found at i:945255 original size:23 final size:23
Alignment explanation
Indices: 945223--945331 Score: 137
Period size: 23 Copynumber: 4.7 Consensus size: 23
945213 CATATAAATA
*
945223 CACCGAAGTGCCATATAGAATTG
1 CACCGTAGTGCCATATAGAATTG
*** *
945246 CACCGTAGTGCCGCGTAGAGTTG
1 CACCGTAGTGCCATATAGAATTG
945269 CACCGTAGTGCCATATAGAATTG
1 CACCGTAGTGCCATATAGAATTG
*** *
945292 CACCGTAGTGCCGCGTAGAGTTG
1 CACCGTAGTGCCATATAGAATTG
945315 CACCGTAGTGCCATATA
1 CACCGTAGTGCCATATA
945332 ATAATGTCCA
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (23 bp):
CACCGTAGTGCCATATAGAATTG
Found at i:945290 original size:46 final size:46
Alignment explanation
Indices: 945223--945331 Score: 209
Period size: 46 Copynumber: 2.4 Consensus size: 46
945213 CATATAAATA
*
945223 CACCGAAGTGCCATATAGAATTGCACCGTAGTGCCGCGTAGAGTTG
1 CACCGTAGTGCCATATAGAATTGCACCGTAGTGCCGCGTAGAGTTG
945269 CACCGTAGTGCCATATAGAATTGCACCGTAGTGCCGCGTAGAGTTG
1 CACCGTAGTGCCATATAGAATTGCACCGTAGTGCCGCGTAGAGTTG
945315 CACCGTAGTGCCATATA
1 CACCGTAGTGCCATATA
945332 ATAATGTCCA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (46 bp):
CACCGTAGTGCCATATAGAATTGCACCGTAGTGCCGCGTAGAGTTG
Found at i:945514 original size:103 final size:103
Alignment explanation
Indices: 945343--945560 Score: 418
Period size: 103 Copynumber: 2.1 Consensus size: 103
945333 TAATGTCCAT
*
945343 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGAATGTGTCTCACCA
945408 GACTTCAAACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCAAACATGTTCCAAAGAATACATATATGTCCCG
945446 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGAATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGAATGTGTCTCACCA
*
945511 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCAAACATGTTCCAAAGAATACATATATGTCCCG
945549 AAGGACCACATA
1 AAGGACCACATA
945561 GACCCTCGAC
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 113 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGAATGTGTCTCACCA
GACTTCAAACATGTTCCAAAGAATACATATATGTCCCG
Found at i:947020 original size:20 final size:21
Alignment explanation
Indices: 946995--947037 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
946985 ATTTTATTCG
*
946995 CTTGAA-GGGTATCGGTTCCC
1 CTTGAATGGGTATCGATTCCC
947015 CTTGAATGGGTATCGATTCCC
1 CTTGAATGGGTATCGATTCCC
947036 CT
1 CT
947038 AGCCCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.33
Consensus pattern (21 bp):
CTTGAATGGGTATCGATTCCC
Found at i:948304 original size:32 final size:32
Alignment explanation
Indices: 948052--948301 Score: 380
Period size: 32 Copynumber: 7.9 Consensus size: 32
948042 AAATGACCTA
**
948052 TCCATATGTTTCGAATA-ACATAGGTAA--CTG
1 TCCATATGTCCCGAA-AGACATAGGTAATTCTG
* *
948082 TCCATATGTCCCAAAAGGCATAGGTAATTCTG
1 TCCATATGTCCCGAAAGACATAGGTAATTCTG
948114 TCCATATGTCCCGAAAGACATAGGTAATTCTG
1 TCCATATGTCCCGAAAGACATAGGTAATTCTG
948146 TCCATATGTCCCGAAAGACATAGGTAATTCTG
1 TCCATATGTCCCGAAAGACATAGGTAATTCTG
* * * *
948178 TCCATATATCCCGAAAAACATAGATAATTCTT
1 TCCATATGTCCCGAAAGACATAGGTAATTCTG
948210 TCCATATGTCCCGAAAGACATAGGTAATTCTG
1 TCCATATGTCCCGAAAGACATAGGTAATTCTG
*
948242 TCCATATGTCCCGAAAGACATAGGTAATCCTG
1 TCCATATGTCCCGAAAGACATAGGTAATTCTG
*
948274 TCTATATGTCCCGAAAGACATAGGTAAT
1 TCCATATGTCCCGAAAGACATAGGTAAT
948302 CCTTGACTCT
Statistics
Matches: 201, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
29 1 0.00
30 21 0.10
32 179 0.89
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (32 bp):
TCCATATGTCCCGAAAGACATAGGTAATTCTG
Found at i:954280 original size:32 final size:31
Alignment explanation
Indices: 954230--954289 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
954220 TTTAGGGTTT
* *
954230 AAATTAGTATTCTATGTAAATTTCCAAGGGTC
1 AAATTAGTATTCGATGTAAAATT-CAAGGGTC
954262 AAATTAGTATT-GAGTGTAAAATTCAAGG
1 AAATTAGTATTCGA-TGTAAAATTCAAGG
954290 ATCACGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 6 0.24
32 19 0.76
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.35
Consensus pattern (31 bp):
AAATTAGTATTCGATGTAAAATTCAAGGGTC
Found at i:954519 original size:27 final size:28
Alignment explanation
Indices: 954462--954519 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
954452 GTTCAACCTT
* *
954462 ATTTTAATTCAAATTTTATTATATGTCA
1 ATTTTAATACAAATTTTATTATATGTAA
*
954490 ATTTT-ATACAAA-TTTATTATAATTTAA
1 ATTTTAATACAAATTTTATTAT-ATGTAA
954517 ATT
1 ATT
954520 CAATTTTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 8 0.31
27 13 0.50
28 5 0.19
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTTAATACAAATTTTATTATATGTAA
Found at i:954811 original size:30 final size:31
Alignment explanation
Indices: 954739--954816 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
954729 AAAAAAAACA
* *
954739 TAAGTTTTGGTCACTTACATTATTGTTTTAT
1 TAAGTTTTGGTCACTTACACTATTATTTTAT
*
954770 TAAGTTTTGGTCACTTACGCTATTATTTTAT
1 TAAGTTTTGGTCACTTACACTATTATTTTAT
954801 TAAG-TTTGGTCACTTA
1 TAAGTTTTGGTCACTTA
954817 GACATTAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 12 0.27
31 32 0.73
ACGTcount: A:0.23, C:0.12, G:0.14, T:0.51
Consensus pattern (31 bp):
TAAGTTTTGGTCACTTACACTATTATTTTAT
Found at i:979332 original size:41 final size:41
Alignment explanation
Indices: 979287--979370 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
979277 AAAAGAGATA
979287 TAAAAGTGGTAAAAAAGATCCTTATACACTTAAAACTTAAT
1 TAAAAGTGGTAAAAAAGATCCTTATACACTTAAAACTTAAT
*
979328 TAAAAGTGGTAAAAAAGATCCTTGTACACTTAAAACTTAAT
1 TAAAAGTGGTAAAAAAGATCCTTATACACTTAAAACTTAAT
979369 TA
1 TA
979371 CTTTAAAGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.30
Consensus pattern (41 bp):
TAAAAGTGGTAAAAAAGATCCTTATACACTTAAAACTTAAT
Found at i:991061 original size:20 final size:20
Alignment explanation
Indices: 991036--991074 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
991026 TTATTAATTT
* *
991036 AATTTAATTTAATAAATAAG
1 AATTTAATTGAAAAAATAAG
991056 AATTTAATTGAAAAAATAA
1 AATTTAATTGAAAAAATAA
991075 TATAAAAAGA
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:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
AATTTAATTGAAAAAATAAG
Found at i:991215 original size:20 final size:20
Alignment explanation
Indices: 991171--991378 Score: 158
Period size: 20 Copynumber: 10.2 Consensus size: 20
991161 AATGACCAAC
**
991171 AAAATCGCAACGCGA-TATC
1 AAAATCGCAACGCGATTAAG
*
991190 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTAAG
* *
991210 AAAATCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTAAG
*
991230 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TAAG
***
991250 AAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TAAG
*
991271 AAGAATCGCAATGCGATTAAG
1 AA-AATCGCAACGCGATTAAG
* ***
991292 AGAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TAAG
*
991313 AAGAATCGCAATGCGATTAAG
1 AA-AATCGCAACGCGATTAAG
991334 AAAATCGCAACGCGATTCCAAG
1 AAAATCGCAACGCGATT--AAG
991356 --AATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTAAG
991374 AAAAT
1 AAAAT
991379 GAGTAAATTC
Statistics
Matches: 149, Mismatches: 26, Indels: 27
0.74 0.13 0.13
Matches are distributed among these distances:
18 4 0.03
19 15 0.10
20 88 0.59
21 12 0.08
22 30 0.20
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTAAG
Found at i:991298 original size:42 final size:42
Alignment explanation
Indices: 991247--991378 Score: 232
Period size: 42 Copynumber: 3.2 Consensus size: 42
991237 CAACGGTCAA
991247 AAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATT
1 AAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATT
*
991289 AAGAGAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATT
1 AAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATT
*
991331 AAGAAAATCGCAACGCGA--TTCCAAGAATCGCAACGCGATT
1 AAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATT
991371 AAGAAAAT
1 AAGAAAAT
991379 GAGTAAATTC
Statistics
Matches: 87, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
40 29 0.33
42 58 0.67
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (42 bp):
AAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATT
Found at i:991369 original size:40 final size:40
Alignment explanation
Indices: 991171--991378 Score: 219
Period size: 42 Copynumber: 5.1 Consensus size: 40
991161 AATGACCAAC
*
991171 AAAATCGCAACGCGATAT-CAA-AATCGCAACGCGATTTAG
1 AAAATCGCAACGCGAT-TCCAAGAATCGCAACGCGATTAAG
* **** *
991210 AAAATCGCAACGTTGAAAAGAA-AATCGCAACG-G-TCAAAAG
1 AAAATCGCAACG-CGATTCCAAGAATCGCAACGCGAT--TAAG
*
991250 AAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATTAAG
1 AAAATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTAAG
* *
991292 AGAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATTAAG
1 AAAATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTAAG
991334 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAG
991374 AAAAT
1 AAAAT
991379 GAGTAAATTC
Statistics
Matches: 144, Mismatches: 16, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
38 1 0.01
39 15 0.10
40 57 0.40
41 2 0.01
42 67 0.47
43 1 0.01
44 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (40 bp):
AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAG
Found at i:991476 original size:22 final size:22
Alignment explanation
Indices: 991415--991479 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
991405 ATTTGTTTCT
991415 TTCTTGGAAGATCGCGTTGCGA
1 TTCTTGGAAGATCGCGTTGCGA
* *
991437 TT-TT--ATGAATCGCATTGCGA
1 TTCTTGGAAG-ATCGCGTTGCGA
991457 TTCTTGGAAGATCGCGTTGCGA
1 TTCTTGGAAGATCGCGTTGCGA
991479 T
1 T
991480 CTTCTTTTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 2 0.06
20 13 0.37
21 4 0.11
22 14 0.40
23 2 0.06
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (22 bp):
TTCTTGGAAGATCGCGTTGCGA
Found at i:992385 original size:2 final size:2
Alignment explanation
Indices: 992380--992444 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
992370 AAAAATAAAT
992380 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
992422 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
992445 TAAAACATAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:996496 original size:16 final size:14
Alignment explanation
Indices: 996460--996491 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
996450 TAATAATCCT
996460 ATATTTATAATATA
1 ATATTTATAATATA
996474 ATATTTAT-ATATA
1 ATATTTATAATATA
996487 ATATT
1 ATATT
996492 ATTTAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATTTATAATATA
Found at i:1000890 original size:8 final size:8
Alignment explanation
Indices: 1000873--1000912 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
1000863 TGCGCCTTCC
1000873 TATT-TTT
1 TATTATTT
1000880 TATTATTT
1 TATTATTT
*
1000888 TATTAATT
1 TATTATTT
*
1000896 AATTATTT
1 TATTATTT
1000904 TATTATTT
1 TATTATTT
1000912 T
1 T
1000913 TTTTAATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 4 0.14
8 24 0.86
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
TATTATTT
Found at i:1001189 original size:15 final size:16
Alignment explanation
Indices: 1001169--1001204 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1001159 AATTGAAAAT
1001169 AATAAATATA-AACTA
1 AATAAATATACAACTA
*
1001184 AATAAATTTACAACTA
1 AATAAATATACAACTA
1001200 AATAA
1 AATAA
1001205 TAAAATGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (16 bp):
AATAAATATACAACTA
Found at i:1001234 original size:15 final size:13
Alignment explanation
Indices: 1001214--1001290 Score: 57
Period size: 15 Copynumber: 5.3 Consensus size: 13
1001204 ATAAAATGAT
1001214 AAAAAATTATTGAA
1 AAAAAATTATT-AA
1001228 TACAAAAATTAATTAA
1 -A-AAAAATT-ATTAA
*
1001244 ACAAAAA-TAATAA
1 A-AAAAATTATTAA
1001257 AAAAAATTATTGAA
1 AAAAAATTATT-AA
1001271 TAAAAAATTAATTAA
1 -AAAAAATT-ATTAA
1001286 TAAAA
1 -AAAA
1001291 TAATAAAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
12 5 0.09
13 8 0.15
14 3 0.06
15 23 0.43
16 12 0.22
17 3 0.06
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (13 bp):
AAAAAATTATTAA
Found at i:1001277 original size:42 final size:41
Alignment explanation
Indices: 1001214--1001300 Score: 140
Period size: 43 Copynumber: 2.1 Consensus size: 41
1001204 ATAAAATGAT
1001214 AAAAAATTATTGAATACAAAAATTAATTAAACAAAAATAATAA
1 AAAAAATTATTGAATACAAAAATTAATT-AA-AAAAATAATAA
*
1001257 AAAAAATTATTGAATA-AAAAATTAATTAATAAAATAATAA
1 AAAAAATTATTGAATACAAAAATTAATTAAAAAAATAATAA
1001297 AAAA
1 AAAA
1001301 TGAGGAAGGC
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
40 14 0.33
41 2 0.05
42 11 0.26
43 16 0.37
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (41 bp):
AAAAAATTATTGAATACAAAAATTAATTAAAAAAATAATAA
Found at i:1001291 original size:40 final size:41
Alignment explanation
Indices: 1001202--1001300 Score: 141
Period size: 40 Copynumber: 2.4 Consensus size: 41
1001192 TACAACTAAA
*
1001202 TAATAAAATGAT--AAAAAATTATTGAATACAAAAATTAAT
1 TAATAAAATAATAAAAAAAATTATTGAATACAAAAATTAAT
*
1001241 TAAACAAAAATAATAAAAAAAATTATTGAATA-AAAAATTAAT
1 T-AA-TAAAATAATAAAAAAAATTATTGAATACAAAAATTAAT
1001283 TAATAAAATAATAAAAAA
1 TAATAAAATAATAAAAAA
1001301 TGAGGAAGGC
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
39 1 0.02
40 16 0.30
41 9 0.17
42 11 0.21
43 16 0.30
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (41 bp):
TAATAAAATAATAAAAAAAATTATTGAATACAAAAATTAAT
Found at i:1001997 original size:19 final size:19
Alignment explanation
Indices: 1001923--1001997 Score: 98
Period size: 19 Copynumber: 3.8 Consensus size: 19
1001913 TACACACTCC
1001923 CATGCACGATCTCCCCAATG
1 CATGCACGATCTCCCC-ATG
* *
1001943 CATGAACCGATCTCCCGGA-G
1 CATGCA-CGATCTCCC-CATG
1001963 CATGCACGATCTCCCCATG
1 CATGCACGATCTCCCCATG
1001982 CATGCACGATCTCCCC
1 CATGCACGATCTCCCC
1001998 CCATGCGTGC
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
18 1 0.02
19 26 0.54
20 11 0.23
21 10 0.21
ACGTcount: A:0.23, C:0.41, G:0.17, T:0.19
Consensus pattern (19 bp):
CATGCACGATCTCCCCATG
Found at i:1002001 original size:21 final size:20
Alignment explanation
Indices: 1001923--1002008 Score: 95
Period size: 21 Copynumber: 4.3 Consensus size: 20
1001913 TACACACTCC
*
1001923 CATGCACGATCTCCCCAATG
1 CATGCACGATCTCCCCCATG
* **
1001943 CATGAACCGATCTCCCGGA-G
1 CATGCA-CGATCTCCCCCATG
1001963 CATGCACGATCT-CCCCATG
1 CATGCACGATCTCCCCCATG
1001982 CATGCACGATCTCCCCCCATG
1 CATGCACGATCT-CCCCCATG
*
1002003 CGTGCA
1 CATGCA
1002009 TGCACCGATC
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
18 3 0.05
19 19 0.35
20 11 0.20
21 22 0.40
ACGTcount: A:0.22, C:0.41, G:0.19, T:0.19
Consensus pattern (20 bp):
CATGCACGATCTCCCCCATG
Found at i:1002023 original size:25 final size:25
Alignment explanation
Indices: 1001980--1002029 Score: 91
Period size: 26 Copynumber: 2.0 Consensus size: 25
1001970 GATCTCCCCA
1001980 TGCATGCACGATCTCCCCCCATGCG
1 TGCATGCACGATCTCCCCCCATGCG
1002005 TGCATGCACCGATCTCCCCCCATGC
1 TGCATGCA-CGATCTCCCCCCATGC
1002030 ACACCATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.16, C:0.46, G:0.18, T:0.20
Consensus pattern (25 bp):
TGCATGCACGATCTCCCCCCATGCG
Found at i:1002037 original size:27 final size:25
Alignment explanation
Indices: 1001982--1002039 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
1001972 TCTCCCCATG
***
1001982 CATGCACGATCTCCCCCCATGCGTG
1 CATGCACGATCTCCCCCCATGCCAC
1002007 CATGCACCGATCTCCCCCCATGCACAC
1 CATGCA-CGATCTCCCCCCATGC-CAC
1002034 CATGCA
1 CATGCA
1002040 GCTCCCGCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 6 0.21
26 16 0.57
27 6 0.21
ACGTcount: A:0.21, C:0.47, G:0.16, T:0.17
Consensus pattern (25 bp):
CATGCACGATCTCCCCCCATGCCAC
Found at i:1002094 original size:28 final size:28
Alignment explanation
Indices: 1002062--1002139 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
1002052 GGTCGCCCGA
1002062 GTGCATGGCGA-CTCCTTGGTCATTGGGC
1 GTGCATGGCGACCT-CTTGGTCATTGGGC
* * *
1002090 GTGCATAGCGACCTTTTGGTCGTTGGGC
1 GTGCATGGCGACCTCTTGGTCATTGGGC
*
1002118 GTGCATGGCAACCTCTTGGTCA
1 GTGCATGGCGACCTCTTGGTCA
1002140 CTGTAGAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 40 0.95
29 2 0.05
ACGTcount: A:0.13, C:0.24, G:0.33, T:0.29
Consensus pattern (28 bp):
GTGCATGGCGACCTCTTGGTCATTGGGC
Found at i:1007141 original size:19 final size:21
Alignment explanation
Indices: 1007100--1007141 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
1007090 AGTTTGCCCT
*
1007100 TATAAAATGAAAGGTAATGTA
1 TATAAAATGAAAGCTAATGTA
*
1007121 TATAAAA-GATAGCTAAT-TA
1 TATAAAATGAAAGCTAATGTA
1007140 TA
1 TA
1007142 GGTGTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 8 0.42
21 7 0.37
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.31
Consensus pattern (21 bp):
TATAAAATGAAAGCTAATGTA
Found at i:1018797 original size:4 final size:4
Alignment explanation
Indices: 1018788--1023328 Score: 6171
Period size: 4 Copynumber: 1151.2 Consensus size: 4
1018778 TCAAAGGAGG
* * * * * *
1018788 CATA CATA CACA CATA CACA CATA C--A CACA CACA CATA CACA CACA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1018834 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1018882 CATA CATA CATA CATA CATA C-TA CATA CATA CA-A CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1018928 CATA CATA CCTA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1018976 CATA CATA CATA CATA CATA CATA TATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
1019024 TATA TATA -ATA CATA CATA CATA CATA TATA CATA CGTA CATA CGTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
1019071 CATA CATA CATA CATA CGTA TATA CGTA CATA CGTA TATA CGTA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * * * *
1019119 CATA TATA CGTA CGTA TATA CATA CGTA CGTA CATA TATA CGTA CGTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
1019167 CGTA CATA CGTA CGTA CGA-A TATA CGTA CATA CGA-A CATA CATA TATA
1 CATA CATA CATA CATA C-ATA CATA CATA CATA C-ATA CATA CATA CATA
* * * * * * *
1019215 CGTA CATA CATA CATA CGTG CATA CATA CATA CGTA TATA CTTA CGTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
1019263 CATA CATA CATG CATG TATA CATGCA CATG CATA CATG CATA CA-G CATA
1 CATA CATA CATA CATA CATA CAT--A CATA CATA CATA CATA CATA CATA
* *
1019312 CATA CATA C-TA CATG CAT- -ATA CATA CATG CATA CATA CATA CAT-
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
1019356 -ATA CATA CATA CATG CATG CATA CATA CATA CATA CATG CATG CACA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1019403 CATA CATA CATA CATA CATG CATA CATA CATA CATA CATA CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1019451 CATA CATA TATA CACA CATA CATA CATA CATA CATG CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1019499 CACA CATA CATA CATA CATA CATG CATA CATA CATA CATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1019547 CACA CATA CATG CATA CATA CATA CATA CATA CATA CACA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1019595 CACA CATA CATA CATA CATA CATA CATA CATA CATA CACA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1019643 CATA CATA CATA CATA CATA CATA CATA CATA C-TA CATA CATA CA-A
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1019689 CATA CATA CATA C-TA CATA CATA CATA CATA CATA CA-A CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1019735 CAT- -ATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1019781 CATA CA-A CATA CATA CATA C-TA CATA CATA CATA CA-A CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1019826 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1019874 CATA CATA CATA CA-A CATA CATA CATA CA-A CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1019920 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1019968 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1020016 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT- -ATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1020062 CA-A CATA CATA CATA CATA C-TA CATA CATA CATA CATA CA-A CAT-
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1020106 CATA CATA C-TA CATA CATA CATA C--A CATA CATA C--A CATA CAATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C-ATA
1020150 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1020198 CCTA CATA CATA CATA CATA CATA C--A CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1020244 CATA CAT- -ATA CATA CATA CATA CATA CATA CATA CATA CATA -ATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1020289 CATA CATA CATA CATA CATA CAT- -ATA CATA CATA CATA CATA C-TA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1020334 C-TA CATA CATA CATA CATA CATA CATA CATA CATA CCATA CATC CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA -CATA CATA CATA
* *
1020382 CATA CATA CATA CATA CATA C-CA CATA CATA CATA CCTA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
1020429 CAATG CATG CATG CATG CATA CATA CATA CATA CATA CATA CGTA CGTA
1 C-ATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
1020478 CATA CATA CATA CATA TATA CATA CGTA CGTA CGTA CGTA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
1020526 CGTA CATA CATA CGTA CATA CATA CGTA CATA CATA CGTA CATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
1020574 CATA CATG CATG CATG CATA CATA CATG CATA CATA CATG CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
1020622 CATA CATA CATA CATA CATA TATA CATA CGTA CGTA CGTA CGTA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
1020670 CATA CGTA CATA CATA CGTA CATA CATA CGTA CATG CATG CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * *
1020718 CATG CATG CATA CATA CATG CATA CATA CATG CATG CATA TATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1020766 CATG CATA TATA TATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1020814 CATA CATA CAT- CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1020861 CATA CATA CATA CATA CATA CATA CATA -ATA CATA CATA TATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1020908 CATA C-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA C--A
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1020953 CATA CAT- -ATA CATA CATA CATA CATA CATA TATA C--A CATA -ATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
** * * * * *
1020996 CAT- CATA CATA TGTA CGTA CGTA CATA CATA CGTA CGTA CATA CGTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * * * *
1021043 CATA CATA CGTA CATG CATG TATG CATA CATA CATG CGTA CATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
1021091 CATA CATG CATG CATG CATA CATG CATA CATA CATA CATA CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1021139 CATA AATA CATA CATG CATA CATA CATA CATA CATG CATA CAATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C-ATA CATA
1021188 CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1021235 CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
1021282 CATA CATA CATA CATA CATA CATA CATA CGTA CATG CATG CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
1021330 TATG CATA CATA CATA CATG CATA CATA CATG CATA CATG CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1021378 CATA CATA CATG CATA CATA CATA CATA CATA CATA CATA TATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
1021426 CATA TATA CATA CATG CATA CATA TATA CATA CATG CATA CATA CCATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA -CATA
1021475 CATA CATA CATA CATA CATA CAATA CATA CATA CATA CATA C--A CATA
1 CATA CATA CATA CATA CATA C-ATA CATA CATA CATA CATA CATA CATA
*
1021522 CATA CATA CATA CATA CATA CATA CATA AATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1021570 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1021618 CATA CATA CATA CATA CATA CATA CGTA CATA CATA CATA CATA CGTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * *
1021666 CGTA CGTA CATA CATA CGTA CGTA CATA CGTA CATA CATA CGTA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * * * *
1021714 CATG CATG CATA CATA CATG CGTA CATG CATG CATA CATG CATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1021762 CATA CATA CAT- -ATA CATA CATA CATG CATA CA-A -ATA CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1021806 CATA CATA CATA CATA C-TG CATA CATA CAT- CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1021852 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1021900 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1021948 CATA CATA CATA CATA CATA CATA CATA CATA CATA CGTA CATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
1021996 CATA CATG CATG CATG CATA CATA CATG CATA CATA CATG CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
1022044 CATA CATG CATA CATA CATG CATA CATA CATA CATA CATA TATA TATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1022092 CATA CATA TATA CATA CATG CATA CATA CATA CAGCTA CATA CATA GATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CA--TA CATA CATA CATA
*
1022142 CATA CATA CATA CATA CATA CATA CATA CATA TACTA CATA CAT- -ATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CA-TA CATA CATA CATA
* * *
1022189 CATA TACA TATA CATA CATA CATA CATA CATA -A-A CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1022235 CATA CATA CATA CATA CATA CATA CATA CATA CATA C-TA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1022282 CATA CATA CATA CCATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA -CATA CATA CATA CATA CATA CATA CATA CATA CATA
1022331 CAT- -ATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
1022377 CATA CATA CATA CATA CATA CATA CATA CGTA CGTA TATA CATA CGTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * * *
1022425 CGTA CATA CGTA CATA CATA CGTA CATG CATG CATA CATG CATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
1022473 CATA CATC CATG CATA CATA CATG CATA CATG CATA CATA CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1022521 CATA CATA CATA CATA CATG CATA CATA AATA CATA CATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1022569 CATA CATA CATA CATA CATA CATA CATA CATA C--A CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1022615 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAGA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1022663 CATA CAT- -ATA CATA CATA CATA CATA CATA CATA C-TA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
**
1022708 CATA TGTA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
** *
1022756 CATA CATA CATA CATA CATA CATA CATA CATA TGTA CGTA CACTA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CA-TA CATA
* * * * * * * *
1022805 CGTA C-TA CATG TATA CATA CGTA CATG CATG CATG CATA CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * *
1022852 CGTA CATG CATG CATA CATG CATG CATG CATA CATG CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1022900 CATA CATA CATG CATA CATA AATA CATA CATG CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1022948 CATG CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1022996 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1023044 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1023092 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA TATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1023140 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1023188 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1023236 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1023284 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C
1023329 CAATGACATG
Statistics
Matches: 4084, Mismatches: 360, Indels: 186
0.88 0.08 0.04
Matches are distributed among these distances:
2 40 0.01
3 108 0.03
4 3893 0.95
5 35 0.01
6 8 0.00
ACGTcount: A:0.46, C:0.25, G:0.04, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:1018808 original size:2 final size:2
Alignment explanation
Indices: 1018795--1018835 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
1018785 AGGCATACAT
* * *
1018795 AC AC AC AT AC AC AC AT AC AC AC AC AC AC AT AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1018836 TACATACATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.41, G:0.00, T:0.07
Consensus pattern (2 bp):
AC
Found at i:1018820 original size:14 final size:14
Alignment explanation
Indices: 1018791--1018835 Score: 72
Period size: 14 Copynumber: 3.1 Consensus size: 14
1018781 AAGGAGGCAT
1018791 ACATACACACATACAC
1 ACATACACAC--ACAC
1018807 ACATACACACACAC
1 ACATACACACACAC
1018821 ACATACACACACAC
1 ACATACACACACAC
1018835 A
1 A
1018836 TACATACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 19 0.66
16 10 0.34
ACGTcount: A:0.51, C:0.40, G:0.00, T:0.09
Consensus pattern (14 bp):
ACATACACACACAC
Found at i:1022189 original size:6 final size:6
Alignment explanation
Indices: 1022167--1022204 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
1022157 ACATACATAC
*
1022167 ATACAT ATACTAC ATACAT ATACAT ATACAT ATACAT A
1 ATACAT ATAC-AT ATACAT ATACAT ATACAT ATACAT A
1022205 CATACATACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (6 bp):
ATACAT
Found at i:1025286 original size:60 final size:60
Alignment explanation
Indices: 1025220--1025366 Score: 170
Period size: 60 Copynumber: 2.5 Consensus size: 60
1025210 AACATAATGA
* *
1025220 ATAGTCAAGTGACCATTTTGTAACTTTTAATAGTCAAGGGACTCAACAAAGCAACATCCT
1 ATAGTCAAGAGACCATTTTGTAACTTTTAACAGTCAAGGGACTCAACAAAGCAACATCCT
* * * ** * * **
1025280 ATAGTCAAAAGATCATTTTGTAACTTTTGACAGTTGAGGGACTCCATAAAGCAATGTCCT
1 ATAGTCAAGAGACCATTTTGTAACTTTTAACAGTCAAGGGACTCAACAAAGCAACATCCT
*
1025340 ATAGTCAAGGGACCATTTGTGT-ACTTT
1 ATAGTCAAGAGACCATTT-TGTAACTTT
1025367 ACCCTATTTC
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
60 69 0.96
61 3 0.04
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (60 bp):
ATAGTCAAGAGACCATTTTGTAACTTTTAACAGTCAAGGGACTCAACAAAGCAACATCCT
Found at i:1029308 original size:8 final size:10
Alignment explanation
Indices: 1029285--1029309 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1029275 TAACTTATAT
1029285 ATATATTAAA
1 ATATATTAAA
1029295 ATATATTAAA
1 ATATATTAAA
1029305 ATATA
1 ATATA
1029310 ATTTTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATATTAAA
Found at i:1036093 original size:18 final size:19
Alignment explanation
Indices: 1036070--1036105 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1036060 TCCAATTTTT
*
1036070 TTTTAT-TTTTAAATAATA
1 TTTTATATTTAAAATAATA
1036088 TTTTATATTTAAAATAAT
1 TTTTATATTTAAAATAAT
1036106 CAAAGAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTATATTTAAAATAATA
Found at i:1036418 original size:19 final size:19
Alignment explanation
Indices: 1036375--1036418 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1036365 TTCAACAATA
1036375 ATAAATAAATATTTAAATT
1 ATAAATAAATATTTAAATT
* *
1036394 AAAAATATATATTTAATATT
1 ATAAATAAATATTTAA-ATT
1036414 -TAAAT
1 ATAAAT
1036419 TATCTAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAAATAAATATTTAAATT
Found at i:1038401 original size:20 final size:20
Alignment explanation
Indices: 1038376--1038626 Score: 264
Period size: 20 Copynumber: 12.8 Consensus size: 20
1038366 TTACACATTC
* *
1038376 ATTTGAATATCGCAACGCAA
1 ATTTGACTATCGCAACGCGA
1038396 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * * *
1038416 ATTTGATTATTGTAACTC-A
1 ATTTGACTATCGCAACGCGA
*
1038435 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
1038450 ATTTGACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
*
1038470 ATATGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
1038490 ATTTGTCTATCGCAACTCGA
1 ATTTGACTATCGCAACGCGA
* *
1038510 ATTTGACTATCGCAATG-GCT
1 ATTTGACTATCGCAACGCG-A
* *
1038530 ATTTGACAATCGCAACGCAA
1 ATTTGACTATCGCAACGCGA
*
1038550 ATTTGAGTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
1038570 ATTTGAGTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
1038590 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
1038610 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
1038627 AGAAAATCGC
Statistics
Matches: 191, Mismatches: 32, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
14 7 0.04
15 3 0.02
19 4 0.02
20 177 0.93
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:1038675 original size:19 final size:20
Alignment explanation
Indices: 1038438--1038675 Score: 102
Period size: 20 Copynumber: 12.2 Consensus size: 20
1038428 TAACTCAAAA
* *
1038438 ATCGCAACGCGAATTTGACT
1 ATCGCAAAGCGAATTAGACT
1038458 ATCGCAACA-CGAA-TATGACT
1 ATCGCAA-AGCGAATTA-GACT
* * *
1038478 ATCGCAACGCGAATTTGTCT
1 ATCGCAAAGCGAATTAGACT
** *
1038498 ATCGCAACTCGAATTTGACT
1 ATCGCAAAGCGAATTAGACT
* * * *
1038518 ATCGCAATG-GCTATTTGACA
1 ATCGCAAAGCG-AATTAGACT
* * * *
1038538 ATCGCAACGCAAATTTGAGT
1 ATCGCAAAGCGAATTAGACT
* * *
1038558 ATCGCAACGCGAATTTGAGT
1 ATCGCAAAGCGAATTAGACT
* * *
1038578 ATCGCAACGCGAATTTGATT
1 ATCGCAAAGCGAATTAGACT
* * * *
1038598 ATCGCAACGGGTATTTGACT
1 ATCGCAAAGCGAATTAGACT
1038618 ATCGC-AA-CGAGA--A-A--
1 ATCGCAAAGCGA-ATTAGACT
*
1038632 ATCGCAAAGCGTATTAGACT
1 ATCGCAAAGCGAATTAGACT
*
1038652 ATCGCAATGCGAATT-GACT
1 ATCGCAAAGCGAATTAGACT
*
1038671 TTCGC
1 ATCGC
1038676 GTTGCGATTT
Statistics
Matches: 175, Mismatches: 29, Indels: 29
0.75 0.12 0.12
Matches are distributed among these distances:
14 5 0.03
15 3 0.02
16 3 0.02
17 1 0.01
18 2 0.01
19 12 0.07
20 148 0.85
21 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (20 bp):
ATCGCAAAGCGAATTAGACT
Found at i:1038694 original size:20 final size:20
Alignment explanation
Indices: 1038665--1038722 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
1038655 GCAATGCGAA
1038665 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCGTTGCGATT
* *
1038685 TTGTCTTTCGCATTGCGATT
1 TTGACTTTCGCGTTGCGATT
* *
1038705 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCGTTGCGA
1038723 AAGCGTACCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.12, C:0.17, G:0.26, T:0.45
Consensus pattern (20 bp):
TTGACTTTCGCGTTGCGATT
Found at i:1038881 original size:14 final size:14
Alignment explanation
Indices: 1038821--1038882 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
1038811 CACAAATAAG
*
1038821 AATTATTTACACATC
1 AATT-TTTACAAATC
**
1038836 AATATTAAACAAATC
1 AAT-TTTTACAAATC
*
1038851 AACTTTTACAAATC
1 AATTTTTACAAATC
*
1038865 AATTTTTATAAATC
1 AATTTTTACAAATC
1038879 AATT
1 AATT
1038883 AAACAAGCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 12 0.32
16 1 0.03
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:1040380 original size:42 final size:42
Alignment explanation
Indices: 1040301--1040391 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
1040291 CCTCTTCAAC
* * *
1040301 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* * **
1040343 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGAAT
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTTGAGG
1040385 GATGACA
1 GATGACA
1040392 TGTGAGTCGG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 37 0.93
43 3 0.08
ACGTcount: A:0.23, C:0.16, G:0.38, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:1040902 original size:20 final size:20
Alignment explanation
Indices: 1040879--1040987 Score: 184
Period size: 20 Copynumber: 5.5 Consensus size: 20
1040869 GAAACTTAAA
*
1040879 ATCGCAACACGAAAATTACT
1 ATCGCAACGCGAAAATTACT
1040899 ATCGCAACGCGAAAATTACT
1 ATCGCAACGCGAAAATTACT
1040919 ATCGCAACGCGAAAATTACT
1 ATCGCAACGCGAAAATTACT
1040939 ATCGCAACGCGAAAATTACT
1 ATCGCAACGCGAAAATTACT
*
1040959 ATCGCAACGCG-AATTTGACT
1 ATCGCAACGCGAAAATT-ACT
1040979 ATCGCAACG
1 ATCGCAACG
1040988 AGATAATAGC
Statistics
Matches: 86, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
19 4 0.05
20 82 0.95
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATTACT
Found at i:1041055 original size:20 final size:20
Alignment explanation
Indices: 1041030--1041075 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
1041020 GCAATTCTTT
1041030 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
1041050 CGTTGCGATAGTCATTTTTG
1 CGTTGCGATAGTCATTTTCG
1041070 CGTTGC
1 CGTTGC
1041076 AAAAGTAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.13, C:0.20, G:0.26, T:0.41
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:1041643 original size:15 final size:16
Alignment explanation
Indices: 1041623--1041658 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
1041613 TCAGGTGATT
1041623 GCTCTGGGTGAGG-TG
1 GCTCTGGGTGAGGTTG
1041638 GCTCTGGGTGAGGTTG
1 GCTCTGGGTGAGGTTG
1041654 GCTCT
1 GCTCT
1041659 TGAAGTGGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.06, C:0.17, G:0.47, T:0.31
Consensus pattern (16 bp):
GCTCTGGGTGAGGTTG
Found at i:1043013 original size:20 final size:20
Alignment explanation
Indices: 1042974--1043079 Score: 101
Period size: 19 Copynumber: 5.5 Consensus size: 20
1042964 TCTGAAACTT
*
1042974 AAAATCGCAACACG-AAATG
1 AAAATCGCAACGCGAAAATG
*
1042993 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
** **
1043013 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACGCGAAAATG
** *
1043033 ACTATCGCATCGC-AAAATG
1 AAAATCGCAACGCGAAAATG
*
1043052 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACGCGAAAATG
1043071 AAAATCGCA
1 AAAATCGCA
1043080 TTGCGATTCT
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
19 37 0.51
20 36 0.49
ACGTcount: A:0.45, C:0.24, G:0.16, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:1043689 original size:20 final size:20
Alignment explanation
Indices: 1043659--1043757 Score: 162
Period size: 20 Copynumber: 5.0 Consensus size: 20
1043649 GCGCTTTGAA
*
1043659 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* *
1043679 CATCGCGTTGCGACAGTCAG
1 AATCGCGTTGCGATAGTCAG
1043699 AATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
1043719 AATCTCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
1043739 AATCGCGTTGCGATAGTCA
1 AATCGCGTTGCGATAGTCA
1043758 TACTCACATT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 72 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:1043769 original size:20 final size:20
Alignment explanation
Indices: 1043659--1043796 Score: 143
Period size: 20 Copynumber: 6.9 Consensus size: 20
1043649 GCGCTTTGAA
1043659 AATCGCATTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
* * *
1043679 CATCGCGTTGCGACAGTCAG
1 AATCGCATTGCGATAGTCAG
*
1043699 AATCGCGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
* *
1043719 AATCTCGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
* *
1043739 AATCGCGTTGCGATAGTCAT
1 AATCGCATTGCGATAGTCAG
* * * *
1043759 ACTCACATTGCGAT-TTACAT
1 AATCGCATTGCGATAGT-CAG
*
1043779 ATTCGCATTGCGATAGTC
1 AATCGCATTGCGATAGTC
1043797 GGAAAATTGC
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
19 1 0.01
20 99 0.98
21 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.28
Consensus pattern (20 bp):
AATCGCATTGCGATAGTCAG
Found at i:1043790 original size:60 final size:60
Alignment explanation
Indices: 1043659--1043796 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 60
1043649 GCGCTTTGAA
* * *
1043659 AATCGCATTGCGATAGTCAGCATCGCGTTGCGACAGTCAGAATCGCGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAGAATCGCGTTGCGACAGTCAGAATCACATTGCGATAGTCAG
* * * * * * *
1043719 AATCTCGTTGCGATAGTCAGAATCGCGTTGCGATAGTCATACTCACATTGCGAT-TTACAT
1 AATCGCATTGCGATAGTCAGAATCGCGTTGCGACAGTCAGAATCACATTGCGATAGT-CAG
*
1043779 ATTCGCATTGCGATAGTC
1 AATCGCATTGCGATAGTC
1043797 GGAAAATTGC
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
59 1 0.02
60 63 0.98
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.28
Consensus pattern (60 bp):
AATCGCATTGCGATAGTCAGAATCGCGTTGCGACAGTCAGAATCACATTGCGATAGTCAG
Found at i:1059669 original size:21 final size:21
Alignment explanation
Indices: 1059645--1059685 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1059635 TACGTAATAG
* *
1059645 TTCATAATATTAATATGACAA
1 TTCACAATACTAATATGACAA
*
1059666 TTCACGATACTAATATGACA
1 TTCACAATACTAATATGACA
1059686 TTTTAAAGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (21 bp):
TTCACAATACTAATATGACAA
Found at i:1061691 original size:29 final size:29
Alignment explanation
Indices: 1061658--1061748 Score: 155
Period size: 29 Copynumber: 3.1 Consensus size: 29
1061648 TTCTACAGTC
*
1061658 ACCTTGGAGGTCGCTATGGCATCCGGGCG
1 ACCTTGGAGGTCGCCATGGCATCCGGGCG
1061687 ACCTTGGAGGTCGCCATGGCATCCGGGCG
1 ACCTTGGAGGTCGCCATGGCATCCGGGCG
**
1061716 ACCTTGGAGGTCGCCATGGCATCCAAGCG
1 ACCTTGGAGGTCGCCATGGCATCCGGGCG
1061745 ACCT
1 ACCT
1061749 GTGTGGTATT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.16, C:0.31, G:0.34, T:0.19
Consensus pattern (29 bp):
ACCTTGGAGGTCGCCATGGCATCCGGGCG
Found at i:1062379 original size:21 final size:21
Alignment explanation
Indices: 1062354--1062397 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1062344 AATCTAGTTA
1062354 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
1062375 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
1062396 AT
1 AT
1062398 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:1062407 original size:28 final size:30
Alignment explanation
Indices: 1062374--1062436 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
1062364 TAGTATAAAT
*
1062374 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
1062402 TATTAGTTTATTAGTTTAAGTTATATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
1062432 TATTA
1 TATTA
1062437 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (30 bp):
TATTAGTTTATTAGTTTAAGTTATATATTA
Found at i:1062983 original size:20 final size:21
Alignment explanation
Indices: 1062939--1062983 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
1062929 AAATATTGTG
**
1062939 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
1062960 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
1062980 TTTA
1 TTTA
1062984 CATTGTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:1063273 original size:26 final size:25
Alignment explanation
Indices: 1063244--1063302 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
1063234 AAATCATATT
*
1063244 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
1063270 ATTAAATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
1063296 ATTATTA
1 ATTATTA
1063303 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:1066215 original size:26 final size:26
Alignment explanation
Indices: 1066186--1066488 Score: 264
Period size: 26 Copynumber: 12.2 Consensus size: 26
1066176 TTTGATGATT
1066186 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
1066212 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
1066238 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** *
1066264 TAAAAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
1066286 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
1066310 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
1066336 TGGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
1066362 TAGTAATAATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* *
1066388 TAATAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
1066410 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
1066434 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* * *
1066460 TAATAATGATTTTATAATAATTATT-
1 TAGTAATGATTTGATAATAATCATTA
1066485 TAGT
1 TAGT
1066489 TATTATTTAG
Statistics
Matches: 233, Mismatches: 25, Indels: 39
0.78 0.08 0.13
Matches are distributed among these distances:
19 2 0.01
20 10 0.04
22 6 0.03
23 22 0.09
24 18 0.08
25 20 0.09
26 143 0.61
27 12 0.05
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.45
Consensus pattern (26 bp):
TAGTAATGATTTGATAATAATCATTA
Found at i:1066328 original size:72 final size:71
Alignment explanation
Indices: 1066241--1066477 Score: 201
Period size: 72 Copynumber: 3.6 Consensus size: 71
1066231 ATCATTATAA
*
1066241 TAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGAT
1 TAATGATTTA-TAATAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGATTTGAT
1066306 GATTTAG
65 GATTTAG
** * * * *
1066313 TAATGATTTGATAATAATCATTATGGTAATGATTTGATAATAATCATT--ATA-GTAATAATTTG
1 TAATGATTT-ATAATAATCATTATAATAATGATTTAATAATGAT--TTAAATATTTAATGATTTG
1066375 AT-A---A-
63 ATGATTTAG
*
1066379 TAATCA-TTATAAT-A--A---------TGATTTAATAATGATTTAAATATTTAATGATTTGATG
1 TAATGATTTATAATAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGATTTGATG
1066431 ATTTAG
66 ATTTAG
*
1066437 TAATGATTTGATAATAATCATTATAATAATGATTTTATAAT
1 TAATGATTT-ATAATAATCATTATAATAATGATTTAATAAT
1066478 AATTATTTAG
Statistics
Matches: 126, Mismatches: 14, Indels: 50
0.66 0.07 0.26
Matches are distributed among these distances:
50 2 0.02
52 16 0.13
53 11 0.09
54 1 0.01
57 1 0.01
58 5 0.04
59 2 0.02
60 5 0.04
61 2 0.02
63 2 0.02
64 5 0.04
65 2 0.02
66 5 0.04
67 1 0.01
70 1 0.01
71 11 0.09
72 51 0.40
73 1 0.01
74 2 0.02
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.45
Consensus pattern (71 bp):
TAATGATTTATAATAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGATTTGATG
ATTTAG
Found at i:1066351 original size:124 final size:124
Alignment explanation
Indices: 1066131--1066524 Score: 652
Period size: 124 Copynumber: 3.2 Consensus size: 124
1066121 ATGTATTTAT
1066131 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
* *
1066196 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAGTAATAATTTAGTAA
1066255 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
*
1066320 TTGATAATAATCATTATGGTAATGATTTGATAATAATCATTATAGTAATAATTT-GATAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAGTAATAATTTAG-TAA
*
1066379 TAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
* * * * *
1066444 TTGATAATAATCATTATAATAATGATTTTATAATAATTATT-TAGTTATTATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAGTAATAATTTAGTAA
* *
1066502 TTAT--TTATAATAATGATTTAATA
1 TAATCATTATAAAAATGATTTAATA
1066525 CTAATGATTT
Statistics
Matches: 257, Mismatches: 11, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
121 19 0.07
123 17 0.07
124 221 0.86
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (124 bp):
TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAGTAATAATTTAGTAA
Found at i:1066509 original size:35 final size:37
Alignment explanation
Indices: 1066470--1066556 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 37
1066460 TAATAATGAT
* * *
1066470 TTTATAATAATTATTTAGT-T-ATTATTTAGTAATTA
1 TTTATAATAATTATTTAATATAATGATTTAATAATTA
*
1066505 TTTATAATAATGATTTAATACTAATGATTTAATAATTA
1 TTTATAATAATTATTTAATA-TAATGATTTAATAATTA
1066543 -TTACTAATAATTAT
1 TTTA-TAATAATTAT
1066557 AGAATACTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
35 17 0.40
37 4 0.09
38 22 0.51
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (37 bp):
TTTATAATAATTATTTAATATAATGATTTAATAATTA
Found at i:1066531 original size:14 final size:14
Alignment explanation
Indices: 1066189--1066540 Score: 119
Period size: 14 Copynumber: 26.1 Consensus size: 14
1066179 GATGATTTAG
*
1066189 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
1066203 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
1066215 TAATGATTTGATAA
1 TAATGATTTAATAA
*
1066229 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
1066241 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
1066255 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
1066267 AAATGA-TT--TAA
1 TAATGATTTAATAA
*
1066278 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
1066294 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
1066313 TAATGATTTGATAA
1 TAATGATTTAATAA
* **
1066327 TAATCA-TT-ATGG
1 TAATGATTTAATAA
*
1066339 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
1066353 TAATCA-TT-ATAG
1 TAATGATTTAATAA
* *
1066365 TAATAATTTGATAA
1 TAATGATTTAATAA
*
1066379 TAATCA-TT-ATAA
1 TAATGATTTAATAA
1066391 TAATGA-TT--TAA
1 TAATGATTTAATAA
*
1066402 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
1066418 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
1066437 TAATGATTTGATAA
1 TAATGATTTAATAA
*
1066451 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
1066463 TAATGATTTTATAA
1 TAATGATTTAATAA
* *
1066477 TAATTATTTAGT--
1 TAATGATTTAATAA
* *
1066489 T-ATTATTTAGTAA
1 TAATGATTTAATAA
1066502 T--T-ATTT-ATAA
1 TAATGATTTAATAA
*
1066512 TAATGATTTAATAC
1 TAATGATTTAATAA
1066526 TAATGATTTAATAA
1 TAATGATTTAATAA
1066540 T
1 T
1066541 TATTACTAAT
Statistics
Matches: 262, Mismatches: 42, Indels: 68
0.70 0.11 0.18
Matches are distributed among these distances:
10 4 0.02
11 31 0.12
12 68 0.26
13 29 0.11
14 80 0.31
15 4 0.02
16 22 0.08
18 2 0.01
19 18 0.07
20 4 0.02
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (14 bp):
TAATGATTTAATAA
Found at i:1066563 original size:38 final size:38
Alignment explanation
Indices: 1066493--1066566 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
1066483 TTTAGTTATT
* **
1066493 ATTTAGTAATTATTTATAATAATGATTTAATACTAATG
1 ATTTAATAATTATTTATAATAATGATAGAATACTAATG
*
1066531 ATTTAATAATTA-TTACTAATAATTATAGAATACTAA
1 ATTTAATAATTATTTA-TAATAATGATAGAATACTAA
1066567 CAAATGAGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 3 0.10
38 28 0.90
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (38 bp):
ATTTAATAATTATTTATAATAATGATAGAATACTAATG
Found at i:1066773 original size:17 final size:17
Alignment explanation
Indices: 1066748--1066780 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1066738 ACTAAATATT
*
1066748 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
1066765 TAATGATTTGATACTA
1 TAATGATTTGATACTA
1066781 AAAATCATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:1066773 original size:25 final size:23
Alignment explanation
Indices: 1066694--1066773 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 23
1066684 GATTTATTGT
1066694 TAATATTTAATTATTTGATAC--
1 TAATATTTAATTATTTGATACTA
* *
1066715 TAATGATTTAAAATAGTTGATTTACTA
1 TAAT-ATTT-AATTATTTGA--TACTA
1066742 -AATATTTAATTATTTGATACTA
1 TAATATTTAATTATTTGATACTA
1066764 GTAATGATTT
1 -TAAT-ATTT
1066774 GATACTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
21 4 0.09
22 9 0.20
23 8 0.17
24 11 0.24
25 11 0.24
26 3 0.07
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (23 bp):
TAATATTTAATTATTTGATACTA
Found at i:1068943 original size:15 final size:14
Alignment explanation
Indices: 1068920--1068950 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
1068910 TACAACACTA
1068920 AACTTTAATATAAT
1 AACTTTAATATAAT
1068934 AACTTATAATATAAT
1 AACTT-TAATATAAT
1068949 AA
1 AA
1068951 ACTAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:1069056 original size:33 final size:34
Alignment explanation
Indices: 1068980--1069062 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 34
1068970 CTAAACCCTT
*
1068980 AAAC-AACTAATAAAATATTTTTTTATATAACTA
1 AAACTAACTAATAAACTATTTTTTTATATAACTA
1069013 AAACTAACTAATAAACTATTTTTTTCATTATAA-T-
1 AAACTAACTAATAAACTATTTTTTT-A-TATAACTA
*
1069047 ATACT-ACTAATAAACT
1 AAACTAACTAATAAACT
1069063 TACTAACTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
33 15 0.33
34 23 0.51
35 2 0.04
36 5 0.11
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (34 bp):
AAACTAACTAATAAACTATTTTTTTATATAACTA
Found at i:1069180 original size:46 final size:48
Alignment explanation
Indices: 1069103--1069194 Score: 136
Period size: 46 Copynumber: 2.0 Consensus size: 48
1069093 CAATAAACAA
*
1069103 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTT
1 ATATAACTTAACTATTTAACTAAAACAAACTAATT-AATAATTTTTTTT
*
1069152 ATATAAC-TAACTA-TTAAC-AAAACAAACTAATTAATTATTTTTT
1 ATATAACTTAACTATTTAACTAAAACAAACTAATTAATAATTTTTT
1069195 AACTATATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
45 10 0.24
46 13 0.32
47 5 0.12
48 6 0.15
49 7 0.17
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (48 bp):
ATATAACTTAACTATTTAACTAAAACAAACTAATTAATAATTTTTTTT
Found at i:1069205 original size:47 final size:48
Alignment explanation
Indices: 1069103--1069207 Score: 135
Period size: 47 Copynumber: 2.2 Consensus size: 48
1069093 CAATAAACAA
* *
1069103 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTT
1 ATATAAC-TAACTATTTAACTAAAACAAACTAATTAAATAATTTTTTCT
*
1069152 ATATAACTAACTA-TTAAC-AAAACAAACTAATT-AATTATTTTTTAACT
1 ATATAACTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTT--CT
1069199 ATATAACTA
1 ATATAACTA
1069208 TCAAACATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
45 10 0.20
46 13 0.25
47 15 0.29
48 6 0.12
49 7 0.14
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (48 bp):
ATATAACTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTTCT
Found at i:1069263 original size:41 final size:40
Alignment explanation
Indices: 1069175--1069263 Score: 90
Period size: 41 Copynumber: 2.2 Consensus size: 40
1069165 TTAACAAAAC
* *
1069175 AAACTAATTAATTATTTTTTAACTATATAACTATCAAACAT
1 AAACTAATTAAATAATTTTTAACTATATAACTAT-AAACAT
* * * *
1069216 ATACTAATTAAATAATTTTTAATTTATGTATACTAT-AACTT
1 AAACTAATTAAATAATTTTTAA-CTATATA-ACTATAAACAT
1069257 AAACTAA
1 AAACTAA
1069264 CAATCATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 29 0.74
42 5 0.13
43 5 0.13
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (40 bp):
AAACTAATTAAATAATTTTTAACTATATAACTATAAACAT
Found at i:1069735 original size:92 final size:90
Alignment explanation
Indices: 1069573--1069755 Score: 339
Period size: 92 Copynumber: 2.0 Consensus size: 90
1069563 TGTAGGCATG
1069573 CAGCGGGGAGCAGGAGGGGAGCACGTGAAGGAATCTTGGCTGCAAGTGCATGCATGGTCTCGTGA
1 CAGCGGGGAGCAGGAGGGGAGCACGTGAAGGAATCTTGGCTGCAAGTGCATGCATGGTCTCGTGA
*
1069638 TCTAGGAGCGACCTAAGGTCGCCGGGA
66 GCTAGGA--GACCTAAGGTCGCCGGGA
1069665 CAGCGGGGAGCAGGAGGGGAGCACGTGAAGGAATCTTGGCTGCAAGTGCATGCATGGTCTCGTGA
1 CAGCGGGGAGCAGGAGGGGAGCACGTGAAGGAATCTTGGCTGCAAGTGCATGCATGGTCTCGTGA
1069730 GCTAGGAGACCTAAGGTCGCCGGGA
66 GCTAGGAGACCTAAGGTCGCCGGGA
1069755 C
1 C
1069756 TACATGGCGA
Statistics
Matches: 90, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
90 19 0.21
92 71 0.79
ACGTcount: A:0.23, C:0.21, G:0.40, T:0.16
Consensus pattern (90 bp):
CAGCGGGGAGCAGGAGGGGAGCACGTGAAGGAATCTTGGCTGCAAGTGCATGCATGGTCTCGTGA
GCTAGGAGACCTAAGGTCGCCGGGA
Found at i:1069777 original size:29 final size:29
Alignment explanation
Indices: 1069742--1069826 Score: 143
Period size: 29 Copynumber: 2.9 Consensus size: 29
1069732 TAGGAGACCT
*
1069742 AAGGTCGCCGGGACTACATGGCGACCTAC
1 AAGGTCGCCGGGACTGCATGGCGACCTAC
1069771 AAGGTCGCCGGGACTGCATGGCGACCTAC
1 AAGGTCGCCGGGACTGCATGGCGACCTAC
**
1069800 AAGGTCGCCCAGACTGCATGGCGACCT
1 AAGGTCGCCGGGACTGCATGGCGACCT
1069827 CTCGATTGGC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.22, C:0.32, G:0.32, T:0.14
Consensus pattern (29 bp):
AAGGTCGCCGGGACTGCATGGCGACCTAC
Found at i:1069945 original size:21 final size:21
Alignment explanation
Indices: 1069919--1069965 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
1069909 TATATGCCTT
1069919 GTATGGCTCGTATGTCACCCC
1 GTATGGCTCGTATGTCACCCC
1069940 GTATGGCTCGTATGTCACCCC
1 GTATGGCTCGTATGTCACCCC
1069961 GTATG
1 GTATG
1069966 TCACCTGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.15, C:0.30, G:0.26, T:0.30
Consensus pattern (21 bp):
GTATGGCTCGTATGTCACCCC
Found at i:1070011 original size:29 final size:29
Alignment explanation
Indices: 1069969--1070025 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
1069959 CCGTATGTCA
1069969 CCTGGATTGCATGGCGTCCTACAAGATCG
1 CCTGGATTGCATGGCGTCCTACAAGATCG
*
1069998 CCTGGATTGCATGGCGTCCTACGAGATC
1 CCTGGATTGCATGGCGTCCTACAAGATC
1070026 ACTGTAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.25
Consensus pattern (29 bp):
CCTGGATTGCATGGCGTCCTACAAGATCG
Found at i:1073274 original size:14 final size:14
Alignment explanation
Indices: 1073255--1073288 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1073245 GAACATAGTG
*
1073255 AACTGTCATATCAA
1 AACTGTAATATCAA
*
1073269 AACTGTAATATCAG
1 AACTGTAATATCAA
1073283 AACTGT
1 AACTGT
1073289 GATAATTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (14 bp):
AACTGTAATATCAA
Found at i:1075499 original size:31 final size:30
Alignment explanation
Indices: 1075407--1075500 Score: 82
Period size: 31 Copynumber: 3.0 Consensus size: 30
1075397 AGTCAATATC
* **
1075407 GGGTCGGGTCAATACCAGGTCGGTTGATTTTT
1 GGGTC-GGTCAATATCAAATCGGTTGA-TTTT
* * *
1075439 GGGTCAGGTTAATCT-AAATCAGTTAGATTTT
1 GGGTC-GGTCAATATCAAATCGGTT-GATTTT
1075470 GGGTCGGATCAATATCAAATCGGTTGATTTT
1 GGGTCGG-TCAATATCAAATCGGTTGATTTT
1075501 TGATTTAGGT
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
30 2 0.04
31 26 0.53
32 21 0.43
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (30 bp):
GGGTCGGTCAATATCAAATCGGTTGATTTT
Found at i:1075502 original size:32 final size:31
Alignment explanation
Indices: 1075407--1075502 Score: 88
Period size: 32 Copynumber: 3.0 Consensus size: 31
1075397 AGTCAATATC
* **
1075407 GGGTCGGGTCAATACCAGGTCGGTTGATTTTT
1 GGGTC-GGTCAATATCAAATCGGTTGATTTTT
* * *
1075439 GGGTCAGGTTAATCT-AAATCAGTTAGA-TTTT
1 GGGTC-GGTCAATATCAAATCGGTT-GATTTTT
1075470 GGGTCGGATCAATATCAAATCGGTTGATTTTT
1 GGGTCGG-TCAATATCAAATCGGTTGATTTTT
1075502 G
1 G
1075503 ATTTAGGTTA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
30 2 0.04
31 22 0.44
32 26 0.52
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.36
Consensus pattern (31 bp):
GGGTCGGTCAATATCAAATCGGTTGATTTTT
Found at i:1076143 original size:18 final size:18
Alignment explanation
Indices: 1076095--1076147 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
1076085 ACTTTCTATT
1076095 ATTTTATTATAAATCTAACA
1 ATTTTATT-TAAAT-TAACA
* * *
1076115 TTTTTA-ATAAATTATCA
1 ATTTTATTTAAATTAACA
1076132 ATTTTATTTAAATTAA
1 ATTTTATTTAAATTAA
1076148 TTTATTATTG
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
17 9 0.35
18 12 0.46
20 5 0.19
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTATTTAAATTAACA
Done.