Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006710.1 Hibiscus syriacus cultivar Beakdansim tig00016725_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: 2941931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 11
Found at i:778524 original size:60 final size:62
Alignment explanation
Indices: 778459--778594 Score: 188
Period size: 61 Copynumber: 2.2 Consensus size: 62
778449 ATTGGACAGT
* *
778459 TCATACCCAAAATCA-CTCAT-AATCATTTAGAAAAATATCATATAAAAA-GTATTGGGCAAG
1 TCATACCCAAAATCATCT-ATAAAACATTTAGAAAAATATCATATAAAAATGTATTAGGCAAG
* * *
778519 TCATACCCAAAATCATCTATAAAACATTTAGTAAAATATCATATAAAAATTGTATTAGGTAAT
1 TCATACCCAAAATCATCTATAAAACATTTAGAAAAATATCATATAAAAA-TGTATTAGGCAAG
778582 TCATACCCAAAAT
1 TCATACCCAAAAT
778595 ATTTGAATAC
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
60 17 0.25
61 28 0.42
63 22 0.33
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.29
Consensus pattern (62 bp):
TCATACCCAAAATCATCTATAAAACATTTAGAAAAATATCATATAAAAATGTATTAGGCAAG
Found at i:779693 original size:23 final size:25
Alignment explanation
Indices: 779640--779706 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 25
779630 CCCATTTACA
*
779640 AACAGGCCCCCAAACTCAAAACCTG
1 AACAGGCCCCCAAACTCAAAACCCG
*
779665 AACAGG-CCCCAAA-TTAAAACCCG
1 AACAGGCCCCCAAACTCAAAACCCG
* **
779688 ACCAGGAGCCCAAAC-CAAA
1 AACAGGCCCCCAAACTCAAA
779707 CCTAACTTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 13 0.37
24 16 0.46
25 6 0.17
ACGTcount: A:0.43, C:0.37, G:0.13, T:0.06
Consensus pattern (25 bp):
AACAGGCCCCCAAACTCAAAACCCG
Found at i:779718 original size:23 final size:23
Alignment explanation
Indices: 779692--779735 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
779682 AACCCGACCA
779692 GGAGCCCAAACC-AAACCTAACTT
1 GGAG-CCAAACCTAAACCTAACTT
*
779715 GGAGCCTAACCTAAACCTAAC
1 GGAGCCAAACCTAAACCTAAC
779736 CCTAGCCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.39, C:0.34, G:0.14, T:0.14
Consensus pattern (23 bp):
GGAGCCAAACCTAAACCTAACTT
Found at i:792722 original size:22 final size:22
Alignment explanation
Indices: 792694--792740 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
792684 GGTTGGTTGT
792694 AAATAGCCTCGGGACTATAGAA
1 AAATAGCCTCGGGACTATAGAA
792716 AAATAGCCTCGGGACTATAGAA
1 AAATAGCCTCGGGACTATAGAA
792738 AAA
1 AAA
792741 ATATTATCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (22 bp):
AAATAGCCTCGGGACTATAGAA
Found at i:794218 original size:19 final size:18
Alignment explanation
Indices: 794194--794241 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
794184 GGATAGTAAG
794194 ACCAGTTGAACCGGTCTGA
1 ACCAGTTGAACCGGTCT-A
* *
794213 ACCAGTTGGACTGGTCTA
1 ACCAGTTGAACCGGTCTA
794231 ACCTAGTTGAA
1 ACC-AGTTGAA
794242 TCAGACTGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (18 bp):
ACCAGTTGAACCGGTCTA
Found at i:809515 original size:17 final size:18
Alignment explanation
Indices: 809490--809524 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
809480 AAACTTAACA
*
809490 TTTATACTCTTT-TTTAT
1 TTTAAACTCTTTATTTAT
809507 TTTAAACTCTTTATTTAT
1 TTTAAACTCTTTATTTAT
809525 ATTTTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTAAACTCTTTATTTAT
Found at i:809808 original size:39 final size:39
Alignment explanation
Indices: 809761--809838 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
809751 TCCGTGGACT
*
809761 ACATAGAAAAGT-TCCCTTGTTTTCTTCCTTTGATGATTC
1 ACATAGAAAAGTGT-CCTTGTTTTCTTCATTTGATGATTC
*
809800 ACATAGAAAAGTGTCCTTTTTTTCTTCATTTGATGATTC
1 ACATAGAAAAGTGTCCTTGTTTTCTTCATTTGATGATTC
809839 TTCTTATTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 35 0.97
40 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (39 bp):
ACATAGAAAAGTGTCCTTGTTTTCTTCATTTGATGATTC
Found at i:810694 original size:36 final size:36
Alignment explanation
Indices: 810652--810727 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
810642 TTATAGCTAA
*
810652 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
810688 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
810724 AAAA
1 AAAA
810728 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:826804 original size:18 final size:18
Alignment explanation
Indices: 826781--826815 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
826771 GTTCTTAAGG
826781 AGTGGTCATTCGGGACAT
1 AGTGGTCATTCGGGACAT
826799 AGTGGTCATTCGGGACA
1 AGTGGTCATTCGGGACA
826816 AATAATCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:833359 original size:2 final size:2
Alignment explanation
Indices: 833352--833378 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
833342 CATGTACATG
833352 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 T
833379 GTGTGTGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:839695 original size:28 final size:28
Alignment explanation
Indices: 839631--839686 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
839621 GCACACCAAG
*
839631 AGCAATAATAAGTGACCACGACACCCAT
1 AGCAATAATAAGTGACCACAACACCCAT
839659 AGCAATAATAAGTGACCACAACACCCAT
1 AGCAATAATAAGTGACCACAACACCCAT
839687 TTCATTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.29, G:0.12, T:0.14
Consensus pattern (28 bp):
AGCAATAATAAGTGACCACAACACCCAT
Found at i:843686 original size:24 final size:25
Alignment explanation
Indices: 843640--843687 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
843630 TCTTTCCTTT
*
843640 CTTTATTTTCTAGTTTTCATTTTTA
1 CTTTATTTTCAAGTTTTCATTTTTA
843665 CTTTATTTT-AAGTTTT-ATTTTTA
1 CTTTATTTTCAAGTTTTCATTTTTA
843688 AACATGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.32
24 6 0.27
25 9 0.41
ACGTcount: A:0.19, C:0.08, G:0.04, T:0.69
Consensus pattern (25 bp):
CTTTATTTTCAAGTTTTCATTTTTA
Found at i:843688 original size:13 final size:12
Alignment explanation
Indices: 843641--843687 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
843631 CTTTCCTTTC
843641 TTTATTTTCTAGT
1 TTTATTTT-TAGT
*
843654 TTTCATTTTTA-C
1 TTT-ATTTTTAGT
*
843666 TTTATTTTAAGT
1 TTTATTTTTAGT
843678 TTTATTTTTA
1 TTTATTTTTA
843688 AACATGTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
11 6 0.21
12 12 0.43
13 5 0.18
14 5 0.18
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.70
Consensus pattern (12 bp):
TTTATTTTTAGT
Found at i:848673 original size:42 final size:42
Alignment explanation
Indices: 848626--848731 Score: 169
Period size: 42 Copynumber: 2.5 Consensus size: 42
848616 GTTGATATTA
848626 TTTAGACTTATTAAGACTTATTAGTGTTATGGTGTTATTTAT
1 TTTAGACTTATTAAGACTTATTAGTGTTATGGTGTTATTTAT
* * *
848668 TTTAGACTTATTGAGAAC-TAATCGTGTTATGGTGTTATTTAT
1 TTTAGACTTATTAAG-ACTTATTAGTGTTATGGTGTTATTTAT
848710 TTTAGACTTATTAAGACTTATT
1 TTTAGACTTATTAAGACTTATT
848732 TGATAAGATG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 2 0.04
42 53 0.93
43 2 0.04
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.50
Consensus pattern (42 bp):
TTTAGACTTATTAAGACTTATTAGTGTTATGGTGTTATTTAT
Found at i:850294 original size:29 final size:27
Alignment explanation
Indices: 850255--850334 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 27
850245 TATTTTTACT
850255 TTTTTTATTATTTGTTTTATTTATATATA
1 TTTTTT-TTATTT-TTTTATTTATATATA
* *
850284 TTTTTTCTTATTTTTTTATATTTTTTATA
1 TTTTTT-TTATTTTTTTAT-TTATATATA
850313 TTTTTTTTATTTATTTTATTTA
1 TTTTTTTTATTT-TTTTATTTA
850335 CTATTTTATC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
28 14 0.31
29 31 0.69
ACGTcount: A:0.20, C:0.01, G:0.01, T:0.78
Consensus pattern (27 bp):
TTTTTTTTATTTTTTTATTTATATATA
Found at i:850296 original size:20 final size:20
Alignment explanation
Indices: 850238--850309 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
850228 ATTATATATA
*
850238 TATATATTATTTTTACTT-TT
1 TATATA-TATTTTTTCTTATT
* *
850258 TTTAT-TATTTGTT-TTATT
1 TATATATATTTTTTCTTATT
850276 TATATATATTTTTTCTTATT
1 TATATATATTTTTTCTTATT
* *
850296 TTTTTATATTTTTT
1 TATATATATTTTTT
850310 ATATTTTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
17 2 0.05
18 12 0.29
19 7 0.17
20 21 0.50
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (20 bp):
TATATATATTTTTTCTTATT
Found at i:850300 original size:11 final size:10
Alignment explanation
Indices: 850240--850331 Score: 77
Period size: 9 Copynumber: 9.3 Consensus size: 10
850230 TATATATATA
850240 TATATTATTTT
1 TATATT-TTTT
*
850251 TA-CTTTTTT
1 TATATTTTTT
*
850260 TATTATTTGTT
1 TA-TATTTTTT
* *
850271 T-TATTTATA
1 TATATTTTTT
850280 TATATTTTTT
1 TATATTTTTT
850290 CT-TATTTTTT
1 -TATATTTTTT
850300 TATA-TTTTT
1 TATATTTTTT
850309 TATATTTTTT
1 TATATTTTTT
850319 T-TATTTATTT
1 TATATTT-TTT
850329 TAT
1 TAT
850332 TTACTATTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
9 28 0.42
10 28 0.42
11 10 0.15
ACGTcount: A:0.21, C:0.02, G:0.01, T:0.76
Consensus pattern (10 bp):
TATATTTTTT
Found at i:850306 original size:79 final size:84
Alignment explanation
Indices: 850127--850313 Score: 194
Period size: 87 Copynumber: 2.3 Consensus size: 84
850117 GTATATATTT
* *
850127 TTATTTTTTTAGA-TTA-CATATATATATATATATATATATTATTTTTTATTATTTGTTTTATTA
1 TTATTTTTTTATATTTATTATATATATATATATATATATATTATTTTTTATTATTTG-TTTATTA
850190 ATTTATATATATATTTACTA
65 ATTTATATATATATTTACTA
* * *
850210 TTTTTTATGTTTTTATTTATTATATATATATATAT-TAT-TTTTACTTTTTTTATTATTTG-TT-
1 TTATTT-T-TTTATATTTATTATATATATATATATATATATATTA--TTTTTTATTATTTGTTTA
* *
850271 TT-ATTTATATATAT-TTT-TTC
62 TTAATTTATATATATATTTACTA
*
850291 TTATTTTTTTATATTTTTTATAT
1 TTATTTTTTTATATTTATTATAT
850314 TTTTTTTATT
Statistics
Matches: 88, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
79 14 0.16
80 1 0.01
81 6 0.07
82 3 0.03
83 17 0.19
84 3 0.03
85 10 0.11
86 6 0.07
87 28 0.32
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (84 bp):
TTATTTTTTTATATTTATTATATATATATATATATATATATTATTTTTTATTATTTGTTTATTAA
TTTATATATATATTTACTA
Found at i:850334 original size:9 final size:9
Alignment explanation
Indices: 850165--850334 Score: 60
Period size: 10 Copynumber: 17.8 Consensus size: 9
850155 TATATATATA
*
850165 TTATTTTTT
1 TTATTTATT
*
850174 ATTATTTGTT
1 -TTATTTATT
*
850184 TTATTAATT
1 TTATTTATT
*
850193 TATATATATAT
1 T-TATTTAT-T
850204 TTACTATT-TT
1 TTA-T-TTATT
*
850214 TTATGT-TT
1 TTATTTATT
850222 TTATTTATT
1 TTATTTATT
* *
850231 ATATATA-T
1 TTATTTATT
*
850239 ATATATTATTT
1 TTAT-TTA-TT
*
850250 TTACTTTTTTT
1 TTA--TTTATT
*
850261 ATTATTTGTT
1 -TTATTTATT
850271 TTATTTATAT
1 TTATTTAT-T
* *
850281 ATATTTTTT
1 TTATTTATT
850290 CTTATTT-TT
1 -TTATTTATT
*
850299 TTATATTTTT
1 TTAT-TTATT
*
850309 TATATTTTTT
1 T-TATTTATT
850319 TTATTTATT
1 TTATTTATT
850328 TTATTTA
1 TTATTTA
850335 CTATTTTATC
Statistics
Matches: 125, Mismatches: 19, Indels: 33
0.71 0.11 0.19
Matches are distributed among these distances:
8 17 0.14
9 44 0.35
10 45 0.36
11 12 0.10
12 6 0.05
13 1 0.01
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (9 bp):
TTATTTATT
Found at i:853494 original size:13 final size:12
Alignment explanation
Indices: 853473--853530 Score: 55
Period size: 13 Copynumber: 4.6 Consensus size: 12
853463 GATTCAATCA
*
853473 AGAACAAAAAGAG
1 AGAA-AAAAAAAG
853486 AGAAAAAAAAAG
1 AGAAAAAAAAAG
*
853498 A-AAAAAGCAAAG
1 AGAAAAA-AAAAG
853510 AGAAAATAAAAAG
1 AGAAAA-AAAAAG
853523 AGATAAAA
1 AGA-AAAA
853531 CAAATGAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 5 0.13
12 13 0.34
13 16 0.42
14 4 0.11
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.03
Consensus pattern (12 bp):
AGAAAAAAAAAG
Found at i:855689 original size:87 final size:87
Alignment explanation
Indices: 855541--855703 Score: 272
Period size: 87 Copynumber: 1.9 Consensus size: 87
855531 TATGTTATAT
855541 TATTTAACCAGAAATATTATCAAATACAATAACATATTAGGTAACGCTTATATAATATAATAGAT
1 TATTTAACCAGAAATATTATCAAATACAATAACATATTAGGTAACGCTTATATAATATAATAGAT
855606 AGCACTTATATAATAAAATAGG
66 AGCACTTATATAATAAAATAGG
* * * * *
855628 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 TATTTAACCAGAAATATTATCAAATACAATAACATATTAGGTAACGCTTATATAATATAATAGAT
*
855693 AGCGCTTATAT
66 AGCACTTATAT
855704 TGACCTATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (87 bp):
TATTTAACCAGAAATATTATCAAATACAATAACATATTAGGTAACGCTTATATAATATAATAGAT
AGCACTTATATAATAAAATAGG
Found at i:856603 original size:23 final size:23
Alignment explanation
Indices: 856563--856635 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
856553 ATACTTTACA
856563 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* * *
856586 ATATAAGTGTTACATATTACATT
1 ATATAAGCGCTACCTATTACATT
*
856609 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
856632 ATAT
1 ATAT
856636 TTTTATCTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:860121 original size:184 final size:184
Alignment explanation
Indices: 859804--860520 Score: 1314
Period size: 184 Copynumber: 3.9 Consensus size: 184
859794 GCGTTACTTA
*
859804 AAAGTATG-GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAATCG
1 AAAGTA-GCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCG
* *
859868 GTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCAATGTTTT
65 GTATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTT
859933 TTCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
130 TTCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
*
859988 AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAATCGG
1 AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
*
860053 TATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCC-ATTGTTTT
66 TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGA-TGTTTT
860117 TTCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
130 TTCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
860172 AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
1 AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
*
860237 TATATCTATACCGATTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
66 TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
*
860302 TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGATAT
131 TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
860356 AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
1 AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
860421 TATATCTATACCAGG-TATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTT
66 TATATCTATACC-GGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTT
*
860485 TTCAATCGATACTTTTTGAAAAGGTATCGACACTTT
130 TTCAATCGACACTTTTTGAAAAGGTATCGACACTTT
860521 ATGCTGATAT
Statistics
Matches: 523, Mismatches: 6, Indels: 8
0.97 0.01 0.01
Matches are distributed among these distances:
183 2 0.00
184 519 0.99
185 2 0.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (184 bp):
AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
Found at i:863766 original size:200 final size:200
Alignment explanation
Indices: 863423--864208 Score: 1430
Period size: 200 Copynumber: 3.9 Consensus size: 200
863413 ATATTTAAAT
* * *
863423 TAGTATCGATACAAAATTAAAAAGTGTCGATACATATATTACACCTATTTTCTCATAAAATCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTATCTCATAAAACCGGT
863488 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
66 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
863553 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
131 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
863618 ACCAA
196 ACCAA
863623 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTATCTCATAAAACCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTATCTCATAAAACCGGT
* *
863688 ATACTTATAGCGGTTAGATTGAAAAATTACCTATTACATTATACTTGTGGGTTTCGATGTTTCTG
66 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
*
863753 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTATGG
131 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
863818 ACCAA
196 ACCAA
863823 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTATCTCATAAAACCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTATCTCATAAAACCGGT
863888 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
66 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
**
863953 GGATCGACACCCTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
131 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
864018 ACCAA
196 ACCAA
* * * *
864023 TAGTATCGACACAAAATTAAAAAGTGTTGATACATAT-TATATACCTAATCTCTCATAAAACCGG
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATAT-TACACCTATTATCTCATAAAACCGG
*
864087 TATACTTATACCGGTTAGATTAAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT
65 TATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT
*
864152 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCTTGTTTGCCAT
130 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
864209 ATTGTAAATT
Statistics
Matches: 566, Mismatches: 19, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
199 1 0.00
200 565 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTATCTCATAAAACCGGT
ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
ACCAA
Found at i:864462 original size:19 final size:19
Alignment explanation
Indices: 864438--864486 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
864428 TTACATTTAC
864438 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
864457 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
864476 ATACAAAATTA
1 ATACAAAATTA
864487 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:866211 original size:10 final size:9
Alignment explanation
Indices: 866191--866234 Score: 61
Period size: 10 Copynumber: 4.7 Consensus size: 9
866181 AAGCTGGAAA
866191 ACCGGTTTG
1 ACCGGTTTG
866200 ACCGGTTTTG
1 ACCGG-TTTG
*
866210 ACCGGTCTG
1 ACCGGTTTG
866219 AACCGGTTTG
1 -ACCGGTTTG
866229 ACCGGT
1 ACCGGT
866235 CTGAACCGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 14 0.45
10 17 0.55
ACGTcount: A:0.14, C:0.25, G:0.32, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:866215 original size:19 final size:19
Alignment explanation
Indices: 866191--866242 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
866181 AAGCTGGAAA
*
866191 ACCGGTTTG-ACCGGTTTTG
1 ACCGGTCTGAACCGG-TTTG
866210 ACCGGTCTGAACCGGTTTG
1 ACCGGTCTGAACCGGTTTG
866229 ACCGGTCTGAACCG
1 ACCGGTCTGAACCG
866243 ACCGACCCGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 26 0.84
20 5 0.16
ACGTcount: A:0.15, C:0.27, G:0.31, T:0.27
Consensus pattern (19 bp):
ACCGGTCTGAACCGGTTTG
Found at i:866242 original size:10 final size:10
Alignment explanation
Indices: 866210--866242 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
866200 ACCGGTTTTG
866210 ACCGGTCTGA
1 ACCGGTCTGA
*
866220 ACCGGTTTG-
1 ACCGGTCTGA
866229 ACCGGTCTGA
1 ACCGGTCTGA
866239 ACCG
1 ACCG
866243 ACCGACCCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.18, C:0.30, G:0.30, T:0.21
Consensus pattern (10 bp):
ACCGGTCTGA
Found at i:873467 original size:9 final size:9
Alignment explanation
Indices: 873447--873488 Score: 57
Period size: 9 Copynumber: 4.4 Consensus size: 9
873437 AAGCTGGAAA
873447 ACCGGTTTTG
1 ACCGG-TTTG
873457 ACCGGTTTG
1 ACCGGTTTG
*
873466 ACCGGTCTG
1 ACCGGTTTG
873475 AACCGGTTTG
1 -ACCGGTTTG
873485 ACCG
1 ACCG
873489 ATCTGAACCG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 16 0.55
10 13 0.45
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:873471 original size:19 final size:19
Alignment explanation
Indices: 873457--873498 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
873447 ACCGGTTTTG
873457 ACCGGTTTGACCGGTCTGA
1 ACCGGTTTGACCGGTCTGA
*
873476 ACCGGTTTGACCGATCTGA
1 ACCGGTTTGACCGGTCTGA
873495 ACCG
1 ACCG
873499 ACCGACCCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.19, C:0.29, G:0.29, T:0.24
Consensus pattern (19 bp):
ACCGGTTTGACCGGTCTGA
Found at i:873517 original size:24 final size:25
Alignment explanation
Indices: 873486--873540 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
873476 ACCGGTTTGA
873486 CCGATCTGAACCGACC-GACCCGAC
1 CCGATCTGAACCGACCTGACCCGAC
*
873510 CCGATCTGACCCGACCGTTGACCCGAC
1 CCGATCTGAACCGACC--TGACCCGAC
873537 CCGA
1 CCGA
873541 CCGTTGACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 15 0.56
27 12 0.44
ACGTcount: A:0.22, C:0.45, G:0.22, T:0.11
Consensus pattern (25 bp):
CCGATCTGAACCGACCTGACCCGAC
Found at i:873539 original size:17 final size:17
Alignment explanation
Indices: 873517--873549 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
873507 GACCCGATCT
873517 GACCCGACCGTTGACCC
1 GACCCGACCGTTGACCC
873534 GACCCGACCGTTGACC
1 GACCCGACCGTTGACC
873550 ATTGACTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.12
Consensus pattern (17 bp):
GACCCGACCGTTGACCC
Found at i:875728 original size:33 final size:33
Alignment explanation
Indices: 875676--875763 Score: 142
Period size: 33 Copynumber: 2.7 Consensus size: 33
875666 ATGACATCGA
*
875676 CTTCCTTCCT-CCTCATTTCTTCCATCTCTTCTT
1 CTTCC-TCCTCCCTCTTTTCTTCCATCTCTTCTT
*
875709 CTTCCTCCTCCCTCTTTTCTTCCATTTCTTCTT
1 CTTCCTCCTCCCTCTTTTCTTCCATCTCTTCTT
875742 CTTCCTCCTCCCTCTTTTCTTC
1 CTTCCTCCTCCCTCTTTTCTTC
875764 TTCATATTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
32 4 0.08
33 48 0.92
ACGTcount: A:0.03, C:0.44, G:0.00, T:0.52
Consensus pattern (33 bp):
CTTCCTCCTCCCTCTTTTCTTCCATCTCTTCTT
Found at i:875988 original size:33 final size:33
Alignment explanation
Indices: 875951--876014 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
875941 CCATCTTAAG
*
875951 ATCACCCCTTAACACCTCAACTTCTTTCACCCC
1 ATCACCCCTCAACACCTCAACTTCTTTCACCCC
**
875984 ATCACCCCTCAACACCTTTACTTCTTTCACC
1 ATCACCCCTCAACACCTCAACTTCTTTCACC
876015 ACTCCATCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
ATCACCCCTCAACACCTCAACTTCTTTCACCCC
Found at i:876076 original size:21 final size:21
Alignment explanation
Indices: 876051--876094 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
876041 CCCCTTATGC
876051 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
876072 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
876093 CT
1 CT
876095 TGATTGTCTT
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:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:876196 original size:15 final size:15
Alignment explanation
Indices: 876176--876208 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
876166 ACTCTGTTTT
*
876176 CCCTCACCGTCATCC
1 CCCTCACCATCATCC
876191 CCCTCACCATCATCC
1 CCCTCACCATCATCC
876206 CCC
1 CCC
876209 AATACAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.64, G:0.03, T:0.18
Consensus pattern (15 bp):
CCCTCACCATCATCC
Found at i:878392 original size:20 final size:19
Alignment explanation
Indices: 878346--878392 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
878336 TCCGGTAGCG
*
878346 TTTTACCGGTTTTGTCATT
1 TTTTACCGGTTTTATCATT
*
878365 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
878386 TTTTACC
1 TTTTACC
878393 TGTTATATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.17, C:0.17, G:0.13, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:878617 original size:181 final size:182
Alignment explanation
Indices: 878313--878728 Score: 656
Period size: 181 Copynumber: 2.3 Consensus size: 182
878303 CGTACTTACG
* * *
878313 AAAGTATCGAAACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTGATACAGGTTT
* * *
878378 TATCATATTTTTACCTGTTATATGGTTGTGGATCAATACATTTTTTTAAATTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTAGTGGATCAATACATTTTTTTAAAGTATCGACACTTTAT
* * *
878443 AGGCGCTAAAACTGCTTCTCTTTTAAATTCATAAAGTGTCGATCCTTATA-T
131 AGACGCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
* *
878494 AAAGTATCGACACTTTCAATATATCCAGTAGCGTTTTACCGGTTTCATCATTTTGATACAGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTGATACAGGTTT
*
878559 TATCATATTTTTACCTGTTATATCGTAGTGGATTAATACATTTTTTTAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTAGTGGATCAATACATTTTTTTAAAGTATCGACACTTTAT
*
878624 AGACGCTAAAACTGCTTCTCTTTTAAATTAACGAAGTGTCGATCCTTATATT
131 AGACGCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
* * * *
878676 AAAGTACCGACAC-TTCAAATATATCCGGTACCGCTTTACCAGTTTTATCATTT
1 AAAGTATCGACACTTTC-AATATATCCGGTAGCGTTTTACCGGTTTTATCATTT
878729 CAATACCTGT
Statistics
Matches: 214, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
181 170 0.79
182 44 0.21
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTGATACAGGTTT
TATCATATTTTTACCTGTTATATCGTAGTGGATCAATACATTTTTTTAAAGTATCGACACTTTAT
AGACGCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
Found at i:885902 original size:2 final size:2
Alignment explanation
Indices: 885895--885975 Score: 162
Period size: 2 Copynumber: 40.5 Consensus size: 2
885885 TCAATCTACA
885895 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
885937 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
885976 ATTTACGAAA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:886157 original size:85 final size:84
Alignment explanation
Indices: 886015--886193 Score: 268
Period size: 85 Copynumber: 2.1 Consensus size: 84
886005 ATGACGTGTA
* * *
886015 CTTCAATGACATGTAATGCAAGCATACATACGTGTCATAAATTTATGACACACAAATGTGTGCCA
1 CTTCAATGATACGTAATGCAAGCATACATACGTATCATAAATTTATGACACACAAATGTGTGCCA
**
886080 TCTTCATTTATTACGGGGG
66 TCTTCATTTACGACGGGGG
* ** *
886099 CTTCAATGATACGTAATGTAAGTCATACATGTGTATCATAAATTTATGACACACAAATGTGTGTC
1 CTTCAATGATACGTAATGCAAG-CATACATACGTATCATAAATTTATGACACACAAATGTGTGCC
886164 ATCTTCATTTACGACGGGGG
65 ATCTTCATTTACGACGGGGG
886184 CTTCAATGAT
1 CTTCAATGAT
886194 GCTCAATGCG
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
84 19 0.22
85 66 0.78
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (84 bp):
CTTCAATGATACGTAATGCAAGCATACATACGTATCATAAATTTATGACACACAAATGTGTGCCA
TCTTCATTTACGACGGGGG
Found at i:886209 original size:85 final size:85
Alignment explanation
Indices: 886015--886226 Score: 266
Period size: 85 Copynumber: 2.5 Consensus size: 85
886005 ATGACGTGTA
* * * ** *
886015 CTTCAATGACATGTAATGCAAG-CATACATACGTGTCATAAATTTATGACACACAAATGTGTGCC
1 CTTCAATGATACGTAATGCAAGTCATAAATGTGTATCATAAATTTATGACACACAAATGTGTGCC
**
886079 ATCTTCATTTATTACGGGGG
66 ATCTTCATTTACGACGGGGG
* * *
886099 CTTCAATGATACGTAATGTAAGTCATACATGTGTATCATAAATTTATGACACACAAATGTGTGTC
1 CTTCAATGATACGTAATGCAAGTCATAAATGTGTATCATAAATTTATGACACACAAATGTGTGCC
886164 ATCTTCATTTACGACGGGGG
66 ATCTTCATTTACGACGGGGG
* ** *
886184 CTTCAATGATGC-TCAATGCGCGTCATAAATGTGTGTCATAAAT
1 CTTCAATGATACGT-AATGCAAGTCATAAATGTGTATCATAAAT
886227 ACGTGTCATA
Statistics
Matches: 111, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
84 20 0.18
85 91 0.82
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (85 bp):
CTTCAATGATACGTAATGCAAGTCATAAATGTGTATCATAAATTTATGACACACAAATGTGTGCC
ATCTTCATTTACGACGGGGG
Found at i:886221 original size:13 final size:13
Alignment explanation
Indices: 886198--886249 Score: 68
Period size: 13 Copynumber: 4.0 Consensus size: 13
886188 AATGATGCTC
*
886198 AATGCGCGTCATA
1 AATGCGTGTCATA
*
886211 AATGTGTGTCATA
1 AATGCGTGTCATA
*
886224 AATACGTGTCATA
1 AATGCGTGTCATA
*
886237 AATGCGCGTCATA
1 AATGCGTGTCATA
886250 GATTTATGAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (13 bp):
AATGCGTGTCATA
Found at i:890414 original size:2 final size:2
Alignment explanation
Indices: 890405--890442 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
890395 TTTCTAAAAA
890405 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
890443 GGGTTTAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:890563 original size:18 final size:18
Alignment explanation
Indices: 890521--890563 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
890511 ACACTTTCTT
890521 TAAT-ATTAATAAATAAA
1 TAATAATTAATAAATAAA
*
890538 TAAAAATTAATAAA-AATA
1 TAATAATTAATAAATAA-A
890556 TAATAATT
1 TAATAATT
890564 TTCCTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAATAATTAATAAATAAA
Found at i:890807 original size:2 final size:2
Alignment explanation
Indices: 890800--890826 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
890790 TTAAAATAAC
890800 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 T
890827 TTGTTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:890950 original size:2 final size:2
Alignment explanation
Indices: 890943--890984 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
890933 ATTTAAACTA
*
890943 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
890985 GACTAATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:892403 original size:3 final size:3
Alignment explanation
Indices: 892395--892492 Score: 121
Period size: 3 Copynumber: 33.0 Consensus size: 3
892385 GGCCTATTTG
* * *
892395 TAA TAA TAA TAT TAT TAA TAA TAA AAA TAAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
892441 TAA TAA TAA TAA TAA TAA TAA -ACA -AA TAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
*
892484 TAA AAA TAA
1 TAA TAA TAA
892493 AATGAAAAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
2 4 0.05
3 78 0.92
4 3 0.04
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:893063 original size:111 final size:111
Alignment explanation
Indices: 892942--893250 Score: 418
Period size: 113 Copynumber: 2.8 Consensus size: 111
892932 TAGATTCATG
* *
892942 AAAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTTCGTCTTCAGATGAGTTCTTCTCATT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATT
* *
893007 ATGAACACTTCTGGAAATGTTGATCCACCGAGTGATGAATTTGAGA
66 ATGAACACTTCTGGAAATGTTGATCCACCGAGTGATGAATTGGACA
893053 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCAT
* ** * *
893118 TATGAACACTACCTGGCGAT-TCTGATCCATCGAGTGATGAATTGGACC
65 TATGAACACT-TCTGGAAATGT-TGATCCACCGAGTGATGAATTGGACA
893166 AAAAGGTTGAACAAGTTCTTCTCATTAT----TT-TT-TTCCT-TATCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCT-TCAGATGAGTTCTTCTCAT
* *
893224 TACGAACTCCTTCTGGAAATGTTGATC
65 TATGAAC-ACTTCTGGAAATGTTGATC
893251 TTCAAAAGAG
Statistics
Matches: 178, Mismatches: 14, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
105 1 0.01
106 37 0.21
107 7 0.04
108 2 0.01
109 2 0.01
111 40 0.22
112 33 0.19
113 56 0.31
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (111 bp):
AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATT
ATGAACACTTCTGGAAATGTTGATCCACCGAGTGATGAATTGGACA
Found at i:893442 original size:122 final size:118
Alignment explanation
Indices: 893283--894075 Score: 324
Period size: 111 Copynumber: 6.7 Consensus size: 118
893273 TGGCTTCATA
* *
893283 TGTGATGAATTAAGGC-AAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTCCTTCTTCAGA
1 TGTGATGAATTCA-GCAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTCC-TCTTCAGA
893347 TGAGTTCTTCTCATTATGAAAACTTCTGGAAAATATTGATGTTGATCTATCTCCTTC
64 TGAGTTCTTCTCATTATGAAAACTTCTGG-AAATATTGATGTTGATCTAT-TCCTTC
*
893404 TGTGAT-AGAGTCATGCAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTCTTCAG
1 TGTGATGA-ATTCA-GCAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTC-TCCTCTTCAG
* * * * * *
893468 ATGAGTTATTCTCATTATGAACACTACT--AGA-A---ATGTTGATCCA-T-C--G
63 ATGAGTTCTTCTCATTATGAAAACTTCTGGAAATATTGATGTTGATCTATTCCTTC
* * *
893514 AGTGATGAATTCGAGCA--AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTT
1 TGTGATGAATT----CAGCAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTT-CTCC-TCTT
** *** * * * *
893577 CAGATGAGTTCTTCTCATTATG--AAC-TCT--ACCTGGCGATGCTAATCGA-T-C--G
60 CAGATGAGTTCTTCTCATTATGAAAACTTCTGGAAATATTGATGTTGATCTATTCCTTC
* *
893627 AGTGATGAATTCGAGCAAAAGGTTGAACAAGTTCTTCTTATTAT----TT-TTTTCCT-TATCAG
1 TGTGATGAATTC-AGC-AAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTCCTCT-TCAG
* * * ** **** *
893686 ATGAGTTCTTCTCATTAT-AAACTCCTTTTGGAAATATTGATGTTTAAAATAGAGGTTG
63 ATGAGTTCTTCTCATTATGAAA--ACTTCTGGAAATATTGATG-TTGATCTATTCCTTC
* ** * ** * * * * ****
893744 T-TAATTTGGCTTTATATGTGATGAATT-AACGCAAGGTTGAACAAATTCTTCTTATTATGAACT
1 TGTGA--T-GAATT-CA-GCAAAG-GTTGAA--CAA-GTT---C---TTCTTATTATGAACTTCT
* * *
893807 TCTTCTCCTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAAATGTTGATGCTGATCTA
51 TC---TCCTCTTCAGATGAGTTCTTCTCATTATGAAAACTTCTGG-AAATATTGATGTTGATCTA
893872 TCTCCTTC
112 T-TCCTTC
* *
893880 TGTGAT-AGAGTCATG-AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAG
1 TGTGATGA-ATTCA-GCAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTC-TCCTCTTCAG
* * *
893943 ATGAGTTCTTCTCATTATGAACACTTCTGG--A-A---ATGTTGATCCA-T-C--G
63 ATGAGTTCTTCTCATTATGAAAACTTCTGGAAATATTGATGTTGATCTATTCCTTC
* * * * *
893989 AGTGATGAATTTGAGCAAAAGGTTGAACAAGTTCTTCTCAGTATGAACTTCTTATTCCTTCTTCA
1 TGTGATGAA-TTCAGC-AAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTT-CTCC-TCTTCA
894054 GATGAGTTCTTCTCATTATGAA
62 GATGAGTTCTTCTCATTATGAA
894076 CTTCTTCTTC
Statistics
Matches: 517, Mismatches: 88, Indels: 143
0.69 0.12 0.19
Matches are distributed among these distances:
105 1 0.00
106 23 0.04
107 5 0.01
108 2 0.00
109 14 0.03
110 15 0.03
111 78 0.15
112 61 0.12
113 53 0.10
114 11 0.02
115 10 0.02
116 2 0.00
117 1 0.00
118 3 0.01
119 10 0.02
120 4 0.01
121 54 0.10
122 70 0.14
123 16 0.03
125 1 0.00
126 1 0.00
128 9 0.02
129 3 0.01
130 3 0.01
131 2 0.00
132 4 0.01
133 5 0.01
134 1 0.00
135 11 0.02
136 39 0.08
137 5 0.01
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.39
Consensus pattern (118 bp):
TGTGATGAATTCAGCAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTCCTCTTCAGATG
AGTTCTTCTCATTATGAAAACTTCTGGAAATATTGATGTTGATCTATTCCTTC
Found at i:893588 original size:477 final size:476
Alignment explanation
Indices: 892688--894076 Score: 2393
Period size: 477 Copynumber: 2.9 Consensus size: 476
892678 TGTAATCTAG
* * * *
892688 CAAAAAGTTGAACAAGTTCTTCTCATTATTTTTTCCCTTATCAGATGAGTTATTCTCATTTTGAA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATTTTTTTCCTTATCAGATGAGTTCTTCTCATTATGAA
892753 CTCCTTCTGGAAATGTTGATCTTCAAAAGAGGGGTTGTTAATTTGGCTTCATATGTGATGAATTA
66 CTCCTTCTGGAAATGTTGATCTTCAAAAGAGGGGTTGTTAATTTGGCTTCATATGTGATGAATTA
* * **
892818 AGGCAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTCATTCTTCAAATGTTTTCTTCTCA
131 AGGCAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
*
892883 TTATGAACACTTCTGGAAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGATTCATGAAAAGG
196 TTATGAACACTTCTGGAAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATG-AAAGG
* *
892948 TTGAACAAGTTATTCTCATTATGAACTTCTTCTTCGTCTTCAGATGAGTTCTTCTCATTATGAAC
260 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAAC
* *
893013 ACTTCTGGAAATGTTGATCCACCGAGTGATGAATTTGAGAAAAAGGTTGAACAAGTTCTTCTCAT
325 ACTTCTGGAAATGTTGATCCATCGAGTGATGAATTTGAGCAAAAGGTTGAACAAGTTCTTCTCAT
* * *
893078 TATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACTACCTGGCGATTCTGA
390 TATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACTACCTGGCGATGCTAA
*
893143 TCCATCGAGTGATGAATTGGAC
455 TCCATCGAGTGATGAATTCGAC
*
893165 CAAAAGGTTGAACAAGTTCTTCTCATTATTTTTTTCCTTATCAGATGAGTTCTTCTCATTACGAA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATTTTTTTCCTTATCAGATGAGTTCTTCTCATTATGAA
893230 CTCCTTCTGGAAATGTTGATCTTCAAAAGAGGGGTTGTTAATTTGGCTTCATATGTGATGAATTA
66 CTCCTTCTGGAAATGTTGATCTTCAAAAGAGGGGTTGTTAATTTGGCTTCATATGTGATGAATTA
893295 AGGCAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
131 AGGCAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
* * *
893360 TTATGAAAACTTCTGGAAAATATTGATGTTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAGG
196 TTATGAACACTTCTGGAAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATG-AAAGG
* *
893425 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTCTTCAGATGAGTTATTCTCATTATGAAC
260 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAAC
* * *
893490 ACTACTAGAAATGTTGATCCATCGAGTGATGAATTCGAGCAAAAGGTTGAACAAGTTCTTCTCAT
325 ACTTCTGGAAATGTTGATCCATCGAGTGATGAATTTGAGCAAAAGGTTGAACAAGTTCTTCTCAT
*
893555 TATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGCGATGCTAA
390 TATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACTACCTGGCGATGCTAA
* *
893620 TCGATCGAGTGATGAATTCGAG
455 TCCATCGAGTGATGAATTCGAC
* *
893642 CAAAAGGTTGAACAAGTTCTTCTTATTATTTTTTTCCTTATCAGATGAGTTCTTCTCATTATAAA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATTTTTTTCCTTATCAGATGAGTTCTTCTCATTATGAA
* * * * * * *
893707 CTCCTTTTGGAAATATTGATGTTTAAAATAGAGGTTGTTAATTTGGCTTTATATGTGATGAATTA
66 CTCCTTCTGGAAATGTTGATCTTCAAAAGAGGGGTTGTTAATTTGGCTTCATATGTGATGAATTA
*
893772 ACGCAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTCC-TCTTCAGATGAGTTCTTCTCA
131 AGGCAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
893836 TTATGAACACTTCTGGAAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGAAAGGT
196 TTATGAACACTTCTGGAAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGAAAGGT
893901 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACA
261 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACA
*
893966 CTTCTGGAAATGTTGATCCATCGAGTGATGAATTTGAGCAAAAGGTTGAACAAGTTCTTCTCAGT
326 CTTCTGGAAATGTTGATCCATCGAGTGATGAATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATT
894031 ATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
391 ATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
894077 TTCTTCTTCC
Statistics
Matches: 862, Mismatches: 50, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
475 176 0.20
476 77 0.09
477 609 0.71
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (476 bp):
CAAAAGGTTGAACAAGTTCTTCTCATTATTTTTTTCCTTATCAGATGAGTTCTTCTCATTATGAA
CTCCTTCTGGAAATGTTGATCTTCAAAAGAGGGGTTGTTAATTTGGCTTCATATGTGATGAATTA
AGGCAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACACTTCTGGAAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGAAAGGT
TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACA
CTTCTGGAAATGTTGATCCATCGAGTGATGAATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATT
ATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACTACCTGGCGATGCTAAT
CCATCGAGTGATGAATTCGAC
Found at i:893662 original size:113 final size:111
Alignment explanation
Indices: 893420--893709 Score: 405
Period size: 113 Copynumber: 2.6 Consensus size: 111
893410 AGAGTCATGC
*
893420 AAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTATTCTCATT
1 AAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTT-TTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
893484 ATGAACACTACTAGAAATGTTGATCCATCGAGTGATGAATTCGAGCA
65 ATGAACTCTACTAGAAATGCTAATCCATCGAGTGATGAATTCGAGCA
*
893531 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTT-TTCCTTCTTCAGATGAGTTCTTCTCATT
* ** *
893596 ATGAACTCTACCTGGCGATGCTAATCGATCGAGTGATGAATTCGAGCA
65 ATGAACTCTA-CTAGAAATGCTAATCCATCGAGTGATGAATTCGAGCA
*
893644 AAAGGTTGAACAAGTTCTTCTTATTAT----TT-TTTTCCTT-ATCAGATGAGTTCTTCTCATTA
1 AAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTTTCCTTCTTCAGATGAGTTCTTCTCATTA
*
893703 TAAACTC
66 TGAACTC
893710 CTTTTGGAAA
Statistics
Matches: 164, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
106 27 0.16
107 6 0.04
108 2 0.01
109 2 0.01
111 39 0.24
112 31 0.19
113 57 0.35
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (111 bp):
AAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTCTACTAGAAATGCTAATCCATCGAGTGATGAATTCGAGCA
Found at i:894024 original size:111 final size:117
Alignment explanation
Indices: 893776--894076 Score: 393
Period size: 120 Copynumber: 2.6 Consensus size: 117
893766 GAATTAACGC
* *
893776 AAGGTTGAACAAATTCTTCTTATTATGAACTTCTTC-TCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
** ** *
893840 GAACACTTCTGGAAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGA
66 GAACACTTCTGGAAAATGTTGATGC---TCTATCGACTGATGTAATAGAGTCA-GA
893896 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* *
893961 GAACACTTCTGG-AAATGTTGAT-C-C-ATCGAGTGATG-AATTTGAG-CA-A
66 GAACACTTCTGGAAAATGTTGATGCTCTATCGACTGATGTAA-TAGAGTCAGA
* *
894007 AAGGTTGAACAAGTTCTTCTCAGTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTA
894072 TGAAC
65 TGAAC
894077 TTCTTCTTCC
Statistics
Matches: 167, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
111 39 0.23
112 29 0.17
113 3 0.02
114 10 0.06
115 1 0.01
119 1 0.01
120 44 0.26
121 40 0.24
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (117 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACACTTCTGGAAAATGTTGATGCTCTATCGACTGATGTAATAGAGTCAGA
Found at i:894062 original size:40 final size:40
Alignment explanation
Indices: 894018--894117 Score: 157
Period size: 40 Copynumber: 2.5 Consensus size: 40
894008 AGGTTGAACA
*
894018 AGTTCTTCTCAGTATGAACTTCTTATTCCT-TCTTCAGATG
1 AGTTCTTCTCATTATGAACTTCTTATTCCTCT-TTCAGATG
*
894058 AGTTCTTCTCATTATGAACTTCTTCTTCCTCTTTCAGATG
1 AGTTCTTCTCATTATGAACTTCTTATTCCTCTTTCAGATG
*
894098 AGTTATTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
894118 CTTCCGGAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 55 0.98
41 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.46
Consensus pattern (40 bp):
AGTTCTTCTCATTATGAACTTCTTATTCCTCTTTCAGATG
Found at i:894542 original size:22 final size:22
Alignment explanation
Indices: 894517--894569 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 22
894507 AATAAAGCCT
894517 TCATTTTTGAAAAGAGAATCTA
1 TCATTTTTGAAAAGAGAATCTA
*
894539 TCATTTTT--AAAGAGAATCTG
1 TCATTTTTGAAAAGAGAATCTA
*
894559 TCATCTTTGAA
1 TCATTTTTGAA
894570 GAATGTAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 18 0.67
22 9 0.33
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (22 bp):
TCATTTTTGAAAAGAGAATCTA
Found at i:894871 original size:54 final size:55
Alignment explanation
Indices: 894777--894930 Score: 158
Period size: 54 Copynumber: 2.9 Consensus size: 55
894767 AGAATAACTG
* * *
894777 GTTCGTAAAACATTTGACAACACATTCAT--TATCTCATGTGGTTTCTGA-TAAGAT
1 GTTCGTAAAACATTTGAC-ACACATTCATCCT-TTTCATGTGGTTTCTGACCAAAAT
* *
894831 GTTCGTAAAATATTTGACAGCACATTCATCCTTTTC-TGTGGCTTCT-ACCAAAAT
1 GTTCGTAAAACATTTGACA-CACATTCATCCTTTTCATGTGGTTTCTGACCAAAAT
* * * *
894885 GTTCGTAAAGCATTTGACAAACATTCATCC-TTTCTTGTGTTTTCTG
1 GTTCGTAAAACATTTGACACACATTCATCCTTTTCATGTGGTTTCTG
894931 CACATATTTC
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
52 4 0.05
53 20 0.24
54 56 0.67
55 3 0.04
56 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.39
Consensus pattern (55 bp):
GTTCGTAAAACATTTGACACACATTCATCCTTTTCATGTGGTTTCTGACCAAAAT
Found at i:895943 original size:75 final size:75
Alignment explanation
Indices: 895839--895978 Score: 208
Period size: 75 Copynumber: 1.9 Consensus size: 75
895829 TGCTGATATG
* *
895839 AACGTTCAAAATACATCAACATTCATGATTCTGATTGAAATGGGCTTTCAGCATGCCCCAACATT
1 AACGTTCAAAATACATCAACACTCATGATTATGATTGAAATGGGCTTTCAGCATGCCCCAACATT
895904 GACTAATACA
66 GACTAATACA
** * * * *
895914 AACGTTCAAAATGTATCAATACTCCTGATTATGATTGAAATGGGCTTTCAGCATGCTCCATCATT
1 AACGTTCAAAATACATCAACACTCATGATTATGATTGAAATGGGCTTTCAGCATGCCCCAACATT
895979 TGCTTCTTGT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 57 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (75 bp):
AACGTTCAAAATACATCAACACTCATGATTATGATTGAAATGGGCTTTCAGCATGCCCCAACATT
GACTAATACA
Found at i:899381 original size:72 final size:72
Alignment explanation
Indices: 899264--899398 Score: 218
Period size: 72 Copynumber: 1.9 Consensus size: 72
899254 TATAATAGGT
899264 TAGCTGAATATTATCCATAAAGACAGGGCGATTAACCAATTGCTTTAGGGGGACAACTCAAGCAT
1 TAGCTGAATATTATCCATAAAGACAGGGCGATTAACCAATTGCTTTAGGGGGACAACTCAAGCAT
899329 AACAGAC
66 AACAGAC
* * * *
899336 TAGCTGAATATTATCCATAAAG-CCGAGGCTATTAATCAATTGCTTTAGGGGGATAACTCAAGC
1 TAGCTGAATATTATCCATAAAGACAG-GGCGATTAACCAATTGCTTTAGGGGGACAACTCAAGC
899399 TTTATTGTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 2 0.03
72 56 0.97
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (72 bp):
TAGCTGAATATTATCCATAAAGACAGGGCGATTAACCAATTGCTTTAGGGGGACAACTCAAGCAT
AACAGAC
Found at i:901703 original size:14 final size:14
Alignment explanation
Indices: 901684--901760 Score: 50
Period size: 14 Copynumber: 5.5 Consensus size: 14
901674 AAATGTAATT
* *
901684 ATGCAAAGATGCAA
1 ATGCAAAAATGAAA
901698 ATGCAAAAATGAAA
1 ATGCAAAAATGAAA
* * * *
901712 ATGTAAATACGAAC
1 ATGCAAAAATGAAA
*
901726 AT-AAAAAATGCAAAA
1 ATGCAAAAATG--AAA
*
901741 ATGC-AAAATGCAA
1 ATGCAAAAATGAAA
901754 ATGCAAA
1 ATGCAAA
901761 TGTAAATGTA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
13 11 0.23
14 26 0.55
15 10 0.21
ACGTcount: A:0.58, C:0.12, G:0.14, T:0.16
Consensus pattern (14 bp):
ATGCAAAAATGAAA
Found at i:902024 original size:43 final size:44
Alignment explanation
Indices: 901940--902026 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 44
901930 GCGTGCATCA
* * *
901940 AACAAAACTTTTACATGTAGGGGACAACTTTCAGTCCTAACTTC
1 AACAAAACTTGTACATATAGGGGACAACTTTCACTCCTAACTTC
* * *
901984 AACAAAAC-TGTACATATAGGGGATAACTTTCCCTCTTAACTTC
1 AACAAAACTTGTACATATAGGGGACAACTTTCACTCCTAACTTC
902027 TCTAAAGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 29 0.78
44 8 0.22
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (44 bp):
AACAAAACTTGTACATATAGGGGACAACTTTCACTCCTAACTTC
Found at i:903784 original size:2 final size:2
Alignment explanation
Indices: 903775--903803 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
903765 TTTCTAAAAA
903775 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
903804 TTAGGGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:903927 original size:18 final size:18
Alignment explanation
Indices: 903885--903927 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
903875 TCATTTTCTT
903885 TAAT-ATTAATAAATAAA
1 TAATAATTAATAAATAAA
*
903902 TAAAAATTAATAAA-AATA
1 TAATAATTAATAAATAA-A
903920 TAATAATT
1 TAATAATT
903928 TTCCTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAATAATTAATAAATAAA
Found at i:905524 original size:16 final size:16
Alignment explanation
Indices: 905505--905545 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
905495 TGTAGGATAA
*
905505 CCTAGGGTTAGGAAAC
1 CCTAGGGCTAGGAAAC
905521 CCTAGGGCTAGGAAAC
1 CCTAGGGCTAGGAAAC
905537 CCTAGGGCT
1 CCTAGGGCT
905546 TCTTGCTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.32, T:0.17
Consensus pattern (16 bp):
CCTAGGGCTAGGAAAC
Found at i:905742 original size:3 final size:3
Alignment explanation
Indices: 905734--905874 Score: 180
Period size: 3 Copynumber: 47.0 Consensus size: 3
905724 GGTCTGTTTG
* *
905734 TAA TAA TAA TAA TAT TAA TAA TAA AAA TAAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
* * * *
905780 T-A TAA TAT TAT TAT TAA TAA TAA AAA TAAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
905825 T-A TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
905869 TAA TAA
1 TAA TAA
905875 AATGAAAAAA
Statistics
Matches: 124, Mismatches: 8, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
2 6 0.05
3 109 0.88
4 9 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:905768 original size:28 final size:26
Alignment explanation
Indices: 905734--905874 Score: 164
Period size: 25 Copynumber: 5.3 Consensus size: 26
905724 GGTCTGTTTG
905734 TAATAATAATAATATTAATAATAAAAA
1 TAATAATAATAATA-TAATAATAAAAA
* *
905761 TAAATAATAATAATAATAAT-ATAATAT
1 T-AATAATAATAAT-ATAATAATAAAAA
* *
905788 TATTATTAATAATA-AA-AATAAATAA
1 TAATAATAATAATATAATAATAAA-AA
905813 TAATAATAATAATATAATAAT-AAAA
1 TAATAATAATAATATAATAATAAAAA
905838 TAATAATAATAATAATAATAATAATAAA
1 TAATAATAATAAT-ATAATAATAA-AAA
905866 TAATAATAA
1 TAATAATAA
905875 AATGAAAAAA
Statistics
Matches: 97, Mismatches: 8, Indels: 17
0.80 0.07 0.14
Matches are distributed among these distances:
24 6 0.06
25 29 0.30
26 22 0.23
27 11 0.11
28 28 0.29
29 1 0.01
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (26 bp):
TAATAATAATAATATAATAATAAAAA
Found at i:906976 original size:30 final size:30
Alignment explanation
Indices: 906937--907010 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
906927 TGAGCCAACT
*
906937 CGTTGACTTTTCCCGAGTC-AACCAATTGAC
1 CGTTGACTTTTACCGAGTCAAACC-ATTGAC
* * *
906967 TGTTTACTTTGACCGAGTCAAACCATTGAC
1 CGTTGACTTTTACCGAGTCAAACCATTGAC
906997 CGTTGACTTTTACC
1 CGTTGACTTTTACC
907011 TAAAAAGTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 32 0.89
31 4 0.11
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (30 bp):
CGTTGACTTTTACCGAGTCAAACCATTGAC
Found at i:914394 original size:8 final size:8
Alignment explanation
Indices: 914381--914415 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
914371 ATCCATGTTA
914381 GAGAGAGG
1 GAGAGAGG
914389 GAGAGAGG
1 GAGAGAGG
*
914397 GAGGGAGG
1 GAGAGAGG
914405 GAGAGAGG
1 GAGAGAGG
914413 GAG
1 GAG
914416 GGAGAGAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (8 bp):
GAGAGAGG
Found at i:914400 original size:4 final size:4
Alignment explanation
Indices: 914385--914419 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
914375 ATGTTAGAGA
* *
914385 GAGG GAGA GAGG GAGG GAGG GAGA GAGG GAGG GAG
1 GAGG GAGG GAGG GAGG GAGG GAGG GAGG GAGG GAG
914420 AGAGTAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (4 bp):
GAGG
Found at i:914400 original size:12 final size:12
Alignment explanation
Indices: 914381--914423 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
914371 ATCCATGTTA
*
914381 GAGAGAGGGAGA
1 GAGAGAGGGAGG
*
914393 GAGGGAGGGAGG
1 GAGAGAGGGAGG
914405 GAGAGAGGGAGG
1 GAGAGAGGGAGG
914417 GAGAGAG
1 GAGAGAG
914424 TAGTAAATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (12 bp):
GAGAGAGGGAGG
Found at i:914406 original size:16 final size:16
Alignment explanation
Indices: 914385--914419 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
914375 ATGTTAGAGA
914385 GAGGGAGAGAGGGAGG
1 GAGGGAGAGAGGGAGG
914401 GAGGGAGAGAGGGAGG
1 GAGGGAGAGAGGGAGG
914417 GAG
1 GAG
914420 AGAGTAGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (16 bp):
GAGGGAGAGAGGGAGG
Found at i:914837 original size:39 final size:37
Alignment explanation
Indices: 914764--914895 Score: 178
Period size: 39 Copynumber: 3.5 Consensus size: 37
914754 GTTTTTGAAA
* *
914764 ATATAT-ATATATAGTTTTTAAAACATTTTAAAAACAT
1 ATATATAATATATAGTTTTGAAAAC-TTTTTAAAACAT
914801 ATATATAATATATAGTTTTGAAAACTTTTTTTAAAACAT
1 ATATATAATATATAGTTTTGAAAAC--TTTTTAAAACAT
* *
914840 ATATATAATATATAGTTTTTGAAAACATTTTGAAA-AT
1 ATATATAATATATAG-TTTTGAAAACTTTTTAAAACAT
914877 ATATATAATATATAGTTTT
1 ATATATAATATATAGTTTT
914896 TGAATATATA
Statistics
Matches: 87, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
36 4 0.05
37 23 0.26
38 24 0.28
39 26 0.30
40 10 0.11
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (37 bp):
ATATATAATATATAGTTTTGAAAACTTTTTAAAACAT
Found at i:914896 original size:37 final size:38
Alignment explanation
Indices: 914764--914899 Score: 199
Period size: 37 Copynumber: 3.6 Consensus size: 38
914754 GTTTTTGAAA
914764 ATATAT-ATATATAGTTTTT-AAAACATTTTAAAAACAT
1 ATATATAATATATAGTTTTTGAAAACATTTT-AAAACAT
*
914801 ATATATAATATATAG-TTTTGAAAACTTTTTTTAAAACAT
1 ATATATAATATATAGTTTTTGAAAAC--ATTTTAAAACAT
*
914840 ATATATAATATATAGTTTTTGAAAACATTTTGAAA-AT
1 ATATATAATATATAGTTTTTGAAAACATTTTAAAACAT
914877 ATATATAATATATAGTTTTTGAA
1 ATATATAATATATAGTTTTTGAA
914900 TATATAAATA
Statistics
Matches: 91, Mismatches: 3, Indels: 10
0.88 0.03 0.10
Matches are distributed among these distances:
37 35 0.38
38 20 0.22
39 22 0.24
40 14 0.15
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (38 bp):
ATATATAATATATAGTTTTTGAAAACATTTTAAAACAT
Found at i:914904 original size:2 final size:2
Alignment explanation
Indices: 914899--914941 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
914889 TAGTTTTTGA
* *
914899 AT AT AT AA AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
914941 A
1 A
914942 ATTTTTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:915007 original size:37 final size:37
Alignment explanation
Indices: 914925--915011 Score: 113
Period size: 38 Copynumber: 2.3 Consensus size: 37
914915 ATGTATATAT
*
914925 ATATATATATATATATAATTTTTAAAACATTTTGAAA
1 ATATATATATATATATAATTTTGAAAACATTTTGAAA
* * *
914962 ATAAATATATAATATATAGTTTTGAAAACCTTTTTGAAA
1 ATATATATAT-ATATATAATTTTGAAAA-CATTTTGAAA
915001 ATATATA-ATAT
1 ATATATATATAT
915012 TTTGAAAACG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
37 11 0.26
38 17 0.40
39 15 0.35
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (37 bp):
ATATATATATATATATAATTTTGAAAACATTTTGAAA
Found at i:915032 original size:30 final size:31
Alignment explanation
Indices: 914973--915037 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
914963 TAAATATATA
**
914973 ATAT-ATAGTTTTGAAAACCTTTTTGAAAAT
1 ATATAATAGTTTTGAAAACCTTTTCAAAAAT
*
915003 ATATAATA-TTTTGAAAACGTTTTCAAAAAT
1 ATATAATAGTTTTGAAAACCTTTTCAAAAAT
*
915033 TTATA
1 ATATA
915038 TATGGGTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (31 bp):
ATATAATAGTTTTGAAAACCTTTTCAAAAAT
Found at i:916315 original size:18 final size:20
Alignment explanation
Indices: 916288--916329 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
916278 TTTAATTTGA
916288 ATTTTCTTTAATT-CTTTTT
1 ATTTTCTTTAATTACTTTTT
* *
916307 ATTTT-TTTACTTATTTTTT
1 ATTTTCTTTAATTACTTTTT
916326 ATTT
1 ATTT
916330 AGTTTATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (20 bp):
ATTTTCTTTAATTACTTTTT
Found at i:924540 original size:32 final size:34
Alignment explanation
Indices: 924504--924573 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
924494 CCTTACAAAC
924504 TCCCTAGTTTTT-C-CGGGCTAAACTAGAACATT
1 TCCCTAGTTTTTACACGGGCTAAACTAGAACATT
* *
924536 TCCCTAGTTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAGTTTTTACACGGGCTAAACTAGAACATT
924570 TCCC
1 TCCC
924574 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 12 0.35
33 1 0.03
34 21 0.62
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (34 bp):
TCCCTAGTTTTTACACGGGCTAAACTAGAACATT
Found at i:928174 original size:13 final size:13
Alignment explanation
Indices: 928156--928185 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
928146 TTGATATTGA
*
928156 AATAATTACATCT
1 AATAATTACATCG
928169 AATAATTACATCG
1 AATAATTACATCG
928182 AATA
1 AATA
928186 TACTTAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
AATAATTACATCG
Found at i:931992 original size:22 final size:23
Alignment explanation
Indices: 931967--932026 Score: 106
Period size: 22 Copynumber: 2.7 Consensus size: 23
931957 CCTGACCCGA
931967 ACCGTTGACTTTGATCA-GTCAG
1 ACCGTTGACTTTGATCATGTCAG
931989 ACCGTTGACTTTGA-CATGTCAG
1 ACCGTTGACTTTGATCATGTCAG
932011 ACCGTTGACTTTGATC
1 ACCGTTGACTTTGATC
932027 GAAAAAGTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 2 0.06
22 33 0.92
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (23 bp):
ACCGTTGACTTTGATCATGTCAG
Found at i:935556 original size:39 final size:39
Alignment explanation
Indices: 935502--935634 Score: 169
Period size: 39 Copynumber: 3.4 Consensus size: 39
935492 CATAAGGATT
* * * *
935502 TGCGGTAAGGACTTACCCTGTGCAAAAAG-TAGAGGAGTC
1 TGCGGTAAGGACTTACCTTGAGCAAAAAGCCA-AGGAGCC
*
935541 TGCGGTAAGGACTTACCTTGAGCACAAAGCCAAGGAGCC
1 TGCGGTAAGGACTTACCTTGAGCAAAAAGCCAAGGAGCC
* * *
935580 TACGATAAGGACTTACCTTGAGCAAAACGCCAAGGAGCC
1 TGCGGTAAGGACTTACCTTGAGCAAAAAGCCAAGGAGCC
*
935619 TGTGGTAAGGACTTAC
1 TGCGGTAAGGACTTAC
935635 AAGTCATAGA
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 80 0.99
40 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.28, T:0.19
Consensus pattern (39 bp):
TGCGGTAAGGACTTACCTTGAGCAAAAAGCCAAGGAGCC
Found at i:936447 original size:16 final size:16
Alignment explanation
Indices: 936426--936457 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
936416 AGTTCAGTTT
936426 GGGTCAGGTCAGACAC
1 GGGTCAGGTCAGACAC
936442 GGGTCAGGTCAGACAC
1 GGGTCAGGTCAGACAC
936458 AGGTGGGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.38, T:0.12
Consensus pattern (16 bp):
GGGTCAGGTCAGACAC
Found at i:936467 original size:16 final size:16
Alignment explanation
Indices: 936427--936461 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
936417 GTTCAGTTTG
*
936427 GGTCAGGTCAGACACG
1 GGTCAGGTCAGACACA
936443 GGTCAGGTCAGACACA
1 GGTCAGGTCAGACACA
936459 GGT
1 GGT
936462 GGGGTCGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.23, G:0.37, T:0.14
Consensus pattern (16 bp):
GGTCAGGTCAGACACA
Found at i:936967 original size:29 final size:29
Alignment explanation
Indices: 936941--937001 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
936931 GAATTTGGAT
936941 ATGAATTTAATCAAAATTTCACTTTGGTCC
1 ATGAATTTAATCAAAATTTCACTTTGGT-C
* * * *
936971 TTGAATTTAATTAAAATTTCAATTTAGTC
1 ATGAATTTAATCAAAATTTCACTTTGGTC
937000 AT
1 AT
937002 CAAAAAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.44
Consensus pattern (29 bp):
ATGAATTTAATCAAAATTTCACTTTGGTC
Found at i:937370 original size:18 final size:18
Alignment explanation
Indices: 937343--937389 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
937333 AACGAAAAAT
* * *
937343 TCAAACTCAATGGTTAGG
1 TCAAAGTCAACGGTCAGG
937361 TCAAAGTCAACGGTCAGG
1 TCAAAGTCAACGGTCAGG
*
937379 TCAAGGTCAAC
1 TCAAAGTCAAC
937390 CGATCAGATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (18 bp):
TCAAAGTCAACGGTCAGG
Found at i:937460 original size:9 final size:9
Alignment explanation
Indices: 937446--937473 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
937436 GCTTGGTCCA
937446 AGTTGACTC
1 AGTTGACTC
937455 AGTTGACTC
1 AGTTGACTC
937464 AGTTGACTC
1 AGTTGACTC
937473 A
1 A
937474 CTTTTCTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (9 bp):
AGTTGACTC
Found at i:944466 original size:24 final size:23
Alignment explanation
Indices: 944439--944521 Score: 67
Period size: 24 Copynumber: 3.5 Consensus size: 23
944429 CAGAAAACAA
* *
944439 AACATAATTCAGATCATATATCAG
1 AACAGAATTCAGAT-AAATATCAG
* * *
944463 AACAGAATCCAGATAAAGAAACAG
1 AACAGAATTCAGATAAA-TATCAG
* * *
944487 AACATATTTCAGATAAGATGTCAG
1 AACAGAATTCAGATAA-ATATCAG
944511 AACAGAATTCA
1 AACAGAATTCA
944522 AATCTGAAAT
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
23 2 0.05
24 41 0.93
25 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (23 bp):
AACAGAATTCAGATAAATATCAG
Found at i:955575 original size:51 final size:47
Alignment explanation
Indices: 955471--955591 Score: 120
Period size: 51 Copynumber: 2.5 Consensus size: 47
955461 GTAACGATGC
*
955471 AAATAAGCTTATGAGCTTACGGAATAATGGCAAGTATATTGAAAAAAATA
1 AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTG---AAAATA
* * **
955521 ATAATAAGCTTATGAGCTTATGGAATTTAAATGGTAAGTATTTTG-GTA-A
1 A-AATAAGCTTATGAGCTTATGGAA--T-AATGGCAAGTATATTGAAAATA
955570 AAATAAGCTTATGAGCTTATGG
1 AAATAAGCTTATGAGCTTATGG
955592 GATGAAAGGT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
48 21 0.34
49 2 0.03
50 2 0.03
51 22 0.35
53 1 0.02
54 14 0.23
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (47 bp):
AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGAAAATA
Found at i:956907 original size:21 final size:21
Alignment explanation
Indices: 956881--956925 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
956871 AGCCATCTTG
*
956881 GATTTAGAAATCGGTTATCCA
1 GATTTAGAAATCGATTATCCA
956902 GATTTAGAAATCGATTATCCA
1 GATTTAGAAATCGATTATCCA
956923 GAT
1 GAT
956926 ATCCTAAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (21 bp):
GATTTAGAAATCGATTATCCA
Found at i:957583 original size:15 final size:16
Alignment explanation
Indices: 957557--957587 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
957547 CGAAAAACAT
957557 AAAATATGACTTTTTG
1 AAAATATGACTTTTTG
957573 AAAAT-TGACTTTTTG
1 AAAATATGACTTTTTG
957588 GTCAAAGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (16 bp):
AAAATATGACTTTTTG
Found at i:959226 original size:21 final size:21
Alignment explanation
Indices: 959197--959243 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
959187 GATCTTGGGG
* *
959197 CCAACCAAAATAATCGAGCTA
1 CCAATCAAAATAATCGAACTA
959218 CCAATCAAAATAATCGAACTA
1 CCAATCAAAATAATCGAACTA
959239 CCAAT
1 CCAAT
959244 AGCAGGAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.49, C:0.28, G:0.06, T:0.17
Consensus pattern (21 bp):
CCAATCAAAATAATCGAACTA
Found at i:960938 original size:51 final size:50
Alignment explanation
Indices: 960883--961004 Score: 154
Period size: 51 Copynumber: 2.4 Consensus size: 50
960873 TGAATCTAAT
* * * *
960883 TAATTATTGAATAAATAATAATAAAATAAAGATAATGTTTTGATTCTATCC
1 TAATTCTT-AATAAATAATAATAAAATAAAGATAATATTTTAAATCTATCC
* * *
960934 TAATTCTTAATAAAATAATAATAAACTAAATATAATATTTTAAATCTATCT
1 TAATTCTTAAT-AAATAATAATAAAATAAAGATAATATTTTAAATCTATCC
*
960985 TAATTCCTAATAAATAATAA
1 TAATTCTTAATAAATAATAA
961005 ATCTAATCTT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 12 0.19
51 50 0.81
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.39
Consensus pattern (50 bp):
TAATTCTTAATAAATAATAATAAAATAAAGATAATATTTTAAATCTATCC
Found at i:965121 original size:2 final size:2
Alignment explanation
Indices: 965114--965146 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
965104 GGTACACTAG
965114 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
965147 TCTGATGTGA
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:965354 original size:119 final size:118
Alignment explanation
Indices: 965138--965463 Score: 456
Period size: 118 Copynumber: 2.8 Consensus size: 118
965128 TATATATATA
* * *
965138 TATATATATTCTGATGTGATTGCACTTTGTTTTCACATTACGATTCTGATATGATAGCACTGTGT
1 TATATATATTCTGATGTGATTGCACTTTGTGTGCACATTACGATTATGATATGATAGCACTGTGT
* * * * *
965203 GTGCTTATATGGTATGATTATGATATATTGTGGTGTTAGCTGAAGGTACACTAG
66 GTGCTTATATGTTCTGATTATGATATACTGTGGTG-TACCGGAAGGTACACTAG
*
965257 TATATATATTCTGATGTGATTGCACTTTGTGTGCACATTACGATTATAATATGATAGCACTGTGT
1 TATATATATTCTGATGTGATTGCACTTTGTGTGCACATTACGATTATGATATGATAGCACTGTGT
* * ** *
965322 GTACTTATATGTTCTGATTTTGATATACTGTGGTGTACCGGTGGGTGCACTAG
66 GTGCTTATATGTTCTGATTATGATATACTGTGGTGTACCGGAAGGTACACTAG
* * * *
965375 TATATATATTCTGATCTGATTGCACTTTTTGTGCACATTACGATTTTGATATGATAGCATTGTGT
1 TATATATATTCTGATGTGATTGCACTTTGTGTGCACATTACGATTATGATATGATAGCACTGTGT
*
965440 GTGCTTATATATTCT-AGTTATGAT
66 GTGCTTATATGTTCTGA-TTATGAT
965464 GATAGCACTA
Statistics
Matches: 184, Mismatches: 22, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
117 1 0.01
118 92 0.50
119 91 0.49
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.43
Consensus pattern (118 bp):
TATATATATTCTGATGTGATTGCACTTTGTGTGCACATTACGATTATGATATGATAGCACTGTGT
GTGCTTATATGTTCTGATTATGATATACTGTGGTGTACCGGAAGGTACACTAG
Found at i:971341 original size:119 final size:118
Alignment explanation
Indices: 971130--971433 Score: 383
Period size: 119 Copynumber: 2.6 Consensus size: 118
971120 TGTAATGATG
* * *
971130 TTCTGATATGATTGCACTTTGTGTGCACATTACGATTCTGATATGATAGTATTGTATGTGTTTAT
1 TTCTGATATGATTGCACTTTGTGTGCACATTACGATTCTGATATGATAGCATTGTGTGTGCTTAT
* * * * * *
971195 ATGTTCTGATTCTTATATATTGTGGTGTTACCTGAAGGTACACTAGTAAATATA
66 ATGTTCCGATTCTGATATACTATGGTG-TACCAGAAGGTACACTAATAAATATA
* * * *
971249 TTCTGATGTGATTGCACTTTTTGTGCACATTACGACTCTGATATGATAGCACTGTGTGTGCTTAT
1 TTCTGATATGATTGCACTTTGTGTGCACATTACGATTCTGATATGATAGCATTGTGTGTGCTTAT
* ** * *
971314 ATGTTCCGATTCTGATATACTATGGTGTGCCAGTGGGTGCACTAATATATATA
66 ATGTTCCGATTCTGATATACTATGGTGTACCAGAAGGTACACTAATAAATATA
* * * * * *
971367 TTATGATCTGATTGCACTTTGGGTGCACATTACAATTATGATATGATAGCATTATGTGTGCTTAT
1 TTCTGATATGATTGCACTTTGTGTGCACATTACGATTCTGATATGATAGCATTGTGTGTGCTTAT
971432 AT
66 AT
971434 ATATTGATTA
Statistics
Matches: 158, Mismatches: 27, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
118 77 0.49
119 81 0.51
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.41
Consensus pattern (118 bp):
TTCTGATATGATTGCACTTTGTGTGCACATTACGATTCTGATATGATAGCATTGTGTGTGCTTAT
ATGTTCCGATTCTGATATACTATGGTGTACCAGAAGGTACACTAATAAATATA
Found at i:973908 original size:20 final size:20
Alignment explanation
Indices: 973870--973987 Score: 120
Period size: 19 Copynumber: 6.0 Consensus size: 20
973860 TCAGATTGTT
973870 CAGGGGGTACAGATT-CCCC
1 CAGGGGGTACAGATTCCCCC
973889 CAGGGGGTACAGA-TCACCCC
1 CAGGGGGTACAGATTC-CCCC
*
973909 CA-GGGGAACAGATTCCCCC
1 CAGGGGGTACAGATTCCCCC
* *
973928 CAAGGGGTACCGATTCCCCC
1 CAGGGGGTACAGATTCCCCC
* * *
973948 CA-GGGGAACAAATTCTCCCT
1 CAGGGGGTACAGATTC-CCCC
973968 CAGGGGGTATC-GATTCCCCC
1 CAGGGGGTA-CAGATTCCCCC
973988 TGTCTAATGG
Statistics
Matches: 82, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
18 1 0.01
19 38 0.46
20 33 0.40
21 9 0.11
22 1 0.01
ACGTcount: A:0.23, C:0.35, G:0.27, T:0.15
Consensus pattern (20 bp):
CAGGGGGTACAGATTCCCCC
Found at i:973913 original size:39 final size:38
Alignment explanation
Indices: 973873--973987 Score: 135
Period size: 39 Copynumber: 2.9 Consensus size: 38
973863 GATTGTTCAG
*
973873 GGGGTACAGATTCCCCCAGGGGGTACAGA-TCACCCCCA
1 GGGGAACAGATTCCCCCAGGGGGTACAGATTC-CCCCCA
* *
973911 GGGGAACAGATTCCCCCCAAGGGGTACCGATTCCCCCCA
1 GGGGAACAGATT-CCCCCAGGGGGTACAGATTCCCCCCA
*
973950 GGGGAACAAATTCTCCCTCAGGGGGTATC-GATTCCCCC
1 GGGGAACAGATTC-CCC-CAGGGGGTA-CAGATTCCCCC
973988 TGTCTAATGG
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
38 12 0.18
39 35 0.52
40 19 0.28
41 1 0.01
ACGTcount: A:0.23, C:0.35, G:0.27, T:0.16
Consensus pattern (38 bp):
GGGGAACAGATTCCCCCAGGGGGTACAGATTCCCCCCA
Found at i:974752 original size:20 final size:19
Alignment explanation
Indices: 974718--974765 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
974708 AATGATTTTC
* *
974718 TTTTGAAAACAAAATTAGA
1 TTTTGAAAACAAAATGAAA
*
974737 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAA-ACAAAATGAAA
974757 TTTTGAAAA
1 TTTTGAAAA
974766 AAGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (19 bp):
TTTTGAAAACAAAATGAAA
Found at i:976236 original size:20 final size:20
Alignment explanation
Indices: 976211--976332 Score: 147
Period size: 20 Copynumber: 6.0 Consensus size: 20
976201 ATCAGATTGT
976211 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
* *
976231 CCA-GGGGAACAAATTCCCCC
1 CCAGGGGGTACAGATT-CCCC
* *
976251 CCAGAGGGTACCGATTCCCC
1 CCAGGGGGTACAGATTCCCC
* *
976271 CCAGAGGGTACCGATTCCCC
1 CCAGGGGGTACAGATTCCCC
*
976291 CCAGGGGGAACAGATTCCCCC
1 CCAGGGGGTACAGATT-CCCC
*
976312 CCAGGGGGTACCGATTCCCC
1 CCAGGGGGTACAGATTCCCC
976332 C
1 C
976333 TGTCTAACGG
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 10 0.11
20 52 0.59
21 26 0.30
ACGTcount: A:0.21, C:0.39, G:0.26, T:0.13
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:976321 original size:61 final size:60
Alignment explanation
Indices: 976211--976332 Score: 199
Period size: 61 Copynumber: 2.0 Consensus size: 60
976201 ATCAGATTGT
*
976211 CCAGGGGGTACAGATTCCCCCCAGGGGAACAAATTCCCCCCCAGAGGGTACCGATTCCCC
1 CCAGAGGGTACAGATTCCCCCCAGGGGAACAAATTCCCCCCCAGAGGGTACCGATTCCCC
* * *
976271 CCAGAGGGTACCGATTCCCCCCAGGGGGAACAGATTCCCCCCCAGGGGGTACCGATTCCCC
1 CCAGAGGGTACAGATTCCCCCCA-GGGGAACAAATTCCCCCCCAGAGGGTACCGATTCCCC
976332 C
1 C
976333 TGTCTAACGG
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
60 21 0.37
61 36 0.63
ACGTcount: A:0.21, C:0.39, G:0.26, T:0.13
Consensus pattern (60 bp):
CCAGAGGGTACAGATTCCCCCCAGGGGAACAAATTCCCCCCCAGAGGGTACCGATTCCCC
Found at i:984302 original size:57 final size:57
Alignment explanation
Indices: 984213--984381 Score: 241
Period size: 57 Copynumber: 3.0 Consensus size: 57
984203 GTTGGAGGAA
* * *
984213 GAATACTTTCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTTGTGACGGGGTT
1 GAATACTTGCAGGTTCCTCGACTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
*
984270 GAATACTTGCAGGTTCCTCGACTTTGTACTGAGAGCCTTACTGTTCGTGACGGGGTT
1 GAATACTTGCAGGTTCCTCGACTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
* * * * *
984327 GATTACTTGCAGGTTCCT-TAGCTTTCTGCTTAGGGCCTTACTGTTCGTGACGGGG
1 GAATACTTGCAGGTTCCTCGA-CTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGG
984382 GTTGTATGGT
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
56 1 0.01
57 100 0.99
ACGTcount: A:0.15, C:0.21, G:0.29, T:0.36
Consensus pattern (57 bp):
GAATACTTGCAGGTTCCTCGACTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
Found at i:986485 original size:57 final size:57
Alignment explanation
Indices: 986397--986626 Score: 266
Period size: 57 Copynumber: 4.0 Consensus size: 57
986387 TATAGTTGGA
* * *
986397 GGAAGAATACTTGCAGGTTTCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGG
1 GGAAGAATACTTTCAGGTTCCTCGGCTTTATGCTGAGAGCCTTACTGTTCGTGACGG
* *
986454 GGAAGAATACTTTCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTTGTGACGG
1 GGAAGAATACTTTCAGGTTCCTCGGCTTTATGCTGAGAGCCTTACTGTTCGTGACGG
** * * *
986511 GGTTGAATACTTGT-AGGTTCCTCGGCTTTATACTGAGAGCCTTACTGCTCGTGACGA
1 GGAAGAATACTT-TCAGGTTCCTCGGCTTTATGCTGAGAGCCTTACTGTTCGTGACGG
** * ** ** *
986568 GGTTGATTACTTAGAGGTTCCTTAGCTTTATGCTTAG-GACCTTACTGTTCGTGACGG
1 GGAAGAATACTTTCAGGTTCCTCGGCTTTATGCTGAGAG-CCTTACTGTTCGTGACGG
986625 GG
1 GG
986627 GTTGTATGGT
Statistics
Matches: 152, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
56 1 0.01
57 150 0.99
58 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.34
Consensus pattern (57 bp):
GGAAGAATACTTTCAGGTTCCTCGGCTTTATGCTGAGAGCCTTACTGTTCGTGACGG
Found at i:991505 original size:57 final size:57
Alignment explanation
Indices: 991374--991546 Score: 184
Period size: 57 Copynumber: 3.0 Consensus size: 57
991364 TATAGTTGGA
* ** * *
991374 GGAAGAATACTTGCAGGTTCCTCGGATTTGAACTGAGAGCCTTATTGTTCGTGATGG
1 GGAAGAATACTTGTAGGTTCCTCGGATTTGTGCTGAGAGCCTTACTGTTCGTGACGG
* *
991431 GGAAGAATACTTTTAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGG
1 GGAAGAATACTTGTAGGTTCCTCGGATTTGTGCTGAGAGCCTTACTGTTCGTGACGG
** * * ** * * * * *
991488 GGTTGATTGCTTGTAGGTTCCTTAGTTTTATGGTTAGGGCCTTACTGTTCGTGACGG
1 GGAAGAATACTTGTAGGTTCCTCGGATTTGTGCTGAGAGCCTTACTGTTCGTGACGG
991545 GG
1 GG
991547 GTTGTATGGT
Statistics
Matches: 97, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 97 1.00
ACGTcount: A:0.17, C:0.16, G:0.31, T:0.35
Consensus pattern (57 bp):
GGAAGAATACTTGTAGGTTCCTCGGATTTGTGCTGAGAGCCTTACTGTTCGTGACGG
Found at i:993250 original size:2 final size:2
Alignment explanation
Indices: 993243--993276 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
993233 GGTACACTAG
993243 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
993277 ATGATGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:999286 original size:14 final size:13
Alignment explanation
Indices: 999268--999311 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
999258 TCTGGAATTT
999268 TTTTTGTTTTCTC
1 TTTTTGTTTTCTC
*
999281 TTTTT-TTTTGTC
1 TTTTTGTTTTCTC
*
999293 TTTTTGTCTTCTC
1 TTTTTGTTTTCTC
999306 ATTTTT
1 -TTTTT
999312 TATTTTACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 11 0.42
13 10 0.38
14 5 0.19
ACGTcount: A:0.02, C:0.14, G:0.07, T:0.77
Consensus pattern (13 bp):
TTTTTGTTTTCTC
Found at i:1000249 original size:30 final size:30
Alignment explanation
Indices: 1000214--1000460 Score: 320
Period size: 30 Copynumber: 8.2 Consensus size: 30
1000204 CATATTCTAT
* *
1000214 TTAAAGGACCAAAATAACAAAAACAGAAAC
1 TTAAAGGACTAAAATAACAAAAATAGAAAC
*
1000244 TTAAAGGACTAAAATTGA-AAAAATAGAAAC
1 TTAAAGGACTAAAA-TAACAAAAATAGAAAC
* *
1000274 TTAAAGGATTAAAATATAAAAAAATAGAAAC
1 TTAAAGGACTAAAATA-ACAAAAATAGAAAC
*
1000305 TTAAAGGAATAAAATAACAAAAATAGAAAC
1 TTAAAGGACTAAAATAACAAAAATAGAAAC
*
1000335 TAAAAGGGA-TAAAATAACAAAAATAGAAAC
1 TTAAA-GGACTAAAATAACAAAAATAGAAAC
* *
1000365 TTAAAGGGCT-AAACAACAAAAATAGAAAC
1 TTAAAGGACTAAAATAACAAAAATAGAAAC
* * *
1000394 TTAAAGAAATAAAATAGCAAAAATAGAAAC
1 TTAAAGGACTAAAATAACAAAAATAGAAAC
* *
1000424 TTAAAGGACTAAAATAGCAAAAATAGAAAG
1 TTAAAGGACTAAAATAACAAAAATAGAAAC
1000454 TTAAAGG
1 TTAAAGG
1000461 GATAAACAGT
Statistics
Matches: 192, Mismatches: 19, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
29 28 0.15
30 132 0.69
31 32 0.17
ACGTcount: A:0.63, C:0.08, G:0.13, T:0.17
Consensus pattern (30 bp):
TTAAAGGACTAAAATAACAAAAATAGAAAC
Found at i:1000430 original size:89 final size:90
Alignment explanation
Indices: 1000224--1000468 Score: 336
Period size: 89 Copynumber: 2.7 Consensus size: 90
1000214 TTAAAGGACC
* *
1000224 AAAATAACAAAAACAGAAACTTAAAGGACTAAAATTGA-AAAAATAGAAACTTAAA-GGATTAAA
1 AAAATAACAAAAATAGAAACTTAAAGGACTAAAA-TAACAAAAATAGAAACTTAAAGGGA-T-AA
* *
1000287 ATATAAAAAAATAGAAACTTAAAGGAAT
63 ACATAAAAAAATAGAAACTTAAAGAAAT
* *
1000315 AAAATAACAAAAATAGAAACTAAAAGGGA-TAAAATAACAAAAATAGAAACTTAAAGGGCTAAAC
1 AAAATAACAAAAATAGAAACTTAAA-GGACTAAAATAACAAAAATAGAAACTTAAAGGGATAAAC
*
1000379 A-ACAAAAATAGAAACTTAAAGAAAT
65 ATAAAAAAATAGAAACTTAAAGAAAT
* * *
1000404 AAAATAGCAAAAATAGAAACTTAAAGGACTAAAATAGCAAAAATAGAAAGTTAAAGGGATAAACA
1 AAAATAACAAAAATAGAAACTTAAAGGACTAAAATAACAAAAATAGAAACTTAAAGGGATAAACA
1000469 GTAATTACAA
Statistics
Matches: 138, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
88 3 0.02
89 78 0.57
90 6 0.04
91 46 0.33
92 5 0.04
ACGTcount: A:0.64, C:0.08, G:0.12, T:0.16
Consensus pattern (90 bp):
AAAATAACAAAAATAGAAACTTAAAGGACTAAAATAACAAAAATAGAAACTTAAAGGGATAAACA
TAAAAAAATAGAAACTTAAAGAAAT
Found at i:1002558 original size:67 final size:65
Alignment explanation
Indices: 1002402--1002687 Score: 196
Period size: 67 Copynumber: 4.3 Consensus size: 65
1002392 TATTTAGGGA
* * * * * *
1002402 TTTGTTTCAAGGGAAACAAAGTCAAAGACGATGCTTGAAGAGAAGCTGTCTCAAGAGAGACAAAC
1 TTTGTTTCAAGGGAAACAGACTCAAAGATGATGCTTCAAGAGAAACTATCTCAAGAGAGACAAAC
* ** * *
1002467 TTCGTTTCAAGGGAAATGGTCTCAAAGATGAGTGTTTCAAGAGAAACTATCTCAAG-GAAGACCA
1 TTTGTTTCAAGGGAAACAGACTCAAAGATGA-TGCTTCAAGAGAAACTATCTCAAGAG-AGA-CA
1002531 AAC
63 AAC
** * * * *
1002534 TTTGTTTCAAGGGAAACAGACTCAAAGATTTCTTTCTTCAAAAGAAACTGTCTCAAGAGAGGAAA
1 TTTGTTTCAAGGGAAACAGACTCAAAGA--TGATGCTTCAAGAGAAACTATCTCAAGAGA-G-AC
1002599 AAAC
62 AAAC
* *** * ** * * * * * *
1002603 TTTGTTTCCATATAAACATACTCAAAGATTTTTTCTACAAAAGAAAATGTCTCAAGAGAGATAAA
1 TTTGTTTCAAGGGAAACAGACTCAAAGA-TGATGCTTCAAGAGAAACTATCTCAAGAGAGA-CAA
*
1002668 AT
64 AC
*
1002670 TTTGTTTCAAGAGAAACA
1 TTTGTTTCAAGGGAAACA
1002688 ATTTCAAAGT
Statistics
Matches: 178, Mismatches: 34, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
65 25 0.14
66 24 0.13
67 49 0.28
68 49 0.28
69 30 0.17
70 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (65 bp):
TTTGTTTCAAGGGAAACAGACTCAAAGATGATGCTTCAAGAGAAACTATCTCAAGAGAGACAAAC
Found at i:1002638 original size:68 final size:68
Alignment explanation
Indices: 1002442--1002687 Score: 230
Period size: 67 Copynumber: 3.6 Consensus size: 68
1002432 ATGCTTGAAG
* * * * ** * *** *
1002442 AGAAGCTGTCTCAAGAGAG-ACAAACTTCGTTTCAAGGGAAATGGTCTCAAAGATGAGTGT-TTC
1 AGAAACTGTCTCAAGAGAGAAAAAACTTTGTTTCAAGAGAAACAGACTCAAAGATTTCTTTCTTC
*
1002505 AAG
66 AAA
* ** *
1002508 AGAAACTATCTCAAG-GAAGACCAAACTTTGTTTCAAGGGAAACAGACTCAAAGATTTCTTTCTT
1 AGAAACTGTCTCAAGAG-AGAAAAAACTTTGTTTCAAGAGAAACAGACTCAAAGATTTCTTTCTT
1002572 CAAA
65 CAAA
* * * * *
1002576 AGAAACTGTCTCAAGAGAGGAAAAAACTTTGTTTCCATATAAACATACTCAAAGATTT-TTTCTA
1 AGAAACTGTCTCAAGAGA-GAAAAAACTTTGTTTCAAGAGAAACAGACTCAAAGATTTCTTTCTT
1002640 CAAA
65 CAAA
* * *
1002644 AGAAAATGTCTCAAGAGAGATAAAATTTTGTTTCAAGAGAAACA
1 AGAAACTGTCTCAAGAGAGAAAAAACTTTGTTTCAAGAGAAACA
1002688 ATTTCAAAGT
Statistics
Matches: 148, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
65 1 0.01
66 15 0.10
67 53 0.36
68 46 0.31
69 33 0.22
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.26
Consensus pattern (68 bp):
AGAAACTGTCTCAAGAGAGAAAAAACTTTGTTTCAAGAGAAACAGACTCAAAGATTTCTTTCTTC
AAA
Found at i:1002842 original size:34 final size:34
Alignment explanation
Indices: 1002804--1002868 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
1002794 ACGAAAAATG
* *
1002804 TCTCAAGCGAGA-CGAATTTTTTTAAGAGAAATTA
1 TCTCAAGCGAGACCAAATTTGTTT-AGAGAAATTA
1002838 TCTCAAGCGAGACCAAATTTGTTTAGAGAAA
1 TCTCAAGCGAGACCAAATTTGTTTAGAGAAA
1002869 AACACTCTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 19 0.68
35 9 0.32
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (34 bp):
TCTCAAGCGAGACCAAATTTGTTTAGAGAAATTA
Found at i:1004226 original size:2 final size:2
Alignment explanation
Indices: 1004219--1004288 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
1004209 AGCTTTATTG
1004219 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
1004261 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
1004289 CACATATTCT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1009389 original size:108 final size:107
Alignment explanation
Indices: 1009112--1009518 Score: 498
Period size: 108 Copynumber: 3.8 Consensus size: 107
1009102 TTACCATATA
* *
1009112 GGCACTAAGTGTGCAAAGTATAGAATTCATCATATGTTGATGAATAACTGTTTCGACACTAAGTG
1 GGCACTAAGTGTGCAAAGTACAGAATTCATCATATGTTGATGAATAACCGTTTCGACACTAAGTG
* *
1009177 TGCAATTCACGAAATTCATCATATGTTGATGAATAATCATTTC
66 TGCAATTCATGAAATTCATCATATGTTGATGAA-AATCGTTTC
* **
1009220 GGCACTAAGT-TGCAAAGTAC-GAAATTCATCATATGTTGATGAATAACTGTTTCGGGACTAAGT
1 GGCACTAAGTGTGCAAAGTACAG-AATTCATCATATGTTGATGAATAACCGTTTCGACACTAAGT
* * * *
1009283 GTGCAATTCATGGAATTCATCATATGTTTACGAACAATTGTTTC
65 GTGCAATTCATGAAATTCATCATATGTTGATGAA-AATCGTTTC
* * * *
1009327 GGTACTAAGTATGTAAAGTACATAATTCATCATATGTTGATGAATAACCGTTTCGGA-ACTAAGT
1 GGCACTAAGTGTGCAAAGTACAGAATTCATCATATGTTGATGAATAACCGTTTC-GACACTAAGT
* * *
1009391 GTGCAATTCACTG-AATTCATCATATGATGATTAATATCCGTTTC
65 GTGCAATTCA-TGAAATTCATCATATGTTGATGAAAAT-CGTTTC
* *** * *
1009435 GGCACAAAGTGTGCAAAGTGTGGAATTCATCATATGTTGATAAATAACCGTTTCGACACTATGTG
1 GGCACTAAGTGTGCAAAGTACAGAATTCATCATATGTTGATGAATAACCGTTTCGACACTAAGTG
**
1009500 TGCAACCCATGAAATTCAT
66 TGCAATTCATGAAATTCAT
1009519 AATGAGTTTA
Statistics
Matches: 258, Mismatches: 33, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
106 1 0.00
107 100 0.39
108 154 0.60
109 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (107 bp):
GGCACTAAGTGTGCAAAGTACAGAATTCATCATATGTTGATGAATAACCGTTTCGACACTAAGTG
TGCAATTCATGAAATTCATCATATGTTGATGAAAATCGTTTC
Found at i:1009516 original size:54 final size:54
Alignment explanation
Indices: 1009112--1009518 Score: 398
Period size: 54 Copynumber: 7.6 Consensus size: 54
1009102 TTACCATATA
* *
1009112 GGCACTAAGTGTGCAAAGT-AT-AGAATTCATCATATGTTGATGAATAACTGTTTC
1 GGCACTAAGTGTGC-AATTCATGA-AATTCATCATATGTTGATGAATAACCGTTTC
* * * *
1009166 GACACTAAGTGTGCAATTCACGAAATTCATCATATGTTGATGAATAATCATTTC
1 GGCACTAAGTGTGCAATTCATGAAATTCATCATATGTTGATGAATAACCGTTTC
* * *
1009220 GGCACTAAGT-TGCAAAGT-ACGAAATTCATCATATGTTGATGAATAACTGTTTC
1 GGCACTAAGTGTGC-AATTCATGAAATTCATCATATGTTGATGAATAACCGTTTC
* * * * * **
1009273 GGGACTAAGTGTGCAATTCATGGAATTCATCATATGTTTACGAACAATTGTTTC
1 GGCACTAAGTGTGCAATTCATGAAATTCATCATATGTTGATGAATAACCGTTTC
* * * *
1009327 GGTACTAAGTATGTAAAGTACAT--AATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTG-CAA-TTCATGAAATTCATCATATGTTGATGAATAACCGTTTC
* * * *
1009381 GGAACTAAGTGTGCAATTCACTG-AATTCATCATATGATGATTAATATCCGTTTC
1 GGCACTAAGTGTGCAATTCA-TGAAATTCATCATATGTTGATGAATAACCGTTTC
* * * * *
1009435 GGCACAAAGTGTGCAAAGT-GTGGAATTCATCATATGTTGATAAATAACCGTTTC
1 GGCACTAAGTGTGC-AATTCATGAAATTCATCATATGTTGATGAATAACCGTTTC
* * **
1009489 GACACTATGTGTGCAACCCATGAAATTCAT
1 GGCACTAAGTGTGCAATTCATGAAATTCAT
1009519 AATGAGTTTA
Statistics
Matches: 292, Mismatches: 49, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
52 3 0.01
53 57 0.20
54 222 0.76
55 6 0.02
56 4 0.01
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (54 bp):
GGCACTAAGTGTGCAATTCATGAAATTCATCATATGTTGATGAATAACCGTTTC
Found at i:1014946 original size:54 final size:55
Alignment explanation
Indices: 1014868--1015161 Score: 330
Period size: 54 Copynumber: 5.4 Consensus size: 55
1014858 ACAATTCACA
*
1014868 AAATTCATTATATGTTGATGAATAACCATTTCGGCACTAAGTGTGCAAAGT-ACG
1 AAATTCATCATATGTTGATGAATAACCATTTCGGCACTAAGTGTGCAAAGTAACG
* * * * * * *
1014922 GAATTCATCATATATTAATAAATAATCATTTCGGCACTAAGTATGC-AATTAACG
1 AAATTCATCATATGTTGATGAATAACCATTTCGGCACTAAGTGTGCAAAGTAACG
* * *
1014976 AAATTCATTATATGTTGATGAATAACCGTTTTGGCACTAAGTGTGCAAAGT-ACG
1 AAATTCATCATATGTTGATGAATAACCATTTCGGCACTAAGTGTGCAAAGTAACG
* * * * * *
1015030 AAATTAATCATATGTTGATGAATAACCGTTTCGACACTAAGTGTGC-AATTCATG
1 AAATTCATCATATGTTGATGAATAACCATTTCGGCACTAAGTGTGCAAAGTAACG
** * * *
1015084 GGATTCATCATATGTTGATGAATAACCATTTCGACACTAAGTGTGC-AATTCACCG
1 AAATTCATCATATGTTGATGAATAACCATTTCGGCACTAAGTGTGCAAAGT-AACG
*
1015139 -AATTTATCATATGTTGATGAATA
1 AAATTCATCATATGTTGATGAATA
1015162 CCCGGGACAA
Statistics
Matches: 203, Mismatches: 33, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
53 6 0.03
54 193 0.95
55 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (55 bp):
AAATTCATCATATGTTGATGAATAACCATTTCGGCACTAAGTGTGCAAAGTAACG
Found at i:1015124 original size:162 final size:162
Alignment explanation
Indices: 1014868--1015161 Score: 412
Period size: 162 Copynumber: 1.8 Consensus size: 162
1014858 ACAATTCACA
* * *
1014868 AAATTCATTATATGTTGATGAATAACCATTTCGGCACTAAGTGTGCAAAGTACGGAATTCATCAT
1 AAATTAATCATATGTTGATGAATAACCATTTCGACACTAAGTGTGCAAAGTACGGAATTCATCAT
* * *
1014933 ATATTAATAAATAATCATTTCGGCACTAAGTATGCAATT-AACGAAATTCATTATATGTTGATGA
66 ATATTAATAAATAACCATTTCGACACTAAGTATGCAATTCAACG-AATTCATCATATGTTGATGA
1014997 ATAACCGTTTTGGCACTAAGTGTGCAAAGTACG
130 ATAACCGTTTTGGCACTAAGTGTGCAAAGTACG
* * * *
1015030 AAATTAATCATATGTTGATGAATAACCGTTTCGACACTAAGTGTGC-AATTCATGGGATTCATCA
1 AAATTAATCATATGTTGATGAATAACCATTTCGACACTAAGTGTGCAAAGT-ACGGAATTCATCA
* * * * * *
1015094 TATGTTGATGAATAACCATTTCGACACTAAGTGTGCAATTCACCGAATTTATCATATGTTGATGA
65 TATATTAATAAATAACCATTTCGACACTAAGTATGCAATTCAACGAATTCATCATATGTTGATGA
1015159 ATA
130 ATA
1015162 CCCGGGACAA
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
161 3 0.03
162 108 0.95
163 3 0.03
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (162 bp):
AAATTAATCATATGTTGATGAATAACCATTTCGACACTAAGTGTGCAAAGTACGGAATTCATCAT
ATATTAATAAATAACCATTTCGACACTAAGTATGCAATTCAACGAATTCATCATATGTTGATGAA
TAACCGTTTTGGCACTAAGTGTGCAAAGTACG
Found at i:1015148 original size:108 final size:108
Alignment explanation
Indices: 1014859--1015161 Score: 385
Period size: 108 Copynumber: 2.8 Consensus size: 108
1014849 ATTAAGTGTA
* * *
1014859 CAATTCACAAAATTCATTATATGTTGATGAATAACCATTTCGGCACTAAGTGTGCAAAGTACGGA
1 CAATTAACGAAATTCATTATATGTTGATGAATAACCATTTCGGCACTAAGTGTGCAAAGTACCGA
* * * * * *
1014924 ATTCATCATATATTAATAAATAATCATTTCGGCACTAAGTATG
66 ATTAATCATATGTTGATGAATAACCATTTCGACACTAAGTATG
* *
1014967 CAATTAACGAAATTCATTATATGTTGATGAATAACCGTTTTGGCACTAAGTGTGCAAAGTA-CGA
1 CAATTAACGAAATTCATTATATGTTGATGAATAACCATTTCGGCACTAAGTGTGCAAAGTACCG-
* *
1015031 AATTAATCATATGTTGATGAATAACCGTTTCGACACTAAGTGTG
65 AATTAATCATATGTTGATGAATAACCATTTCGACACTAAGTATG
* * ** * * *
1015075 CAATTCATGGGATTCATCATATGTTGATGAATAACCATTTCGACACTAAGTGTGC-AATTCACCG
1 CAATTAACGAAATTCATTATATGTTGATGAATAACCATTTCGGCACTAAGTGTGCAAAGT-ACCG
*
1015139 AATTTATCATATGTTGATGAATA
65 AATTAATCATATGTTGATGAATA
1015162 CCCGGGACAA
Statistics
Matches: 169, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
107 4 0.02
108 163 0.96
109 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (108 bp):
CAATTAACGAAATTCATTATATGTTGATGAATAACCATTTCGGCACTAAGTGTGCAAAGTACCGA
ATTAATCATATGTTGATGAATAACCATTTCGACACTAAGTATG
Found at i:1015554 original size:17 final size:18
Alignment explanation
Indices: 1015522--1015557 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
1015512 GATAAAAGCT
1015522 TTTCATCTCTTTCATTTC
1 TTTCATCTCTTTCATTTC
*
1015540 TTTCTTCTC-TTCATTTC
1 TTTCATCTCTTTCATTTC
1015557 T
1 T
1015558 CCTATCTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTCATCTCTTTCATTTC
Found at i:1020036 original size:176 final size:176
Alignment explanation
Indices: 1019700--1020020 Score: 430
Period size: 176 Copynumber: 1.8 Consensus size: 176
1019690 CATTTTTGAA
* * * ** * * *
1019700 TTCACAACGTAAGATACTTAAATTGAGAGCACATTGATCGTATGGTAGCAACGAGGAACTACCTT
1 TTCACAACGTAAGATACTCAAATTAAGAGCACATTGACCACATAGTAGAAACAAGGAACTACCTT
* **
1019765 CCAATCAAAATTCAAATCACTTTCTTTAAGTCTAGAAGAAGACCCAAGCTTAACTGTAATTTAGC
66 CCAATCAAAATTCAAATCACTATCTTTAAGTCTAGAAGAAGACCCAAGCTTAACTACAATTTAGC
1019830 AACAAGGAACTACTTATCAATCCAGATTTTGGGCAAGGATTCCAAC
131 AACAAGGAACTACTTATCAATCCAGATTTTGGGCAAGGATTCCAAC
*
1019876 TTCACAACG-AAGGATACTCAAATTAATAGCACATTGACCACATAGTAGAAACAAGGAACTACCT
1 TTCACAACGTAA-GATACTCAAATTAAGAGCACATTGACCACATAGTAGAAACAAGGAACTACCT
* * * * * * *
1019940 TCCAGTCAAAATTCAAACTGA-TATCTTTAAGTCTAGAATAAGACCCAAGGTTGACTACGATTTG
65 TCCAATCAAAATTCAAA-TCACTATCTTTAAGTCTAGAAGAAGACCCAAGCTTAACTACAATTTA
*
1020004 GCAACAAGGAATTACTT
129 GCAACAAGGAACTACTT
1020021 TTTAGTTTAG
Statistics
Matches: 123, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
175 2 0.02
176 119 0.97
177 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (176 bp):
TTCACAACGTAAGATACTCAAATTAAGAGCACATTGACCACATAGTAGAAACAAGGAACTACCTT
CCAATCAAAATTCAAATCACTATCTTTAAGTCTAGAAGAAGACCCAAGCTTAACTACAATTTAGC
AACAAGGAACTACTTATCAATCCAGATTTTGGGCAAGGATTCCAAC
Found at i:1020767 original size:27 final size:29
Alignment explanation
Indices: 1020735--1020799 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 29
1020725 TTTATAGTGT
* *
1020735 ATATATATAGTTTTAAAAAAATGTAT-A-
1 ATATATATAGCTTTAAAAAAATATATGAC
* *
1020762 ATATATATAGCTTTGAAAACATATATGAC
1 ATATATATAGCTTTAAAAAAATATATGAC
1020791 ATATATATA
1 ATATATATA
1020800 TAGTTTTGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 22 0.69
28 1 0.03
29 9 0.28
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (29 bp):
ATATATATAGCTTTAAAAAAATATATGAC
Found at i:1020818 original size:52 final size:49
Alignment explanation
Indices: 1020762--1020942 Score: 167
Period size: 52 Copynumber: 3.7 Consensus size: 49
1020752 AAAATGTATA
* *
1020762 ATATATATAGCTTTGAAAACATATATGACATATATATATAGTTTTGAAATGT
1 ATATATATAGTTTTGAAAACATATAT-A-ATATATATAT-GTTTTGAAATAT
** * *
1020814 ATATA-ATTTTTTTTGAAAACATATACAATATATATATGTTTTTCAAAATAT
1 ATATATA-TAGTTTTGAAAACATATATAATATATATATG-TTTT-GAAATAT
*
1020865 ATATAATATAGTTTTGAAAACATATATAATGTATATATGGTTTTG--A-A-
1 ATAT-ATATAGTTTTGAAAACATATATAATATATATAT-GTTTTGAAATAT
* *
1020912 A-ATATATAGTTTTGAAAATATATATAGTATA
1 ATATATATAGTTTTGAAAACATATATAATATA
1020943 ATTTTCAAAG
Statistics
Matches: 109, Mismatches: 14, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
45 25 0.23
46 2 0.02
47 1 0.01
48 1 0.01
49 2 0.02
50 14 0.13
51 11 0.10
52 51 0.47
53 2 0.02
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (49 bp):
ATATATATAGTTTTGAAAACATATATAATATATATATGTTTTGAAATAT
Found at i:1020849 original size:31 final size:29
Alignment explanation
Indices: 1020823--1020919 Score: 80
Period size: 29 Copynumber: 3.6 Consensus size: 29
1020813 TATATAATTT
*
1020823 TTTTTGAAAACATATACAATATATATATG
1 TTTTTCAAAACATATACAATATATATATG
*
1020852 TTTTTC-AAA-ATATA-TATA-ATATA-G
1 TTTTTCAAAACATATACAATATATATATG
* * *
1020876 -TTTTGAAAACATATATAATGTATATATG
1 TTTTTCAAAACATATACAATATATATATG
* * *
1020904 GTTTTGAAAATATATA
1 TTTTTCAAAACATATA
1020920 GTTTTGAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
23 4 0.07
24 4 0.07
25 10 0.18
26 5 0.09
27 10 0.18
28 4 0.07
29 19 0.34
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.43
Consensus pattern (29 bp):
TTTTTCAAAACATATACAATATATATATG
Found at i:1020879 original size:23 final size:23
Alignment explanation
Indices: 1020841--1020894 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
1020831 AACATATACA
*
1020841 ATATAT-ATATGTTTTTCAAAAT
1 ATATATAATATGTTTTTCAAAAC
*
1020863 ATATATAATATAG-TTTTGAAAAC
1 ATATATAATAT-GTTTTTCAAAAC
1020886 ATATATAAT
1 ATATATAAT
1020895 GTATATATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 6 0.21
23 21 0.75
24 1 0.04
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (23 bp):
ATATATAATATGTTTTTCAAAAC
Done.