Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006927.1 Hibiscus syriacus cultivar Beakdansim tig00017771_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: 330415
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
File 1 of 2
Found at i:962 original size:20 final size:20
Alignment explanation
Indices: 909--965 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
899 ACGATACTCA
* **
909 TAGAGTATTGATAATTGAAC
1 TAGAGTATTGATACTACAAC
*
929 TAGAGTATCGATACTACAAC
1 TAGAGTATTGATACTACAAC
949 TAGAGTATTGATACTAC
1 TAGAGTATTGATACTAC
966 CCACTTCGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.32
Consensus pattern (20 bp):
TAGAGTATTGATACTACAAC
Found at i:2118 original size:32 final size:32
Alignment explanation
Indices: 2056--2141 Score: 77
Period size: 32 Copynumber: 2.7 Consensus size: 32
2046 CAACAGTGTT
* * * *
2056 AATATTGCATTCAAATAAAGGATAGTAGAGTC
1 AATATTGCATTCAGATAATGCACAGTAGAGTC
*
2088 AATATTGCATTCAGATAATGCACA-TAAGAGTT
1 AATATTGCATTCAGATAATGCACAGT-AGAGTC
**
2120 AGCA-TGACATTCAGATAATGCA
1 AATATTG-CATTCAGATAATGCA
2142 TAGGAGTGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
31 3 0.07
32 42 0.93
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (32 bp):
AATATTGCATTCAGATAATGCACAGTAGAGTC
Found at i:2153 original size:32 final size:32
Alignment explanation
Indices: 2095--2176 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 32
2085 GTCAATATTG
* * *
2095 CATTCAGATAATGCACATAAGAGTTAGCATGA
1 CATTCAGATAATGCATAGAAGAGTTAGCATCA
* * *
2127 CATTCAGATAATGCATAGGAGTGTTAGTATCA
1 CATTCAGATAATGCATAGAAGAGTTAGCATCA
* *
2159 CCTTTAGATAATGCATAG
1 CATTCAGATAATGCATAG
2177 CAGATACAGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (32 bp):
CATTCAGATAATGCATAGAAGAGTTAGCATCA
Found at i:9246 original size:83 final size:83
Alignment explanation
Indices: 9107--9268 Score: 247
Period size: 83 Copynumber: 2.0 Consensus size: 83
9097 TAGTTTCGAT
* * *
9107 AGAGTTTTACTTCAAGTAAAACTCTTTTAATATTAAAATTTAAACATATAATAATATATTTAAAA
1 AGAGTTTTACTCCAACTAAAACTCTTTTAATATTAAAATTTAAACAGATAATAATATATTTAAAA
9172 TTTAAAATATTAAAATTG
66 TTTAAAATATTAAAATTG
* *
9190 AGAGTTTTACTCCAACTAAATA-TCTTTTAATATCT-AAATTTAAACAGATAATAATATCTTTTA
1 AGAGTTTTACTCCAACTAAA-ACTCTTTTAATAT-TAAAATTTAAACAGATAATAATATATTTAA
9253 AATTTAAAATATTAAA
64 AATTTAAAATATTAAA
9269 CATATATACA
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
83 70 0.97
84 2 0.03
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (83 bp):
AGAGTTTTACTCCAACTAAAACTCTTTTAATATTAAAATTTAAACAGATAATAATATATTTAAAA
TTTAAAATATTAAAATTG
Found at i:9494 original size:99 final size:98
Alignment explanation
Indices: 9379--9576 Score: 317
Period size: 99 Copynumber: 2.0 Consensus size: 98
9369 AACAAATACC
* * *
9379 TTTTTAAATTGACATATTCGAAGAGTAATTATCATACTAATATTCAAGTTAAATAATATCTTTTA
1 TTTTTAAATTGACATATTCAAAGAGTAATTATCATACTAATATTAAAGTTAAATAATATATTTTA
9444 ATTTGTAATA-TATAAAAGTACTCTAAATTTAATA
66 ATTTGTAATATTATAAAA--ACTCTAAATTTAATA
*
9478 TTTTTAAATTGGCATATTCAAAGAGTAATTATCATACTAATATTAAAGTTAAATAATATATTTTA
1 TTTTTAAATTGACATATTCAAAGAGTAATTATCATACTAATATTAAAGTTAAATAATATATTTTA
* *
9543 ATTTGTAATATTTTAAAAACTCTGAATTTAATA
66 ATTTGTAATATTATAAAAACTCTAAATTTAATA
9576 T
1 T
9577 AAATATTAAA
Statistics
Matches: 92, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
98 15 0.16
99 71 0.77
100 6 0.07
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.43
Consensus pattern (98 bp):
TTTTTAAATTGACATATTCAAAGAGTAATTATCATACTAATATTAAAGTTAAATAATATATTTTA
ATTTGTAATATTATAAAAACTCTAAATTTAATA
Found at i:12484 original size:32 final size:33
Alignment explanation
Indices: 12441--12512 Score: 119
Period size: 32 Copynumber: 2.2 Consensus size: 33
12431 ATAACATCAT
*
12441 TTTTGCTCTTTTAACAAATACACATAGCAATAC
1 TTTTGCTCTTTTAACAAAAACACATAGCAATAC
*
12474 TTTT-CTCTTTTAGCAAAAACACATAGCAATAC
1 TTTTGCTCTTTTAACAAAAACACATAGCAATAC
12506 TTTTGCT
1 TTTTGCT
12513 ATCGTCACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 30 0.83
33 6 0.17
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (33 bp):
TTTTGCTCTTTTAACAAAAACACATAGCAATAC
Found at i:13281 original size:2 final size:2
Alignment explanation
Indices: 13274--13306 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13264 TTATAATAGT
13274 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
13307 GTTGAGTTAA
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:16532 original size:20 final size:20
Alignment explanation
Indices: 16495--16533 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16485 AGATTGAGGG
* * *
16495 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
16515 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
16534 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:16760 original size:22 final size:24
Alignment explanation
Indices: 16709--16760 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
16699 GATTCCCCTG
16709 TGGGGGGGAATCGGTTCCCCTTCA
1 TGGGGGGGAATCGGTTCCCCTTCA
**
16733 -AAGGGGGAATCGGTT-CCC-TCA
1 TGGGGGGGAATCGGTTCCCCTTCA
16754 TGGGGGG
1 TGGGGGG
16761 ATCGATTCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.13
22 7 0.30
23 13 0.57
ACGTcount: A:0.15, C:0.21, G:0.42, T:0.21
Consensus pattern (24 bp):
TGGGGGGGAATCGGTTCCCCTTCA
Found at i:24816 original size:18 final size:18
Alignment explanation
Indices: 24793--24833 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
24783 TTTCCTGAAT
24793 GACCACTATGTCCCGAAG
1 GACCACTATGTCCCGAAG
24811 GACCACTATGTCCCGAAG
1 GACCACTATGTCCCGAAG
24829 GACCA
1 GACCA
24834 TTGATAATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.34, G:0.22, T:0.15
Consensus pattern (18 bp):
GACCACTATGTCCCGAAG
Found at i:30068 original size:16 final size:16
Alignment explanation
Indices: 30047--30079 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
30037 CTCTAAAATA
30047 TGGTGCTCCCAAACCC
1 TGGTGCTCCCAAACCC
30063 TGGTGCTCCCAAACCC
1 TGGTGCTCCCAAACCC
30079 T
1 T
30080 TCAACTCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.42, G:0.18, T:0.21
Consensus pattern (16 bp):
TGGTGCTCCCAAACCC
Found at i:31105 original size:18 final size:18
Alignment explanation
Indices: 31082--31116 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31072 ACTGAATATT
*
31082 TGTCCCGAAGGACCACTA
1 TGTCCCGAAAGACCACTA
31100 TGTCCCGAAAGACCACT
1 TGTCCCGAAAGACCACT
31117 GATAATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.34, G:0.20, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAAGACCACTA
Found at i:34257 original size:50 final size:50
Alignment explanation
Indices: 34179--34298 Score: 168
Period size: 50 Copynumber: 2.4 Consensus size: 50
34169 TTTATCTATA
* * *
34179 ATACCTAATGCATAGTGATTTTAGGTATCCTATTATTATTTCTACATATG
1 ATACCTAATGCATAGTAATTTCAGGTATCCTATTATTATATCTACATATG
* * * *
34229 ATACCTGATGTATAGTAATTTCATGTATCCTATTATTATATGTACATATG
1 ATACCTAATGCATAGTAATTTCAGGTATCCTATTATTATATCTACATATG
*
34279 ATACCCAATGCATAGTAATT
1 ATACCTAATGCATAGTAATT
34299 ATAGGTACCA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.42
Consensus pattern (50 bp):
ATACCTAATGCATAGTAATTTCAGGTATCCTATTATTATATCTACATATG
Found at i:34910 original size:34 final size:34
Alignment explanation
Indices: 34872--34986 Score: 101
Period size: 34 Copynumber: 3.4 Consensus size: 34
34862 CTTTAATAAG
* *
34872 ATATCTTCTAATATTTAAATTTAAATAGATAAAA
1 ATATCTTTTAATATTAAAATTTAAATAGATAAAA
*
34906 ATATCTTTTAAT-TTAAAATATTCAAA-AGTATATAA
1 ATATCTTTTAATATTAAAAT-TT-AAATAG-ATAAAA
* * * *
34941 TTAT-TTTTAATATTCAAAGTTAAATAAATAATAA
1 ATATCTTTTAATATTAAAATTTAAATAGATAA-AA
*
34975 ATATATTTTAAT
1 ATATCTTTTAAT
34987 TTGACATATT
Statistics
Matches: 65, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
33 12 0.18
34 30 0.46
35 23 0.35
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (34 bp):
ATATCTTTTAATATTAAAATTTAAATAGATAAAA
Found at i:35006 original size:35 final size:33
Alignment explanation
Indices: 34894--35007 Score: 83
Period size: 35 Copynumber: 3.3 Consensus size: 33
34884 ATTTAAATTT
*
34894 AAATAGATAA-AAATATCTTTTAATTTAAAATATTC
1 AAATA-ATAATAAATAT-TTTTAATTT-ACATATTC
* * *
34929 AAA-AGTATATAATTATTTTTAATATT-CAAAGTT-
1 AAATAATA-ATAAATATTTTTAAT-TTACATA-TTC
34962 AAATAAATAATAAATATATTTTAATTTGACATATTC
1 AAAT-AATAATAAATAT-TTTTAATTT-ACATATTC
34998 AAATAATAAT
1 AAATAATAAT
35008 TATCATACTA
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
33 7 0.11
34 20 0.32
35 28 0.45
36 7 0.11
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (33 bp):
AAATAATAATAAATATTTTTAATTTACATATTC
Found at i:35035 original size:69 final size:68
Alignment explanation
Indices: 34894--35035 Score: 146
Period size: 69 Copynumber: 2.1 Consensus size: 68
34884 ATTTAAATTT
* * **
34894 AAATAGATAAAAATATCTTTTAATTTAAAATATTCAAAAGTATATAATTATTTTTAATATTCAAA
1 AAATAAATAAAAATATATTTTAATTTAAAATATTCAAAAGTATATAATTATTACTAATATTCAAA
***
34959 GTT
66 CAA
* *
34962 AAATAAATAATAAATATATTTTAATTTGACATATTC-AAA-TA-ATAATTATCATACTAATATTC
1 AAATAAATAA-AAATATATTTTAATTTAAAATATTCAAAAGTATATAATTAT--TACTAATATTC
35024 AAACCAA
63 AAA-CAA
35031 AAATA
1 AAATA
35036 TCTTATAATT
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
66 8 0.13
67 2 0.03
68 24 0.39
69 27 0.44
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.39
Consensus pattern (68 bp):
AAATAAATAAAAATATATTTTAATTTAAAATATTCAAAAGTATATAATTATTACTAATATTCAAA
CAA
Found at i:35364 original size:14 final size:13
Alignment explanation
Indices: 35348--35386 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
35338 GTGTAAAAGT
35348 TTTTTAAAAAATA
1 TTTTTAAAAAATA
*
35361 TTTTCAGAAAAATA
1 TTTTTA-AAAAATA
35375 CTTTTTAAAAAA
1 -TTTTTAAAAAA
35387 CGTTTTACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 5 0.23
14 12 0.55
15 5 0.23
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (13 bp):
TTTTTAAAAAATA
Found at i:35534 original size:28 final size:28
Alignment explanation
Indices: 35503--35556 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
35493 ATCATAAAAC
*
35503 ATAATATTA-TTATTTTTAAAATATTAAT
1 ATAAT-TTATTTATTATTAAAATATTAAT
*
35531 ATAATTTATTTATTATTAAACTATTA
1 ATAATTTATTTATTATTAAAATATTA
35557 TTTTTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (28 bp):
ATAATTTATTTATTATTAAAATATTAAT
Found at i:35542 original size:22 final size:21
Alignment explanation
Indices: 35481--35542 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
35471 AATAAAATAA
* *
35481 ATAATATTATTTATCATAAAAC
1 ATAATATTATTTAT-TTAAAAT
*
35503 ATAATATTATTATTTTTAAAAT
1 ATAATATTATT-TATTTAAAAT
*
35525 ATTAATATAATTTATTTA
1 A-TAATATTATTTATTTA
35543 TTATTAAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 22 0.67
23 11 0.33
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAATATTATTTATTTAAAAT
Found at i:35688 original size:23 final size:23
Alignment explanation
Indices: 35659--35703 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
35649 AGTGTTATAT
35659 TATATTTAAAAAATATTAATTAG
1 TATATTTAAAAAATATTAATTAG
* * *
35682 TATATTTTAAATATATTTATTA
1 TATATTTAAAAAATATTAATTA
35704 AAATATTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TATATTTAAAAAATATTAATTAG
Found at i:35709 original size:23 final size:23
Alignment explanation
Indices: 35660--35710 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
35650 GTGTTATATT
**
35660 ATATTTAAAAAATATTAATTAGT
1 ATATTTAAAAAATATTAATTAAA
* * *
35683 ATATTTTAAATATATTTATTAAA
1 ATATTTAAAAAATATTAATTAAA
35706 ATATT
1 ATATT
35711 ATTATATTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
ATATTTAAAAAATATTAATTAAA
Found at i:35732 original size:34 final size:35
Alignment explanation
Indices: 35651--35732 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 35
35641 AGAGTAATAG
35651 TGTTATATTATATTTAAAAAATATTAATTAGTATA
1 TGTTATATTATATTTAAAAAATATTAATTAGTATA
* * *
35686 TTTTA-AATATATTTATTAAAATATT-ATTA-TAT-
1 TGTTATATTATATTTA-AAAAATATTAATTAGTATA
35718 TGTTATATTAATATT
1 TGTTATATT-ATATT
35733 AAATTTATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
32 4 0.10
33 5 0.13
34 18 0.46
35 12 0.31
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (35 bp):
TGTTATATTATATTTAAAAAATATTAATTAGTATA
Found at i:35888 original size:31 final size:31
Alignment explanation
Indices: 35825--35935 Score: 93
Period size: 31 Copynumber: 3.6 Consensus size: 31
35815 ATAATTTTTA
* * * *
35825 TATATTATT-AAAATAAAAATATAATA-TCT
1 TATAATATTAAAAATATAAATATTATATTAT
* * * *
35854 TATATTATT-ATAATATAATTGATTATTTTAT
1 TATAATATTAAAAATATAAAT-ATTATATTAT
35885 TATAATATTAAAAATATAAATATTATATTAT
1 TATAATATTAAAAATATAAATATTATATTAT
*
35916 TAGAAATATTAAAAAATATA
1 TA-TAATATT-AAAAATATA
35936 TTTCAAATAT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
29 17 0.26
30 4 0.06
31 21 0.32
32 15 0.23
33 9 0.14
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (31 bp):
TATAATATTAAAAATATAAATATTATATTAT
Found at i:35924 original size:32 final size:33
Alignment explanation
Indices: 35865--35935 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 33
35855 ATATTATTAT
* * *
35865 AATATAATTGATTATTTTATTATAATATT-AAA
1 AATATAAATGATTATATTATTAAAATATTAAAA
35897 AATATAAAT-ATTATATTATTAGAAATATTAAAA
1 AATATAAATGATTATATTATTA-AAATATTAAAA
35930 AATATA
1 AATATA
35936 TTTCAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 11 0.32
32 14 0.41
33 9 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (33 bp):
AATATAAATGATTATATTATTAAAATATTAAAA
Found at i:48617 original size:20 final size:20
Alignment explanation
Indices: 48594--48635 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
48584 AACAGGTGGG
48594 TATCGATACCAAGGGTTCAA
1 TATCGATACCAAGGGTTCAA
*
48614 TATCGATACTAAGGGTTCAA
1 TATCGATACCAAGGGTTCAA
48634 TA
1 TA
48636 CCATTATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (20 bp):
TATCGATACCAAGGGTTCAA
Found at i:55985 original size:2 final size:2
Alignment explanation
Indices: 55978--56003 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
55968 ACTCTATCTC
55978 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
56004 TACTTTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60321 original size:2 final size:2
Alignment explanation
Indices: 60294--60354 Score: 79
Period size: 2 Copynumber: 30.0 Consensus size: 2
60284 TTAAAAGTAC
* *
60294 AT AT AGT AT AT -T AA AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60336 AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT -AT AT
60355 TAGATATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
1 1 0.02
2 47 0.90
3 4 0.08
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:63930 original size:3 final size:3
Alignment explanation
Indices: 63917--63958 Score: 57
Period size: 3 Copynumber: 13.3 Consensus size: 3
63907 ATATTATAAA
*
63917 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAA TATT TAT TAT T
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT T
63959 TTACATTTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 30 0.86
4 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:77231 original size:55 final size:55
Alignment explanation
Indices: 77165--77625 Score: 387
Period size: 55 Copynumber: 8.6 Consensus size: 55
77155 GTGAAGCAAA
* *
77165 TGAAGATTGTTCGAGTCTTATACTCTCTGAACAAATAGAGAGCAGACACGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
* * * * * * *
77220 TGAAGATTGTTCAAGTCTCATACTCTCTTAAGCAATAGGGAGCAGACATGAATAT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
* * *
77275 TGAAAATTGTTCGAGTCTAATACTCTCTGAAGAAATAGGGAGCAGACACGAATGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
* * * *
77330 TGAAAATTATTCGAGTCTTATACTCTCTGAAGGAATAGGGGGCAGACAC-ATTTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA-TTGT
* * * *
77385 TGAAGA----TCGAGTCCTATACTTTCTGAAGGAATAGGGAG-AGGACACGTTTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCA-GACACGATTGT
* * ** * * *
77436 TGAAGGTTTTTTAAGTCATATACTCTCTGAAGAAATAGGGAGCAAACACGTTTGAT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG-T
* * * *
77492 TGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATGGGGAGCGGACAC-ATTTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA-TTGT
* * * * * ** *
77543 TGAAGA-T-TT--AGTCCTATACTCTCTGAAGGAATAGAGAACAAACTTG-TTTT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
* * *
77593 ATGAAGATTGTTTGAGTTTTATACTCCCTGAAG
1 -TGAAGATTGTTCGAGTCTTATACTCTCTGAAG
77626 CAAAAAAGAG
Statistics
Matches: 337, Mismatches: 52, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
50 4 0.01
51 85 0.25
52 37 0.11
53 4 0.01
54 1 0.00
55 199 0.59
56 7 0.02
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (55 bp):
TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
Found at i:77598 original size:51 final size:51
Alignment explanation
Indices: 77342--77602 Score: 201
Period size: 51 Copynumber: 5.0 Consensus size: 51
77332 AAAATTATTC
* * * *
77342 GAGTCTTATACTCTCTGAAGGAATAGGGGGCAGACACAT-TTGT-TGAAGATC
1 GAGTCCTATACTCTCTGAAGGAATAGGGAGCA-A-ACATGTTTTATGAAGATT
* * * *
77393 GAGTCCTATACTTTCTGAAGGAATAGGGAG-AGGACACGTTTGT-TGAAGGTTTTTT
1 GAGTCCTATACTCTCTGAAGGAATAGGGAGCA-AACATGTTT-TATGAA-G---ATT
* * * * *
77448 AAGTCATATACTCTCTGAAGAAATAGGGAGCAAACACGTTTGATTGAAGATT
1 GAGTCCTATACTCTCTGAAGGAATAGGGAGCAAACATGTTTTA-TGAAGATT
* * *
77500 GAGTCCTATACTCTCTGAAGGAATGGGGAGCGGACACAT-TTGT-TGAAGATT
1 GAGTCCTATACTCTCTGAAGGAATAGGGAGC--AAACATGTTTTATGAAGATT
* * * *
77551 TAGTCCTATACTCTCTGAAGGAATAGAGAACAAACTTGTTTTATGAAGATT
1 GAGTCCTATACTCTCTGAAGGAATAGGGAGCAAACATGTTTTATGAAGATT
77602 G
1 G
77603 TTTGAGTTTT
Statistics
Matches: 166, Mismatches: 31, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
49 7 0.04
50 7 0.04
51 75 0.45
52 30 0.18
53 2 0.01
54 4 0.02
55 36 0.22
56 5 0.03
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (51 bp):
GAGTCCTATACTCTCTGAAGGAATAGGGAGCAAACATGTTTTATGAAGATT
Found at i:77598 original size:158 final size:159
Alignment explanation
Indices: 77294--77625 Score: 397
Period size: 158 Copynumber: 2.1 Consensus size: 159
77284 TTCGAGTCTA
* * *
77294 ATACTCTCTGAAGAAATAGGGAGCAGACACGAATGTTGAAAATTATTCGAGTCTTATACTCTCTG
1 ATACTCTCTGAAGAAATAGGGAGCAAACACGAATGTTG-AAATGATTCGAGTCCTATACTCTCTG
*
77359 AAGGAATAGGGGGCAGACACATTTGTTGAAGATCGAGTCCTATACTTTCTGAAGGAATAGGGAGA
65 AAGGAATAGGGGGCAGACACATTTGTTGAAGATCGAGTCCTATACTCTCTGAAGGAATA-GGAGA
** * * *
77424 GGACACGTTTGTTGAAGGTTTTTTAAGTCAT
129 ACAAACGTTTGTTGAAGATTGTTTAAGTCAT
**
77455 ATACTCTCTGAAGAAATAGGGAGCAAACACGTTTGATTG-AA-GATT-GAGTCCTATACTCTCTG
1 ATACTCTCTGAAGAAATAGGGAGCAAACACGAATG-TTGAAATGATTCGAGTCCTATACTCTCTG
* **
77517 AAGGAAT-GGGGAGCGGACACATTTGTTGAAGATTTAGTCCTATACTCTCTGAAGGAATA-GAGA
65 AAGGAATAGGGG-GCAGACACATTTGTTGAAGATCGAGTCCTATACTCTCTGAAGGAATAGGAGA
* **
77580 ACAAACTTGTTT-TATGAAGATTGTTTGAGTTTT
129 ACAAAC--GTTTGT-TGAAGATTGTTTAAGTCAT
*
77613 ATACTCCCTGAAG
1 ATACTCTCTGAAG
77626 CAAAAAAGAG
Statistics
Matches: 148, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
156 7 0.05
157 5 0.03
158 96 0.65
159 3 0.02
160 2 0.01
161 32 0.22
162 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (159 bp):
ATACTCTCTGAAGAAATAGGGAGCAAACACGAATGTTGAAATGATTCGAGTCCTATACTCTCTGA
AGGAATAGGGGGCAGACACATTTGTTGAAGATCGAGTCCTATACTCTCTGAAGGAATAGGAGAAC
AAACGTTTGTTGAAGATTGTTTAAGTCAT
Found at i:77846 original size:3 final size:3
Alignment explanation
Indices: 77824--77870 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
77814 AAATATATAA
* *
77824 TAT TAAT TA- TAT TGT TAT TAT TAT TAT TAT TAT TAA TATT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
77870 T
1 T
77871 TTACATTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.81
4 5 0.14
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:79601 original size:21 final size:22
Alignment explanation
Indices: 79560--79610 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 22
79550 ATGTAATTGA
79560 GTATATAACCCAAAGAAAATAT
1 GTATATAACCCAAAGAAAATAT
79582 GTATATAACCCAAA-AAAATAT
1 GTATATAACCCAAAGAAAATAT
79603 GTATATAA
1 GTATATAA
79611 TTGTTCAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (22 bp):
GTATATAACCCAAAGAAAATAT
Found at i:88365 original size:166 final size:166
Alignment explanation
Indices: 88084--88415 Score: 610
Period size: 166 Copynumber: 2.0 Consensus size: 166
88074 CACCACTGTC
88084 GGCCACCGTCGACCGCTATAGATGGTAGTCTTTCGGTCCCAAATCTCATGGGTCAATTTGTCTCG
1 GGCCACCGTCGACCGCTATAGATGGTAGTCTTTCGGTCCCAAATCTCATGGGTCAATTTGTCTCG
88149 ACCCCTTAAGTTCAAATCTAGTGATTATTTCACAAGAAAATGTCATAAAACCCATGAATCATGAC
66 ACCCCTTAAGTTCAAATCTAGTGATTATTTCACAAGAAAATGTCATAAAACCCATGAATCATGAC
*
88214 GAAAACGTTTTGGCTTCCTCACTTTCAATCTCTAAT
131 GAAAACATTTTGGCTTCCTCACTTTCAATCTCTAAT
* * * *
88250 GGCCACTGTCGACCGCTGTAGATGGTGGTCTTTCGGTCCCAAATCTCATTGGTCAATTTGTCTCG
1 GGCCACCGTCGACCGCTATAGATGGTAGTCTTTCGGTCCCAAATCTCATGGGTCAATTTGTCTCG
*
88315 ACCCCTTAAGTTCAAATCTAGTGATTGTTTCACAAGAAAATGTCATAAAACCCATGAATCATGAC
66 ACCCCTTAAGTTCAAATCTAGTGATTATTTCACAAGAAAATGTCATAAAACCCATGAATCATGAC
88380 GAAAACATTTTGGCTTCCTCACTTTCAATCTCTAAT
131 GAAAACATTTTGGCTTCCTCACTTTCAATCTCTAAT
88416 TCGTGAACTT
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
166 160 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (166 bp):
GGCCACCGTCGACCGCTATAGATGGTAGTCTTTCGGTCCCAAATCTCATGGGTCAATTTGTCTCG
ACCCCTTAAGTTCAAATCTAGTGATTATTTCACAAGAAAATGTCATAAAACCCATGAATCATGAC
GAAAACATTTTGGCTTCCTCACTTTCAATCTCTAAT
Found at i:92547 original size:181 final size:180
Alignment explanation
Indices: 92209--92682 Score: 682
Period size: 180 Copynumber: 2.6 Consensus size: 180
92199 TCGATCCAAA
* * * *
92209 TTAAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTAT-AGAAATG
1 TTAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAATCGGTATCA-AAATG
* * * * *
92273 ATAAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACAC
65 ATAAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACAC
* *
92338 TTCGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTT
130 TTCGTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATAC-T
* *
92390 TTAAAAAGTGTATCGATCCAAAACGATATACCATGTAAAAATATGATAAAATCGGTATCAAAATG
1 TTAAAAA-TGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAATCGGTATCAAAATG
*
92455 ATAAAACCGGTAAAACGTTACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACAC
65 ATAAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACAC
* ** *
92519 TTTGTGAATTTAAAAGAGAAACAGTTTTAGCGCCTATAATGTGTCGATACT
130 TTCGTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACT
** *
92570 TTAAAAAAAATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAATCGGTATCAAAATG
1 TT-AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAATCGGTATCAAAATG
* * *
92635 ATAAAACCGGTAAAATGATACCAGATATATTGAAAGTGTCGATACTTT
65 ATAAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
92683 CGTAAGTACG
Statistics
Matches: 264, Mismatches: 26, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
180 99 0.38
181 72 0.27
182 92 0.35
183 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (180 bp):
TTAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAATCGGTATCAAAATGA
TAAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACT
TCGTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACT
Found at i:92626 original size:20 final size:19
Alignment explanation
Indices: 92603--92649 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
92593 CGATATAACA
*
92603 GGTAAAAATATGATAAAATC
1 GGTAAAAA-ATGATAAAACC
*
92623 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
92643 GGTAAAA
1 GGTAAAA
92650 TGATACCAGA
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:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:94896 original size:21 final size:21
Alignment explanation
Indices: 94872--94915 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
94862 AAGACAATCA
94872 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
94893 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
94914 AG
1 AG
94916 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:94991 original size:33 final size:33
Alignment explanation
Indices: 94949--95014 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
94939 AAATAGATGG
*
94949 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
94982 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
95015 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:96823 original size:19 final size:19
Alignment explanation
Indices: 96799--96847 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
96789 AATGTAGGGT
96799 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
96818 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
96837 TATTTTTGTAT
1 TAATTTTGTAT
96848 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:97534 original size:199 final size:199
Alignment explanation
Indices: 96966--98137 Score: 2006
Period size: 199 Copynumber: 5.9 Consensus size: 199
96956 CAATATGGCC
*
96966 AACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
97031 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
97096 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
97161 TGGAA
195 TGGAA
*
97166 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAGAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
* *
97231 CCAAGAGTATAATGTAATATATAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
97296 GAATATGTCTAAATAATGTGACGACA-CTCTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGA
130 GAATATGTCTAAATAATGTGTCGACACCT-TTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGA
97360 ATGGAA
194 ATGGAA
* * * *
97366 AATAAGGTGCAACCATAAACTGTCGATCCATATATAAAAAGTGGCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
97431 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* ** *
97496 AATATGTCTAAATAATATGTCGACATTTTTTTAGTTTGTGTCGATATTTTTGGTCCATAATGAAT
131 AATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
97561 GGAA
196 GGAA
*
97565 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAAGATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
97630 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* * ****
97695 AATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATTTTTGGTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
97760 GGAA
196 GGAA
97764 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
* *
97829 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTATACTGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* * * ****
97894 AATATGTCTAAATAATGTGTTGACACCATTTAAAAAAGTGTCGATATTTTTGGTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
97959 GGAA
196 GGAA
* *
97963 AACAGTGTGCAACCATAAGGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
98028 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATATCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
98093 AATATGTCTAAATAATGTGTCGACA-CTTTTTAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATA
98138 CTAATTTAAA
Statistics
Matches: 922, Mismatches: 48, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
198 14 0.02
199 659 0.71
200 249 0.27
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (199 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
GGAA
Found at i:99610 original size:6 final size:6
Alignment explanation
Indices: 99599--99728 Score: 89
Period size: 6 Copynumber: 21.7 Consensus size: 6
99589 CAAGCGGTCA
* * * * *
99599 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGATG ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * * * * *
99647 CTGACG ATAAAG ATGACG ATGATG ATGACG ATGAAG CTGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * * *
99695 ATGATG ACGATG ATGATG ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
99729 TCCAAACAAG
Statistics
Matches: 99, Mismatches: 25, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 99 1.00
ACGTcount: A:0.38, C:0.08, G:0.32, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:99728 original size:36 final size:36
Alignment explanation
Indices: 99599--99716 Score: 191
Period size: 36 Copynumber: 3.3 Consensus size: 36
99589 CAAGCGGTCA
*
99599 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
1 ATGACGATGAAGCTGACGATGAAGATGACGATGATG
*
99635 ATGACGATGAAGCTGACGATAAAGATGACGATGATG
1 ATGACGATGAAGCTGACGATGAAGATGACGATGATG
* *
99671 ATGACGATGAAGCTGACGATGAAGATGATGACGATG
1 ATGACGATGAAGCTGACGATGAAGATGACGATGATG
*
99707 ATGATGATGA
1 ATGACGATGA
99717 TGATGATGAT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 76 1.00
ACGTcount: A:0.38, C:0.09, G:0.32, T:0.20
Consensus pattern (36 bp):
ATGACGATGAAGCTGACGATGAAGATGACGATGATG
Found at i:99729 original size:6 final size:6
Alignment explanation
Indices: 99616--99729 Score: 93
Period size: 6 Copynumber: 19.0 Consensus size: 6
99606 TGAAGCTGAC
* * * * * * * * *
99616 GATGAA GATGAC GATGAT GATGAC GATGAA GCTGAC GATAAA GATGAC
1 GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT
* * * * * *
99664 GATGAT GATGAC GATGAA GCTGAC GATGAA GATGAT GACGAT GATGAT
1 GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT
99712 GATGAT GATGAT GATGAT
1 GATGAT GATGAT GATGAT
99730 CCAAACAAGT
Statistics
Matches: 87, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 87 1.00
ACGTcount: A:0.37, C:0.08, G:0.32, T:0.23
Consensus pattern (6 bp):
GATGAT
Found at i:99729 original size:12 final size:12
Alignment explanation
Indices: 99599--99728 Score: 143
Period size: 12 Copynumber: 10.8 Consensus size: 12
99589 CAAGCGGTCA
*
99599 ATGAAGATGAAG
1 ATGACGATGAAG
*
99611 CTGACGATGAAG
1 ATGACGATGAAG
*
99623 ATGACGATGATG
1 ATGACGATGAAG
99635 ATGACGATGAAG
1 ATGACGATGAAG
* *
99647 CTGACGATAAAG
1 ATGACGATGAAG
*
99659 ATGACGATGATG
1 ATGACGATGAAG
99671 ATGACGATGAAG
1 ATGACGATGAAG
*
99683 CTGACGATGAAG
1 ATGACGATGAAG
* * *
99695 ATGATGACGATG
1 ATGACGATGAAG
* *
99707 ATGATGATGATG
1 ATGACGATGAAG
*
99719 ATGATGATGA
1 ATGACGATGA
99729 TCCAAACAAG
Statistics
Matches: 101, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 101 1.00
ACGTcount: A:0.38, C:0.08, G:0.32, T:0.22
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:100946 original size:16 final size:16
Alignment explanation
Indices: 100925--100958 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
100915 TATCCACAAC
*
100925 AAAGTGTCGATTTAAA
1 AAAGTGTCGATTGAAA
100941 AAAGTGTCGATTGAAA
1 AAAGTGTCGATTGAAA
100957 AA
1 AA
100959 TGTAATAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (16 bp):
AAAGTGTCGATTGAAA
Found at i:101351 original size:23 final size:23
Alignment explanation
Indices: 101320--101392 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
101310 ATAGGTAAAA
*
101320 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
101343 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
101366 ATATAATGTAATAAGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
101389 ATAT
1 ATAT
101393 TGTAAAGTAT
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:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:101666 original size:22 final size:22
Alignment explanation
Indices: 101641--101685 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
101631 TTGTTGGTGG
*
101641 AAAACATGAAACAT-ACTTAAA
1 AAAAAATGAAACATAACTTAAA
* *
101662 AAAAATTGAAACATAACTTTAA
1 AAAAAATGAAACATAACTTAAA
101684 AA
1 AA
101686 GAAGTATCGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.62, C:0.11, G:0.04, T:0.22
Consensus pattern (22 bp):
AAAAAATGAAACATAACTTAAA
Found at i:101772 original size:23 final size:23
Alignment explanation
Indices: 101741--101813 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
101731 ATAGGTAAAA
*
101741 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
101764 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
101787 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
101810 ATAT
1 ATAT
101814 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:102203 original size:23 final size:23
Alignment explanation
Indices: 102172--102244 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
102162 ATAGGTAAAA
*
102172 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
102195 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
102218 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
102241 ATAT
1 ATAT
102245 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:102287 original size:431 final size:422
Alignment explanation
Indices: 101112--102578 Score: 2557
Period size: 431 Copynumber: 3.4 Consensus size: 422
101102 CTTTGGTTAA
* *
101112 TATTGTTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
101176 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA-TTAAAAAAAATTG
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACA-TACTTAAAAAAAATTG
**
101240 AAACATAAATTACATAACTTTAAAAGAAGTATCGATAATTTTTATAAAAAGTATGGACACTTTCA
130 -------AA--ACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCA
101305 ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATAT
186 ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATAT
* *
101370 AATGTAATAAGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATA-TTTTT
251 AATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTT
101434 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAG-AA
316 TT-ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAA
* *
101498 TTATAAGCGTCTAATAATTTCTTTTTTACGTTACGATATATAT
380 TTATAGGCGTCTAATGATTTCTTTTTTACGTTACGATATATAT
101541 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
101606 TGCAAATGAAATTATTAAATTAATATTGTTGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
101671 AACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGG
131 AACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGG
101736 TAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAG
196 TAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAG
101801 GTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTTACTGTGGA
261 GTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTTACTGTGGA
101866 AAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTC
326 AAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTC
101931 TAATGATTTCTTTTTTACGTTACGATATATAT
391 TAATGATTTCTTTTTTACGTTACGATATATAT
*
101963 TATTATTAAATTAAAAATTCTATATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
102028 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
102093 AACATAAATTACATAAGTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
131 AACAT--A--AC-----TTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
102158 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
187 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
102223 ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTT
252 ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTT
*
102288 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
317 TACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
* *
102353 ATAGGCGTCTAATGATTTATTTTTTACTTTACGATATATAT
382 ATAGGCGTCTAATGATTTCTTTTTTACGTTACGATATATAT
* *
102394 TATTATTAAATTAAAATTTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATATTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
* *
102459 TGGAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACATACTT-AAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
102523 AACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
131 AACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
102579 CATATTATAA
Statistics
Matches: 1005, Mismatches: 20, Indels: 34
0.95 0.02 0.03
Matches are distributed among these distances:
421 281 0.28
422 183 0.18
423 2 0.00
424 1 0.00
426 4 0.00
428 1 0.00
429 13 0.01
430 126 0.13
431 394 0.39
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (422 bp):
TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
AACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGG
TAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAG
GTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTTACTGTGGA
AAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTC
TAATGATTTCTTTTTTACGTTACGATATATAT
Found at i:102518 original size:21 final size:21
Alignment explanation
Indices: 102493--102537 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
102483 ATTGTAGGTG
*
102493 AAAAACATGAAACAT-ACTTA
1 AAAAAAATGAAACATAACTTA
* *
102513 AAAAAATTGAAACATAACTTT
1 AAAAAAATGAAACATAACTTA
102534 AAAA
1 AAAA
102538 GAAGTATCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.62, C:0.11, G:0.04, T:0.22
Consensus pattern (21 bp):
AAAAAAATGAAACATAACTTA
Found at i:105233 original size:25 final size:25
Alignment explanation
Indices: 105205--105269 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
105195 TTATCATTAA
105205 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
105230 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
105255 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
105270 TCTTTTGAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:105586 original size:23 final size:23
Alignment explanation
Indices: 105555--105627 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
105545 ATAGGTAAAA
*
105555 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
105578 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
105601 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
105624 ATAT
1 ATAT
105628 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:106015 original size:23 final size:23
Alignment explanation
Indices: 105984--106056 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
105974 ATAGGTAAAA
*
105984 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
106007 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
106030 GTATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
106053 ATAT
1 ATAT
106057 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:106446 original size:23 final size:23
Alignment explanation
Indices: 106415--106487 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
106405 ATAGGTAAAA
*
106415 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
106438 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
106461 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
106484 ATAT
1 ATAT
106488 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:106629 original size:430 final size:430
Alignment explanation
Indices: 105269--106652 Score: 2607
Period size: 429 Copynumber: 3.2 Consensus size: 430
105259 AGGTATATAC
* *
105269 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGACATCTAATGATTT-TTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTAC
105333 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
66 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
105398 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA
131 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA
105463 TTAAAAAAATTGAAACATAAATTACATAACTTTAAACA-AAGTATCGATCCTTTTTATAAAAAGT
196 TTAAAAAAATTGAAACATAAATTACATAACTTTAAA-AGAAGTATCGATCCTTTTTATAAAAAGT
105527 ATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAG
260 ATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAG
105592 GTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGT
325 GTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGT
105657 GTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
390 GTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
*
105698 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAAGCGTCTAATGATTTCTTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTAC
105763 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
66 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
*
105828 CAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA
131 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA
105893 TTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTAT-AAAAGTA
196 TTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTA
105957 TGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGG
261 TGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGG
*
106022 TATCGTTTGTATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTG
326 TATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTG
*
106087 TCTATACTTTTTTTACTGTGGAAAACATTAATTTAAGGTT
391 TCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
* *
106127 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATATGCTTCTAATGATTTCTTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTAC
*
106192 GTTACGATATATATTATTATTAAATTAAAAATTCTATATATTATTTTATAAAATATCAAAACAAT
66 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
*
106257 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACTTGAAACA-TA
131 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA
106321 CTTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAG
196 -TT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAG
106386 TATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATA
259 TATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATA
106451 GGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAG
324 GGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAG
106516 TGTCTATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTT
389 TGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
*
106557 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTAC
106622 GTTACGATATATATTATTATTAAATTAAAAA
66 GTTACGATATATATTATTATTAAATTAAAAA
106653 CAATAGACAT
Statistics
Matches: 934, Mismatches: 16, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
428 2 0.00
429 418 0.45
430 371 0.40
431 143 0.15
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (430 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTAC
GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA
TTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTA
TGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGG
TATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTG
TCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
Found at i:107815 original size:57 final size:57
Alignment explanation
Indices: 107469--107811 Score: 506
Period size: 57 Copynumber: 6.0 Consensus size: 57
107459 CATAACCATA
* * * ** * *
107469 CAACCCCGTCACGAATAGTAAGGCCCTGAGCACAAAGCTAAGGAATCTGCAAGTAAT
1 CAACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
* * *
107526 CAACCCCGTCACAAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAATAAT
1 CAACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
* *
107583 CAACCCCGTCACGAACAGTAAGGCTCTCAACACAAAGCCGAGGAACCTGAAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
* *
107640 CAACCCCATCACGAACAGTAAGGCTCTCAGTACAAAGCCGAGGAACCTGCAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
* * *
107697 CAACCTCGTCACGAACAGTAAGGCTCTCAGCATAAAGCTGAGGAACCTGCAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
** *
107754 CTTCCCCGTCACGAACAATAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
107811 C
1 C
107812 TTCCTCCAAC
Statistics
Matches: 258, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 258 1.00
ACGTcount: A:0.35, C:0.29, G:0.20, T:0.16
Consensus pattern (57 bp):
CAACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
Found at i:109179 original size:21 final size:21
Alignment explanation
Indices: 109153--109197 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
109143 GATTTCTGGG
* *
109153 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
109174 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
109195 CAA
1 CAA
109198 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:110840 original size:149 final size:149
Alignment explanation
Indices: 110662--110976 Score: 569
Period size: 149 Copynumber: 2.1 Consensus size: 149
110652 GAGTCGAGGG
* *
110662 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
110727 ACTTGATCCCTAGTATATGTATATGATTTTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
*
110792 TATGGCACTACGGTGCAAT
131 TATGGCACTACAGTGCAAT
*
110811 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
110876 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
110941 TATGGCACTACAGTGCAAT
131 TATGGCACTACAGTGCAAT
110960 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
110977 TGCAATTATA
Statistics
Matches: 160, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
148 1 0.01
149 159 0.99
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTACAGTGCAAT
Found at i:110979 original size:23 final size:23
Alignment explanation
Indices: 110944--110988 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
110934 ATTATTATAT
*
110944 GGCACTACAGTGCAATTCTACGC
1 GGCACTACAGTGCAATTATACGC
* *
110967 GGCACTTCGGTGCAATTATACG
1 GGCACTACAGTGCAATTATACG
110989 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (23 bp):
GGCACTACAGTGCAATTATACGC
Found at i:116023 original size:24 final size:25
Alignment explanation
Indices: 115977--116023 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
115967 CTAATTATTG
***
115977 AAAAAAAAAACAAAGGTTGTTTTTC
1 AAAAAAAAAACAAAGGAAATTTTTC
116002 AAAAAAAAAA-AAAGGAAATTTT
1 AAAAAAAAAACAAAGGAAATTTT
116024 CCTGAGTTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.62, C:0.04, G:0.11, T:0.23
Consensus pattern (25 bp):
AAAAAAAAAACAAAGGAAATTTTTC
Found at i:118239 original size:20 final size:18
Alignment explanation
Indices: 118199--118239 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
118189 TTGATCATTA
*
118199 TTTCAATAAAATTTTCTC
1 TTTCAATAAAATTTACTC
118217 TTTCTAATAAAATTTAACTC
1 TTTC-AATAAAATTT-ACTC
118237 TTT
1 TTT
118240 TCTCTTGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 10 0.50
20 6 0.30
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTCAATAAAATTTACTC
Found at i:126708 original size:16 final size:16
Alignment explanation
Indices: 126687--126719 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
126677 ATCATGATCA
126687 ATCTAATATTCTAATG
1 ATCTAATATTCTAATG
126703 ATCTAATATTCTAATG
1 ATCTAATATTCTAATG
126719 A
1 A
126720 GAGCAAGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (16 bp):
ATCTAATATTCTAATG
Found at i:127953 original size:16 final size:16
Alignment explanation
Indices: 127932--127963 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
127922 ACTATTCACA
*
127932 TGAATAGTAAATTTTG
1 TGAATAGTAAAATTTG
127948 TGAATAGTAAAATTTG
1 TGAATAGTAAAATTTG
127964 GTTGGCGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (16 bp):
TGAATAGTAAAATTTG
Found at i:147160 original size:15 final size:15
Alignment explanation
Indices: 147140--147170 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
147130 CACAATCTCT
*
147140 CTCTCGTTATTTAAA
1 CTCTCGTTATCTAAA
147155 CTCTCGTTATCTAAA
1 CTCTCGTTATCTAAA
147170 C
1 C
147171 CAAAGGTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.42
Consensus pattern (15 bp):
CTCTCGTTATCTAAA
Found at i:149452 original size:42 final size:42
Alignment explanation
Indices: 149393--149573 Score: 263
Period size: 42 Copynumber: 4.3 Consensus size: 42
149383 TTATGGATAG
* *
149393 CCCGAAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGA
1 CCCGAAGGACTTAATCATCATGCTCGGAAGACTTACTGATGA
* *
149435 CCCGAAGGATTTAATCATCATGCTCGGAAGACTTACTGATGG
1 CCCGAAGGACTTAATCATCATGCTCGGAAGACTTACTGATGA
* * *
149477 CCCGGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGA
1 CCCGAAGGACTTAATCATCATGCTCGGAAGACTTACTGATGA
* *
149519 CCCGAAGGATTTAATCATCATGCTCGGAAGACTTACTGATGG
1 CCCGAAGGACTTAATCATCATGCTCGGAAGACTTACTGATGA
* *
149561 CCCGGAGTACTTA
1 CCCGAAGGACTTA
149574 TAAATTGGGA
Statistics
Matches: 122, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 122 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (42 bp):
CCCGAAGGACTTAATCATCATGCTCGGAAGACTTACTGATGA
Found at i:149533 original size:84 final size:84
Alignment explanation
Indices: 149392--149573 Score: 346
Period size: 84 Copynumber: 2.2 Consensus size: 84
149382 TTTATGGATA
*
149392 GCCCGAAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGACCCGAAGGATTTAATCATCATG
1 GCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGACCCGAAGGATTTAATCATCATG
149457 CTCGGAAGACTTACTGATG
66 CTCGGAAGACTTACTGATG
149476 GCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGACCCGAAGGATTTAATCATCATG
1 GCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGACCCGAAGGATTTAATCATCATG
149541 CTCGGAAGACTTACTGATG
66 CTCGGAAGACTTACTGATG
*
149560 GCCCGGAGTACTTA
1 GCCCGGAGGACTTA
149574 TAAATTGGGA
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 96 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (84 bp):
GCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGACCCGAAGGATTTAATCATCATG
CTCGGAAGACTTACTGATG
Found at i:149965 original size:42 final size:41
Alignment explanation
Indices: 149884--149985 Score: 123
Period size: 42 Copynumber: 2.5 Consensus size: 41
149874 AGGTCTTATG
* * * *
149884 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
1 GATGGCCCGGAGGACTTATCATCATGCTCGAAAGACTTACA
* * * *
149925 GATGACCCGGAGGATTTCATCATCATGCTCGGAAGACTTACT
1 GATGGCCCGGAGGACTT-ATCATCATGCTCGAAAGACTTACA
149967 GATGGCCCGGAGGACTTAT
1 GATGGCCCGGAGGACTTAT
149986 AAATTGGGAA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 16 0.32
42 34 0.68
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (41 bp):
GATGGCCCGGAGGACTTATCATCATGCTCGAAAGACTTACA
Found at i:150001 original size:411 final size:410
Alignment explanation
Indices: 149472--150695 Score: 2143
Period size: 411 Copynumber: 3.0 Consensus size: 410
149462 AAGACTTACT
* ** * * *
149472 GATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGACCCGAAGGATTTAATCAT
1 GATGGCCC-GAGGACTT-ATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGATTTAATCAT
*
149537 CATGCTCGGAAGACTTACTGATGGCCCGGAGTACTTATAAATTGGGAAATTTTGAAACTCGCATT
64 CATGCTCGGAAGACTTACTGATGGCCCGGAGGACTTATAAATTGGGAAATTTTGAAACTCGCATT
149602 CTTCGTTTTCAAAAACTCCAACATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCG
129 CTTCGTTTTCAAAAACTCCAACATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCG
* * *
149667 AAAATCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATAACCCGGAGG
194 AAAGTCTCATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGG
*
149732 ATTTAATCATCATGCTCGGAAGACTTACTGATGGCCCGGAGGGCTTATAAATTGGAAAATTTTGA
259 ATTTAATCATCATGCTCGGAAGACTTACTGATGGCCCGGAGGGCTTATAAATTGGGAAATTTTGA
149797 AACTCGCATTCTTCGTTTTCAAAAACTCCAACATCATTTTTTTCATTTTCAAATTCATTTGAAGA
324 AACTCGCATTCTTCGTTTTCAAAAACTCCAACATCATTTTTTTCATTTTCAAATTCATTTGAAGA
149862 CATCCTACCCGAAGGTCTTATG
389 CATCCTACCCGAAGGTCTTATG
*
149884 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGATTTCATCATC
1 GATGGCCCG-AGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGATTTAATCATC
149949 ATGCTCGGAAGACTTACTGATGGCCCGGAGGACTTATAAATTGGGAAATTTTGAAACTCGCATTC
65 ATGCTCGGAAGACTTACTGATGGCCCGGAGGACTTATAAATTGGGAAATTTTGAAACTCGCATTC
*
150014 TTCGTTTTCAAAAACTCCAATATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGA
130 TTCGTTTTCAAAAACTCCAACATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGA
*
150079 AAGTCTCATTGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGA
195 AAGTCTCATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGA
150144 TTTAATCATCATGCTCGGAAGACTTACTGATGGCCCGGAGGGCTTATAAATTGGGAAATTTTGAA
260 TTTAATCATCATGCTCGGAAGACTTACTGATGGCCCGGAGGGCTTATAAATTGGGAAATTTTGAA
150209 ACTCGCATTCTTCGTTTTCAAAAACTCCAACATCATTTTTTTCATTTTCAAATTCATTTGAAGAC
325 ACTCGCATTCTTCGTTTTCAAAAACTCCAACATCATTTTTTTCATTTTCAAATTCATTTGAAGAC
150274 ATCCTACCCGAAGGTC-T-T-
390 ATCCTACCCGAAGGTCTTATG
150292 -AT-------GGA--TATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGATTTAATCATCA
1 GATGGCCCGAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGATTTAATCATCA
150347 TGCTCGGAAGACTTACTGATGGCCCGGAGGACTTATAAATTGGGAAATTTTGAAACTCGCATTCT
66 TGCTCGGAAGACTTACTGATGGCCCGGAGGACTTATAAATTGGGAAATTTTGAAACTCGCATTCT
150412 TCGTTTTCAAAAACTCCAACATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAA
131 TCGTTTTCAAAAACTCCAACATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAA
* *
150477 GGTCTCATGGATGGCCCAAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGAT
196 AGTCTCATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGAT
* **
150542 TTAATCATCATGCTCGGAAGACTTATTGATGGCCCGGAGAACTTATAAATTGGGAAATTTTGAAA
261 TTAATCATCATGCTCGGAAGACTTACTGATGGCCCGGAGGGCTTATAAATTGGGAAATTTTGAAA
*
150607 CTCGCATTCTTCGTTTTCAAAAACTCCAACATCA-TTTTTTCATTTTCAAATTCATTTGAAAACA
326 CTCGCATTCTTCGTTTTCAAAAACTCCAACATCATTTTTTTCATTTTCAAATTCATTTGAAGACA
150671 TCCTACCCGAAGGTCTTATG
391 TCCTACCCGAAGGTCTTATG
150691 GATGG
1 GATGG
150696 ATTTGCTTCA
Statistics
Matches: 782, Mismatches: 23, Indels: 24
0.94 0.03 0.03
Matches are distributed among these distances:
396 44 0.06
397 337 0.43
398 1 0.00
399 3 0.00
400 2 0.00
407 2 0.00
409 1 0.00
410 1 0.00
411 376 0.48
412 15 0.02
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (410 bp):
GATGGCCCGAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGATTTAATCATCA
TGCTCGGAAGACTTACTGATGGCCCGGAGGACTTATAAATTGGGAAATTTTGAAACTCGCATTCT
TCGTTTTCAAAAACTCCAACATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAA
AGTCTCATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGAT
TTAATCATCATGCTCGGAAGACTTACTGATGGCCCGGAGGGCTTATAAATTGGGAAATTTTGAAA
CTCGCATTCTTCGTTTTCAAAAACTCCAACATCATTTTTTTCATTTTCAAATTCATTTGAAGACA
TCCTACCCGAAGGTCTTATG
Found at i:150154 original size:205 final size:205
Alignment explanation
Indices: 149472--150695 Score: 2071
Period size: 205 Copynumber: 6.0 Consensus size: 205
149462 AAGACTTACT
* * ** * * *
149472 GATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGACCCGAAGGATTTAATCAT
1 GATGGCCCGAAGGACTT-ATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGATTTAATCAT
*
149537 CATGCTCGGAAGACTTACTGATGGCCCGGAGTACTTATAAATTGGGAAATTTTGAAACTCGCATT
65 CATGCTCGGAAGACTTACTGATGGCCCGGAGGACTTATAAATTGGGAAATTTTGAAACTCGCATT
149602 CTTCGTTTTCAAAAACTCCAACATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCG
130 CTTCGTTTTCAAAAACTCCAACATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCG
* *
149667 AAAATCTTATG
195 AAAGTCTCATG
*
149678 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATAACCCGGAGGATTTAATCATC
1 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGATTTAATCATC
* *
149743 ATGCTCGGAAGACTTACTGATGGCCCGGAGGGCTTATAAATTGGAAAATTTTGAAACTCGCATTC
66 ATGCTCGGAAGACTTACTGATGGCCCGGAGGACTTATAAATTGGGAAATTTTGAAACTCGCATTC
*
149808 TTCGTTTTCAAAAACTCCAACATCATTTTTTTCATTTTCAAATTCATTTGAAGACATCCTACCCG
131 TTCGTTTTCAAAAACTCCAACATCA-TTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCG
* *
149873 AAGGTCTTATG
195 AAAGTCTCATG
*
149884 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGATTTCATCATC
1 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGATTTAATCATC
149949 ATGCTCGGAAGACTTACTGATGGCCCGGAGGACTTATAAATTGGGAAATTTTGAAACTCGCATTC
66 ATGCTCGGAAGACTTACTGATGGCCCGGAGGACTTATAAATTGGGAAATTTTGAAACTCGCATTC
*
150014 TTCGTTTTCAAAAACTCCAATATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGA
131 TTCGTTTTCAAAAACTCCAACATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGA
*
150079 AAGTCTCATT
196 AAGTCTCATG
150089 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGATTTAATCATC
1 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGATTTAATCATC
*
150154 ATGCTCGGAAGACTTACTGATGGCCCGGAGGGCTTATAAATTGGGAAATTTTGAAACTCGCATTC
66 ATGCTCGGAAGACTTACTGATGGCCCGGAGGACTTATAAATTGGGAAATTTTGAAACTCGCATTC
*
150219 TTCGTTTTCAAAAACTCCAACATCATTTTTTTCATTTTCAAATTCATTTGAAGACATCCTACCCG
131 TTCGTTTTCAAAAACTCCAACATCA-TTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCG
*
150284 AAGGTCT--T-
195 AAAGTCTCATG
150292 -AT--------GGA--TATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGATTTAATCATC
1 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGATTTAATCATC
150346 ATGCTCGGAAGACTTACTGATGGCCCGGAGGACTTATAAATTGGGAAATTTTGAAACTCGCATTC
66 ATGCTCGGAAGACTTACTGATGGCCCGGAGGACTTATAAATTGGGAAATTTTGAAACTCGCATTC
150411 TTCGTTTTCAAAAACTCCAACATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGA
131 TTCGTTTTCAAAAACTCCAACATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGA
*
150476 AGGTCTCATG
196 AAGTCTCATG
*
150486 GATGGCCCAAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGATTTAATCATC
1 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGATTTAATCATC
* *
150551 ATGCTCGGAAGACTTATTGATGGCCCGGAGAACTTATAAATTGGGAAATTTTGAAACTCGCATTC
66 ATGCTCGGAAGACTTACTGATGGCCCGGAGGACTTATAAATTGGGAAATTTTGAAACTCGCATTC
150616 TTCGTTTTCAAAAACTCCAACATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGA
131 TTCGTTTTCAAAAACTCCAACATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGA
* *
150681 AGGTCTTATG
196 AAGTCTCATG
150691 GATGG
1 GATGG
150696 ATTTGCTTCA
Statistics
Matches: 969, Mismatches: 33, Indels: 33
0.94 0.03 0.03
Matches are distributed among these distances:
191 45 0.05
192 138 0.14
193 1 0.00
194 3 0.00
195 2 0.00
202 2 0.00
203 3 0.00
204 1 0.00
205 517 0.53
206 257 0.27
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (205 bp):
GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGATTTAATCATC
ATGCTCGGAAGACTTACTGATGGCCCGGAGGACTTATAAATTGGGAAATTTTGAAACTCGCATTC
TTCGTTTTCAAAAACTCCAACATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGA
AAGTCTCATG
Found at i:150170 original size:42 final size:41
Alignment explanation
Indices: 150089--150190 Score: 114
Period size: 42 Copynumber: 2.5 Consensus size: 41
150079 AAGTCTCATT
* * * *
150089 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
1 GATGGCCCGGAGGACTTATCATCATGCTCGAAAGACTTACA
* * * *
150130 GATGACCCGGAGGATTTAATCATCATGCTCGGAAGACTTACT
1 GATGGCCCGGAGGACTT-ATCATCATGCTCGAAAGACTTACA
*
150172 GATGGCCCGGAGGGCTTAT
1 GATGGCCCGGAGGACTTAT
150191 AAATTGGGAA
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
41 16 0.33
42 33 0.67
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (41 bp):
GATGGCCCGGAGGACTTATCATCATGCTCGAAAGACTTACA
Found at i:150362 original size:42 final size:42
Alignment explanation
Indices: 150298--150377 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
150288 TCTTATGGAT
* * *
150298 ATCATCTTGCTCTAAAGGCTTACAGATGACCCGGAGGATTTA
1 ATCATCATGCTCGAAAGACTTACAGATGACCCGGAGGATTTA
* * *
150340 ATCATCATGCTCGGAAGACTTACTGATGGCCCGGAGGA
1 ATCATCATGCTCGAAAGACTTACAGATGACCCGGAGGA
150378 CTTATAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (42 bp):
ATCATCATGCTCGAAAGACTTACAGATGACCCGGAGGATTTA
Found at i:155561 original size:20 final size:21
Alignment explanation
Indices: 155536--155590 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
155526 CATGTGATGT
155536 GGTCTTCTCATCTTTACG-AA
1 GGTCTTCTCATCTTTACGAAA
* * *
155556 GGTCTTCTCGTCGTTATGAAA
1 GGTCTTCTCATCTTTACGAAA
155577 GGTCTTCTCATCTT
1 GGTCTTCTCATCTT
155591 GATGAATGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (21 bp):
GGTCTTCTCATCTTTACGAAA
Found at i:155580 original size:21 final size:21
Alignment explanation
Indices: 155535--155693 Score: 182
Period size: 21 Copynumber: 7.6 Consensus size: 21
155525 CCATGTGATG
* * *
155535 TGGTCTTCTCATCTTTACGAA
1 TGGTCTTCTCGTCTTGATGAA
155556 -GGTCTTCTCGTCGTT-ATGAA
1 TGGTCTTCTCGTC-TTGATGAA
* *
155576 AGGTCTTCTCATCTTGATGAA
1 TGGTCTTCTCGTCTTGATGAA
*
155597 TGGTATTCTCGTCTTGATGAA
1 TGGTCTTCTCGTCTTGATGAA
*
155618 TGGCCTTCTCGTCTTGATGAA
1 TGGTCTTCTCGTCTTGATGAA
155639 TGG-CATTCTCGTCTTGATGAA
1 TGGTC-TTCTCGTCTTGATGAA
*
155660 T-GACATTCTCGTCTTGATGAA
1 TGGTC-TTCTCGTCTTGATGAA
*
155681 TGCTCTTCTCGTC
1 TGGTCTTCTCGTC
155694 CTTGGTACAA
Statistics
Matches: 122, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
20 19 0.16
21 102 0.84
22 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (21 bp):
TGGTCTTCTCGTCTTGATGAA
Found at i:160419 original size:2 final size:2
Alignment explanation
Indices: 160412--160438 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
160402 CCAAAATCAA
160412 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 A
160439 AACATCCAAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:161304 original size:15 final size:15
Alignment explanation
Indices: 161284--161314 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
161274 CACAATCTCT
*
161284 CTCTCGTTATTTAAA
1 CTCTCGTTATCTAAA
161299 CTCTCGTTATCTAAA
1 CTCTCGTTATCTAAA
161314 C
1 C
161315 CAAAGGTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.42
Consensus pattern (15 bp):
CTCTCGTTATCTAAA
Found at i:163459 original size:31 final size:31
Alignment explanation
Indices: 163424--163496 Score: 146
Period size: 31 Copynumber: 2.4 Consensus size: 31
163414 TTTGATGTAT
163424 TTTGCTTGATTGATGAAGATGTCATCTTTTC
1 TTTGCTTGATTGATGAAGATGTCATCTTTTC
163455 TTTGCTTGATTGATGAAGATGTCATCTTTTC
1 TTTGCTTGATTGATGAAGATGTCATCTTTTC
163486 TTTGCTTGATT
1 TTTGCTTGATT
163497 TGGAGCCTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.18, C:0.12, G:0.19, T:0.51
Consensus pattern (31 bp):
TTTGCTTGATTGATGAAGATGTCATCTTTTC
Found at i:173054 original size:16 final size:15
Alignment explanation
Indices: 173019--173048 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
173009 TAACTTTAAC
173019 GTAAAAATATAAAAA
1 GTAAAAATATAAAAA
173034 GTAAAAAGTATAAAA
1 GTAAAAA-TATAAAA
173049 TTTAAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (15 bp):
GTAAAAATATAAAAA
Found at i:173456 original size:17 final size:18
Alignment explanation
Indices: 173418--173459 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
173408 AAATTTTATT
*
173418 GATTTTATGTATTCTGAA
1 GATTTTATGTATTATGAA
*
173436 -ATTTTATTTA-TATGAA
1 GATTTTATGTATTATGAA
173452 GATTTTAT
1 GATTTTAT
173460 ATTACTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (18 bp):
GATTTTATGTATTATGAA
Found at i:174588 original size:24 final size:25
Alignment explanation
Indices: 174543--174605 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 25
174533 AATTTAGTTG
174543 ATAATAAAATATATTTAATAAGTGAAT
1 ATAA-AAAA-ATATTTAATAAGTGAAT
* *
174570 ATAAAAAAATATTT-CTAAGTTAAT
1 ATAAAAAAATATTTAATAAGTGAAT
*
174594 AT-ATAAAATATT
1 ATAAAAAAATATT
174606 ATAAATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 9 0.27
24 10 0.30
25 6 0.18
26 4 0.12
27 4 0.12
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.38
Consensus pattern (25 bp):
ATAAAAAAATATTTAATAAGTGAAT
Found at i:175694 original size:42 final size:42
Alignment explanation
Indices: 175635--175750 Score: 155
Period size: 42 Copynumber: 2.8 Consensus size: 42
175625 TTTTCCTGAA
175635 TTCTCGTATTTT-TTTCACGTAATTCGTTTTCCGGAAAATATT
1 TTCTCGT-TTTTGTTTCACGTAATTCGTTTTCCGGAAAATATT
* *
175677 TTCTCGTTTTTGTTTCACGTAATTCGTTTTTCGGAAAATGTT
1 TTCTCGTTTTTGTTTCACGTAATTCGTTTTCCGGAAAATATT
* * *
175719 TTC-CTGTGTTTGTTTTACGTAATTGGTTTTCC
1 TTCTC-GTTTTTGTTTCACGTAATTCGTTTTCC
175751 TGAATGTAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
41 5 0.08
42 61 0.92
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.53
Consensus pattern (42 bp):
TTCTCGTTTTTGTTTCACGTAATTCGTTTTCCGGAAAATATT
Found at i:176134 original size:23 final size:23
Alignment explanation
Indices: 176108--176152 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
176098 AATAATATTT
176108 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
176131 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
176153 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:176488 original size:14 final size:15
Alignment explanation
Indices: 176467--176512 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
176457 TTCCATAAAT
176467 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
** *
176482 G-AATTCAAATTCCT
1 GTAATTCATTTTCCA
176496 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
176511 GT
1 GT
176513 TTTAGTAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:176509 original size:15 final size:15
Alignment explanation
Indices: 176466--176509 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
176456 TTTCCATAAA
176466 TGTAATTCATTTTCC
1 TGTAATTCATTTTCC
* **
176481 AG-AATTCAAATTCC
1 TGTAATTCATTTTCC
176495 TGTAATTCATTTTCC
1 TGTAATTCATTTTCC
176510 AGTTTTAGTA
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.45
Consensus pattern (15 bp):
TGTAATTCATTTTCC
Found at i:176653 original size:2 final size:2
Alignment explanation
Indices: 176646--176680 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
176636 ATTCTCAAAT
176646 TA 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 TA T
176681 CTTAATTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:183008 original size:30 final size:29
Alignment explanation
Indices: 182918--183035 Score: 94
Period size: 30 Copynumber: 4.0 Consensus size: 29
182908 ATAATAGATC
* *
182918 TAGCAAAAACATG-AACTTAAAGGATTAAA
1 TAGCAAAAACA-GAAACTTAAATGACTAAA
* * * * * *
182947 TTGTAAAAACATAAACTCAAAAGGCTAAAA
1 TAGCAAAAACAGAAACTTAAATGACT-AAA
* * *
182977 TAGCTAAAACATAAATTTAAATGACATAAA
1 TAGCAAAAACAGAAACTTAAATGAC-TAAA
*
183007 TAGCAAAAACAGAAACTTAAGTGACTAAA
1 TAGCAAAAACAGAAACTTAAATGACTAAA
183036 ATAAAATAAC
Statistics
Matches: 68, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
29 22 0.32
30 45 0.66
31 1 0.01
ACGTcount: A:0.56, C:0.12, G:0.11, T:0.21
Consensus pattern (29 bp):
TAGCAAAAACAGAAACTTAAATGACTAAA
Found at i:183038 original size:30 final size:28
Alignment explanation
Indices: 182973--183075 Score: 82
Period size: 30 Copynumber: 3.5 Consensus size: 28
182963 TCAAAAGGCT
* * * *
182973 AAAATAGCTAAAACATAAATTTAAATGAC
1 AAAATAG-AAAAACAAAAACTTAAGTGAC
*
183002 ATAAATAGCAAAAACAGAAACTTAAGTGAC
1 A-AAATAG-AAAAACAAAAACTTAAGTGAC
* *
183032 TAAAATA-AAATAACAAAAACTAAAGTGTC
1 -AAAATAGAAA-AACAAAAACTTAAGTGAC
183061 AAAATCAGAAAAACA
1 AAAAT-AGAAAAACA
183076 TATATATTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
28 8 0.13
29 21 0.34
30 32 0.52
31 1 0.02
ACGTcount: A:0.61, C:0.12, G:0.09, T:0.18
Consensus pattern (28 bp):
AAAATAGAAAAACAAAAACTTAAGTGAC
Found at i:183075 original size:29 final size:28
Alignment explanation
Indices: 183011--183075 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
183001 CATAAATAGC
* *
183011 AAAAACAGAAACTTAAGTGACTAAAATA
1 AAAAACAAAAACTAAAGTGACTAAAATA
*
183039 AAATAACAAAAACTAAAGTGTC-AAAATCA
1 AAA-AACAAAAACTAAAGTGACTAAAAT-A
183068 GAAAAACA
1 -AAAAACA
183076 TATATATTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 8 0.26
29 20 0.65
30 3 0.10
ACGTcount: A:0.63, C:0.12, G:0.09, T:0.15
Consensus pattern (28 bp):
AAAAACAAAAACTAAAGTGACTAAAATA
Found at i:183565 original size:146 final size:140
Alignment explanation
Indices: 183214--183568 Score: 373
Period size: 139 Copynumber: 2.5 Consensus size: 140
183204 CATCCGATCA
* * * * * *
183214 TTCTGAAATTTCAGTATGTTGTTCTTGTTGACCTTGCGCAACTTTTGACCGTTCGAAATGTTGAT
1 TTCTAAAATTTCAGTATGTTGTTCGTGTTGACATTGCACAACTTTTGACCGTTTGGAATGTTGAT
* * * *
183279 TGGA-AGTCCCGATCGCCGGCGAGAGGCCAAAAATCGTCCGAATTTGTTTTCTCCGATTCACCAT
66 CGGAGAGTCCCGATCGCCGGCAAGAGGCCAAAAATCATCCGAATTTGTTTTCTCCGATTCACCAC
*
183343 CGTCCGATCG
131 CGTCCAATCG
183353 TTCTAAAATTTCAGTATGTTGTTCGTGTTGACA-TGACACAAC-TTT-ACGCTGTTTGGAATGTT
1 TTCTAAAATTTCAGTATGTTGTTCGTGTTGACATTG-CACAACTTTTGAC-C-GTTTGGAATGTT
** *
183415 GATCGGAGA-TCCCGATCGTTGGCAAGAGGCCAAAAATCATCC-AGATTTGTTTTCTCTGATCCA
63 GATCGGAGAGTCCCGATCGCCGGCAAGAGGCCAAAAATCATCCGA-ATTTGTTTTCTCCGAT---
183478 TCACCGTCCACCGTCCAATCG
124 TCA----CCACCGTCCAATCG
* ** * * *
183499 -TCTTGATTTTTCAGTATGTTGTTCGTGTTGTCATTGCACAACTTTTGACCGTTTGGGATGTCGA
1 TTC-TAAAATTTCAGTATGTTGTTCGTGTTGACATTGCACAACTTTTGACCGTTTGGAATGTTGA
183563 TCGGAG
65 TCGGAG
183569 GCCCAAATCG
Statistics
Matches: 180, Mismatches: 20, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
137 2 0.01
138 7 0.04
139 95 0.53
140 1 0.01
142 3 0.02
145 2 0.01
146 62 0.34
147 6 0.03
148 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (140 bp):
TTCTAAAATTTCAGTATGTTGTTCGTGTTGACATTGCACAACTTTTGACCGTTTGGAATGTTGAT
CGGAGAGTCCCGATCGCCGGCAAGAGGCCAAAAATCATCCGAATTTGTTTTCTCCGATTCACCAC
CGTCCAATCG
Found at i:183960 original size:3 final size:3
Alignment explanation
Indices: 183927--183952 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
183917 TATTAATTAG
183927 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
183953 CTAATAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:184829 original size:19 final size:19
Alignment explanation
Indices: 184805--184844 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
184795 GGCTGGAAAT
184805 CGGTTTGACCGGTCTGAAC
1 CGGTTTGACCGGTCTGAAC
*
184824 CGGTTTGATCGGTCTGAAC
1 CGGTTTGACCGGTCTGAAC
184843 CG
1 CG
184845 ACCCGCCCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.25, G:0.33, T:0.28
Consensus pattern (19 bp):
CGGTTTGACCGGTCTGAAC
Found at i:184887 original size:17 final size:16
Alignment explanation
Indices: 184850--184905 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
184840 AACCGACCCG
184850 CCCGACCCGAC--TGA
1 CCCGACCCGACGTTGA
*
184864 CCTGACCCGATCGTTGA
1 CCCGACCCGA-CGTTGA
184881 CCCGACCCGACTGTTGA
1 CCCGACCCGAC-GTTGA
184898 CCGCGACC
1 CC-CGACC
184906 GTTGACCGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 9 0.26
15 1 0.03
16 1 0.03
17 19 0.54
18 5 0.14
ACGTcount: A:0.18, C:0.45, G:0.23, T:0.14
Consensus pattern (16 bp):
CCCGACCCGACGTTGA
Found at i:191364 original size:9 final size:9
Alignment explanation
Indices: 191350--191428 Score: 50
Period size: 9 Copynumber: 8.3 Consensus size: 9
191340 ATAGTTGGAA
191350 ACCGGTTTG
1 ACCGGTTTG
*
191359 ACCGGTTTTCA
1 ACCGG-TTT-G
191370 ACCGGTTCTG
1 ACCGGTT-TG
*
191380 ACCGGTCTG
1 ACCGGTTTG
* *
191389 AACAGTTTG
1 ACCGGTTTG
* *
191398 ACTGGTCTG
1 ACCGGTTTG
*
191407 AACCGATTTG
1 -ACCGGTTTG
*
191417 ACCGGTCTG
1 ACCGGTTTG
191426 ACC
1 ACC
191429 CGACCCGACC
Statistics
Matches: 51, Mismatches: 15, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
9 28 0.55
10 17 0.33
11 6 0.12
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:191404 original size:18 final size:19
Alignment explanation
Indices: 191378--191426 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
191368 CAACCGGTTC
191378 TGACCGGTCTGAACAG-TT
1 TGACCGGTCTGAACAGATT
* *
191396 TGACTGGTCTGAACCGATT
1 TGACCGGTCTGAACAGATT
191415 TGACCGGTCTGA
1 TGACCGGTCTGA
191427 CCCGACCCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (19 bp):
TGACCGGTCTGAACAGATT
Found at i:191418 original size:19 final size:19
Alignment explanation
Indices: 191349--191431 Score: 78
Period size: 19 Copynumber: 4.3 Consensus size: 19
191339 GATAGTTGGA
* * *
191349 AACCGGTTTGACCGGTTTTC
1 AACCGATTTGACCGG-TCTG
*
191369 AACCGGTTCTGACCGGTCTG
1 AACCGATT-TGACCGGTCTG
* *
191389 AACAG-TTTGACTGGTCTG
1 AACCGATTTGACCGGTCTG
191407 AACCGATTTGACCGGTCTG
1 AACCGATTTGACCGGTCTG
*
191426 ACCCGA
1 AACCGA
191432 CCCGACCCTA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
18 14 0.26
19 19 0.35
20 14 0.26
21 7 0.13
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.28
Consensus pattern (19 bp):
AACCGATTTGACCGGTCTG
Found at i:191468 original size:16 final size:17
Alignment explanation
Indices: 191424--191476 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
191414 TTGACCGGTC
*
191424 TGACCCGACCCGACC-C
1 TGACCCGACCCGACCGT
*
191440 TAACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
*
191457 TGACCCGA-CCGACTGT
1 TGACCCGACCCGACCGT
191473 TGAC
1 TGAC
191477 TGTTGACTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 25 0.78
17 7 0.22
ACGTcount: A:0.21, C:0.45, G:0.21, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:192361 original size:89 final size:89
Alignment explanation
Indices: 192268--192526 Score: 199
Period size: 89 Copynumber: 2.9 Consensus size: 89
192258 CTTATTGACT
192268 TGGGCTTAAGGATACAAGCTTCATAGCCTATCTTAAGTCGGCTTTCTTTTGCTATGTGCATAAAG
1 TGGGCTTAAGGATACAAGCTTCATAGCCTATCTTAAGTCGGCTTTCTTTTGCTATGTGCATAAAG
*
192333 TAAAGCTCTGATCAAGC-TAAT-AAA
66 TAAAGCTAT-ATCAA-CTTAATGAAA
* * ** * * * * *
192357 TGGGCCTAATGTGACT-CTTGAGGGCCCCA-AG-ATGTTCATTAGGTCGGCTTTCCTTTGCTGTG
1 TGGGCTTAA-G-GA-TAC---A-AGCTTCATAGCCT-ATC-TTAAGTCGGCTTTCTTTTGCTATG
* ** ** * **
192419 TGCTTAGGGT-AAGCTATATGGACTTATTGACT
57 TGCATAAAGTAAAGCTATATCAACTTAATGAAA
192451 TGGGCTTAAGGATACAAGCTTCATAGCCTATCCTTAAGTCGGCTTTCTTTTGCTATGTGCATAAA
1 TGGGCTTAAGGATACAAGCTTCATAGCCTAT-CTTAAGTCGGCTTTCTTTTGCTATGTGCATAAA
192516 GT-AAGCTATAT
65 GTAAAGCTATAT
192527 GGAAAATAAT
Statistics
Matches: 125, Mismatches: 30, Indels: 30
0.68 0.16 0.16
Matches are distributed among these distances:
88 4 0.03
89 49 0.39
90 3 0.02
91 4 0.03
92 5 0.04
93 8 0.06
94 20 0.16
95 32 0.26
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (89 bp):
TGGGCTTAAGGATACAAGCTTCATAGCCTATCTTAAGTCGGCTTTCTTTTGCTATGTGCATAAAG
TAAAGCTATATCAACTTAATGAAA
Found at i:193201 original size:40 final size:40
Alignment explanation
Indices: 193156--193387 Score: 154
Period size: 40 Copynumber: 5.6 Consensus size: 40
193146 GTCTAAGGGT
*
193156 TGACACGACTCCTACGTGACGAGGAGGTCAGATCGGGTGA
1 TGACACGACTCCTACGTGATGAGGAGGTCAGATCGGGTGA
* * *
193196 TGACACGATTCCTACATGGTGAGGACGG-CAGGTCATCTAAGGGT--
1 TGACACGACTCCTACGTGATGAGGA-GGTCA-G--ATC---GGGTGA
* *
193240 TGACACGACTCCTACGTGATGAGGAGATCAGGTCGGGTGA
1 TGACACGACTCCTACGTGATGAGGAGGTCAGATCGGGTGA
** *
193280 TGACACGGTTCCTACGTGATGAGGATGG-CAGGTCATCTAAGG-G-
1 TGACACGACTCCTACGTGATGAGGA-GGTCA-G--ATC--GGGTGA
* * * *
193323 TGACATGACTCCTACGTGATGAGGAGATCAGGTCAGGTGA
1 TGACACGACTCCTACGTGATGAGGAGGTCAGATCGGGTGA
* *
193363 TGACA-TAGTTCCTACGTGATGAGGA
1 TGACACGA-CTCCTACGTGATGAGGA
193388 TGGCGGTCAT
Statistics
Matches: 151, Mismatches: 21, Indels: 40
0.71 0.10 0.19
Matches are distributed among these distances:
38 7 0.05
39 2 0.01
40 71 0.47
41 7 0.05
42 2 0.01
43 31 0.21
44 25 0.17
45 2 0.01
46 4 0.03
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (40 bp):
TGACACGACTCCTACGTGATGAGGAGGTCAGATCGGGTGA
Found at i:193292 original size:84 final size:84
Alignment explanation
Indices: 193147--193398 Score: 391
Period size: 84 Copynumber: 3.0 Consensus size: 84
193137 GATCGGATCG
* * * * *
193147 TCTAAGGGTTGACACGACTCCTACGTGACGAGGAGGTCAGATCGGGTGATGACACGATTCCTACA
1 TCTAAGGGTTGACACGACTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACG
* *
193212 TGGTGAGGACGGCAGGTCA
66 TGATGAGGATGGCAGGTCA
193231 TCTAAGGGTTGACACGACTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACG
1 TCTAAGGGTTGACACGACTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACG
193296 TGATGAGGATGGCAGGTCA
66 TGATGAGGATGGCAGGTCA
* * **
193315 TCTAAGGG-TGACATGACTCCTACGTGATGAGGAGATCAGGTCAGGTGATGACATAGTTCCTACG
1 TCTAAGGGTTGACACGACTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACG
193379 TGATGAGGATGGC-GGTCA
66 TGATGAGGATGGCAGGTCA
193397 TC
1 TC
193399 ATTAGGGATA
Statistics
Matches: 157, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
82 7 0.04
83 65 0.41
84 85 0.54
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (84 bp):
TCTAAGGGTTGACACGACTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACG
TGATGAGGATGGCAGGTCA
Found at i:193355 original size:43 final size:43
Alignment explanation
Indices: 193147--193357 Score: 163
Period size: 40 Copynumber: 5.0 Consensus size: 43
193137 GATCGGATCG
* *
193147 TCTAAGGGTTGACACGACTCCTACGTGACGAGGAGGTCA-G--A
1 TCTAAGGG-TGACACGACTCCTACGTGATGAGGAGATCAGGTCA
* * * * *
193188 TC--GGGTGATGACACGATTCCTACATGGTGAGGACG-GCAGGTCA
1 TCTAAGG-G-TGACACGACTCCTACGTGATGAGGA-GATCAGGTCA
*
193231 TCTAAGGGTTGACACGACTCCTACGTGATGAGGAGATCAGGTCG
1 TCTAAGGG-TGACACGACTCCTACGTGATGAGGAGATCAGGTCA
** * ** *
193275 GGT---GATGACACGGTTCCTACGTGATGAGGATG-GCAGGTCA
1 TCTAAGGGTGACACGACTCCTACGTGATGAGGA-GATCAGGTCA
*
193315 TCTAAGGGTGACATGACTCCTACGTGATGAGGAGATCAGGTCA
1 TCTAAGGGTGACACGACTCCTACGTGATGAGGAGATCAGGTCA
193358 GGTGATGACA
Statistics
Matches: 129, Mismatches: 28, Indels: 24
0.71 0.15 0.13
Matches are distributed among these distances:
39 2 0.02
40 54 0.42
41 6 0.05
42 1 0.01
43 34 0.26
44 30 0.23
45 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.22
Consensus pattern (43 bp):
TCTAAGGGTGACACGACTCCTACGTGATGAGGAGATCAGGTCA
Found at i:193792 original size:40 final size:41
Alignment explanation
Indices: 193742--193848 Score: 130
Period size: 43 Copynumber: 2.6 Consensus size: 41
193732 CGATTCCCTT
193742 CGTCGT-GAGTTGAAA-CTGTGGATGT-GGCACGATATCCTC
1 CGTCGTGGAGTTGAAATC-GTGGATGTGGGCACGATATCCTC
* * * *
193781 TGTTGTGGAGTTGAAATCGTGGATCCATGGGTACGATATCCTC
1 CGTCGTGGAGTTGAAATCGTGGAT--GTGGGCACGATATCCTC
193824 CGTCGTGGAGTTGAAATCGTGGATG
1 CGTCGTGGAGTTGAAATCGTGGATG
193849 GCCCTTTTGT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 4 0.07
40 15 0.27
41 1 0.02
42 1 0.02
43 35 0.62
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.30
Consensus pattern (41 bp):
CGTCGTGGAGTTGAAATCGTGGATGTGGGCACGATATCCTC
Found at i:193992 original size:43 final size:43
Alignment explanation
Indices: 193926--194052 Score: 150
Period size: 43 Copynumber: 3.0 Consensus size: 43
193916 ATTGTTGGTG
* * * * **
193926 GTGGACACGAT-TCCCTTCATCGTGAAGTTGAAA-CTGTGGTTGT
1 GTGGGCACGATAT-CCTCCATCGTGGAGTTGAAATC-GTGGATCC
193969 GTGGGCACGATATCCTCCATCGTGGAGTTGAAATCGTGGATCC
1 GTGGGCACGATATCCTCCATCGTGGAGTTGAAATCGTGGATCC
* *
194012 GTGGGTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGAT
1 GTGGGCACGATATCCTCCATCGTGGAGTTGAAATCGTGGAT
194053 AGCCCTTCGT
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 72 0.97
44 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (43 bp):
GTGGGCACGATATCCTCCATCGTGGAGTTGAAATCGTGGATCC
Found at i:193997 original size:205 final size:201
Alignment explanation
Indices: 193608--194171 Score: 710
Period size: 205 Copynumber: 2.8 Consensus size: 201
193598 GCTGATGGAC
* * * *
193608 ACGATATCCTTCGGTCGTGAAGTTGAAATCGTGGATGGCCCATTCGTCGTGAAGTCGAGCCTCGA
1 ACGATATCC-TCCGTCGTGGAGTTGAAATCGTGGATGGCCC-TTCGTCGTGAAGTTGAGCCTTG-
* * * * * * * * *
193673 ATTGGATATCCTTCATCGTGAAG-TGAAATCTAATTTAAAGATGAATGTAC-TTGTGTG-TACGA
63 ACTGAATATCCTTCGTCGTGAAGTTGAAATCTAA-GT--A-TTGTATGTTCGTGGTG-GACACGA
* ** *
193735 TTCCCTTCGTCGTG-AGTTGAAACTGTGGATGTGGCACGATATCCTCTGTTGTGGAGTTGAAATC
123 TTCCCTTCATCGTGAAGTTGAAACTGTGGATGTGGCACGATATCCTCCATCGTGGAGTTGAAATC
193799 GTGGATCCATGGGT
188 GTGGATCCATGGGT
*
193813 ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATGGCCCTTTTGTCGTGAAGTTG-GCCTTGAC
1 ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATGGCCC-TTCGTCGTGAAGTTGAGCCTTGAC
* *
193877 TGAATATCCTTCGTCGTGAAGTTGAAATCCAAGTATTGTATTGTTGGTGGTGGACACGATTCCCT
65 TGAATATCCTTCGTCGTGAAGTTGAAATCTAAGTATTGTA-TGTTCGTGGTGGACACGATTCCCT
*
193942 TCATCGTGAAGTTGAAACTGTGGTTGTGTGGGCACGATATCCTCCATCGTGGAGTTGAAATCGTG
129 TCATCGTGAAGTTGAAACTGTGG--ATGT-GGCACGATATCCTCCATCGTGGAGTTGAAATCGTG
*
194007 GATCCGTGGGT
191 GATCCATGGGT
* *
194018 ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATAGCCCTTCGTCATGAAGTTGAGCCTTGACT
1 ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATGGCCCTTCGTCGTGAAGTTGAGCCTTGAC-
*
194083 TGAATATCCTTCGTC-TGAAGTTGAAATCTAAGTATTGTATGTTACG-GGTGAACACGATTCCCT
65 TGAATATCCTTCGTCGTGAAGTTGAAATCTAAGTATTGTATGTT-CGTGGTGGACACGATTCCCT
*
194146 TCATCATGAAGTTGAAACTGTGGATG
129 TCATCGTGAAGTTGAAACTGTGGATG
194172 ACCCCTTCAT
Statistics
Matches: 317, Mismatches: 31, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
199 3 0.01
200 5 0.02
201 21 0.07
202 37 0.12
203 14 0.04
204 100 0.32
205 122 0.38
206 15 0.05
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (201 bp):
ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATGGCCCTTCGTCGTGAAGTTGAGCCTTGACT
GAATATCCTTCGTCGTGAAGTTGAAATCTAAGTATTGTATGTTCGTGGTGGACACGATTCCCTTC
ATCGTGAAGTTGAAACTGTGGATGTGGCACGATATCCTCCATCGTGGAGTTGAAATCGTGGATCC
ATGGGT
Found at i:194345 original size:62 final size:63
Alignment explanation
Indices: 194256--194408 Score: 206
Period size: 62 Copynumber: 2.5 Consensus size: 63
194246 GTGTCGTTTC
* *
194256 GAGTTCAATATCCTTTGCTGTGAAGTTGAAATTGACTCTGAATGAAATT-GAAAATTGTTTGTT
1 GAGTACAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATG-AATTGGAAAATTGTTTGTT
*
194319 GAGTACAATATCC-TCGCTGTGAAGTTGAAATTGACTCTGAATGAATTGGAAAGTTGTTTGTT
1 GAGTACAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAATTGGAAAATTGTTTGTT
* **
194381 GA-CA-AACGCTCCTTCGCTGTGAAGTTGA
1 GAGTACAA-TATCCTTCGCTGTGAAGTTGA
194409 GCATCCATCA
Statistics
Matches: 81, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
60 2 0.02
61 8 0.10
62 59 0.73
63 12 0.15
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (63 bp):
GAGTACAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAATTGGAAAATTGTTTGTT
Found at i:194711 original size:31 final size:31
Alignment explanation
Indices: 194639--194698 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
194629 TTGCATCAGG
* *
194639 ATGTTGAATCCCCAAATATGCCCCATATTCA
1 ATGTTGAATCTCCAAATATGCCCCACATTCA
194670 ATGTTGAATCTCC-AATATGCCCCAACATT
1 ATGTTGAATCTCCAAATATGCCCC-ACATT
194699 TTCTGTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.30
Consensus pattern (31 bp):
ATGTTGAATCTCCAAATATGCCCCACATTCA
Found at i:194907 original size:24 final size:23
Alignment explanation
Indices: 194852--194910 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
194842 CTTTTATTTC
*
194852 CAAAAGTTCTG-AAAATGTATAA
1 CAAAAGTTTTGAAAAATGTATAA
* *
194874 -AAGAGTTTTGAAAAATGTTTAA
1 CAAAAGTTTTGAAAAATGTATAA
194896 TCAAAAGTTTTGAAA
1 -CAAAAGTTTTGAAA
194911 TATTACCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 8 0.27
22 10 0.33
24 12 0.40
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.32
Consensus pattern (23 bp):
CAAAAGTTTTGAAAAATGTATAA
Found at i:194911 original size:22 final size:22
Alignment explanation
Indices: 194852--194910 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
194842 CTTTTATTTC
*
194852 CAAAAGTTCTGAAAATGTATAA
1 CAAAAGTTTTGAAAATGTATAA
* *
194874 -AAGAGTTTTGAAAAATGTTTAA
1 CAAAAGTTTTG-AAAATGTATAA
194896 TCAAAAGTTTTGAAA
1 -CAAAAGTTTTGAAA
194911 TATTACCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 8 0.27
22 10 0.33
23 3 0.10
24 9 0.30
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.32
Consensus pattern (22 bp):
CAAAAGTTTTGAAAATGTATAA
Found at i:199176 original size:30 final size:30
Alignment explanation
Indices: 199056--199176 Score: 124
Period size: 30 Copynumber: 4.1 Consensus size: 30
199046 ATAATAGATC
* *
199056 TAGCAAAAACATGAACTTAAAGGA-TTAAA
1 TAGCAAAAACATAAACTTAAAGGACTAAAA
* *
199085 TGGTAAAAACATAAACTCTAAAGG-CTAAAA
1 TAGCAAAAACATAAACT-TAAAGGACTAAAA
* * *
199115 TAGCTAAAACATAAATTTAAATGAC-ATAAA
1 TAGCAAAAACATAAACTTAAAGGACTA-AAA
199145 TAGCAAAAACATAAACTT-AAGTGACTAAAA
1 TAGCAAAAACATAAACTTAAAG-GACTAAAA
199175 TA
1 TA
199177 AAATAACATA
Statistics
Matches: 74, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
29 22 0.30
30 51 0.69
31 1 0.01
ACGTcount: A:0.55, C:0.12, G:0.11, T:0.22
Consensus pattern (30 bp):
TAGCAAAAACATAAACTTAAAGGACTAAAA
Found at i:199614 original size:146 final size:145
Alignment explanation
Indices: 199343--199645 Score: 331
Period size: 146 Copynumber: 2.1 Consensus size: 145
199333 CGCTGCCATG
* * * * * * **
199343 CCACCGTCGATCGTCCTGAAATTTCAATATGTTGTTCTTGTTGACCTTGCACAACTTTTGACCGT
1 CCACCGTCGATCATCCTGAAATTTCAATATATTGTTCGTGTTGACCATGAAAAACTTTACACCGT
** * * ** * * *
199408 TCGGAATGTTGATCTGACGTTCCGATCGCCGGGGAGAGGCCAAAAACTGTCTAAATTTGTTTTCT
66 TCAAAATGTTGATCGGACGATCCGATCGCCGGCAAGAAGCCAAAAACCGTCCAAATTTGTTTTCT
*
199473 CCGATTCACCACCGT
131 CCGATCCACCACCGT
*
199488 CCACCGTCCGATCATCCTGAAATTTCATTATATTGTTCGTGTTGA-CATGAAAAAACTTTACACC
1 CCACCGT-CGATCATCCTGAAATTTCAATATATTGTTCGTGTTGACCATG-AAAAACTTTACACC
* * **
199552 GTTTAAAATGTTGATCGGA-GATCTCGATCGCCGGCAAGAAGTCAAAAACCGTCCGGATTTGTTT
64 GTTCAAAATGTTGATCGGACGATC-CGATCGCCGGCAAGAAGCCAAAAACCGTCCAAATTTGTTT
** *
199616 TCTCCGATCCGTCACTGT
128 TCTCCGATCCACCACCGT
199634 CCACCGTCGATC
1 CCACCGTCGATC
199646 GTCTTGATTT
Statistics
Matches: 129, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
145 18 0.14
146 111 0.86
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (145 bp):
CCACCGTCGATCATCCTGAAATTTCAATATATTGTTCGTGTTGACCATGAAAAACTTTACACCGT
TCAAAATGTTGATCGGACGATCCGATCGCCGGCAAGAAGCCAAAAACCGTCCAAATTTGTTTTCT
CCGATCCACCACCGT
Found at i:200262 original size:16 final size:16
Alignment explanation
Indices: 200241--200291 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
200231 AACTGGTATT
200241 ACCCGACTTGTTTTCA
1 ACCCGACTTGTTTTCA
200257 ACCCGACTTGTTTTCA
1 ACCCGACTTGTTTTCA
* * *
200273 ACCTGACCTGTTTTTA
1 ACCCGACTTGTTTTCA
200289 ACC
1 ACC
200292 TGACCTGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.20, C:0.31, G:0.12, T:0.37
Consensus pattern (16 bp):
ACCCGACTTGTTTTCA
Found at i:200292 original size:16 final size:16
Alignment explanation
Indices: 200249--200299 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
200239 TTACCCGACT
* *
200249 TGTTTTCAACCCGACT
1 TGTTTTCAACCTGACC
200265 TGTTTTCAACCTGACC
1 TGTTTTCAACCTGACC
*
200281 TGTTTTTAACCTGACC
1 TGTTTTCAACCTGACC
200297 TGT
1 TGT
200300 AAATGATCCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.18, C:0.27, G:0.14, T:0.41
Consensus pattern (16 bp):
TGTTTTCAACCTGACC
Found at i:200568 original size:14 final size:14
Alignment explanation
Indices: 200546--200592 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
200536 ATGTGAAGGA
*
200546 AATTAATATAGTTT
1 AATTTATATAGTTT
200560 AATTTATATA----
1 AATTTATATAGTTT
200570 AA-TTATATAGTTT
1 AATTTATATAGTTT
200583 AATTTATATA
1 AATTTATATA
200593 AAGAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
AATTTATATAGTTT
Found at i:200579 original size:23 final size:24
Alignment explanation
Indices: 200545--200594 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
200535 AATGTGAAGG
200545 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
200569 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
200592 AAA
1 AAA
200595 GAAAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:202030 original size:21 final size:22
Alignment explanation
Indices: 201996--202038 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
201986 TCTGAAAAAC
201996 AAAAGACAAGAAATTAG-TAAAT
1 AAAAGACAAGAAA-TAGATAAAT
*
202018 AAAA-ACAGGAAATAGATAAAT
1 AAAAGACAAGAAATAGATAAAT
202039 TGAAATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 3 0.16
21 12 0.63
22 4 0.21
ACGTcount: A:0.65, C:0.05, G:0.14, T:0.16
Consensus pattern (22 bp):
AAAAGACAAGAAATAGATAAAT
Found at i:202398 original size:16 final size:16
Alignment explanation
Indices: 202377--202409 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
202367 TAATAAATAA
*
202377 ACGAACATAAGCGAAC
1 ACGAACATAAACGAAC
202393 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
202409 A
1 A
202410 AAATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.24, G:0.15, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:202500 original size:16 final size:16
Alignment explanation
Indices: 202479--202543 Score: 76
Period size: 16 Copynumber: 4.1 Consensus size: 16
202469 TAATAAATAA
202479 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
202495 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
** * *
202511 TTGAACATAAATGAAT
1 ACGAACATAAACGAAC
* *
202527 ACAAACACAAACGAAC
1 ACGAACATAAACGAAC
202543 A
1 A
202544 TAAATATTGG
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.57, C:0.22, G:0.11, T:0.11
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:202517 original size:32 final size:32
Alignment explanation
Indices: 202481--202542 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
202471 ATAAATAAAC
* *
202481 GAACATAAACGAACACGAACATAAACGAACTT
1 GAACATAAACGAACACAAACACAAACGAACTT
* *
202513 GAACATAAATGAATACAAACACAAACGAAC
1 GAACATAAACGAACACAAACACAAACGAAC
202543 ATAAATATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.56, C:0.21, G:0.11, T:0.11
Consensus pattern (32 bp):
GAACATAAACGAACACAAACACAAACGAACTT
Found at i:202920 original size:24 final size:24
Alignment explanation
Indices: 202893--202944 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
202883 AACATAAATA
* **
202893 AACGAACGTAAATGAACATAACCG
1 AACGAACATAAACAAACATAACCG
202917 AACGAACATAAACAAACATAACCG
1 AACGAACATAAACAAACATAACCG
202941 AACG
1 AACG
202945 TTCACGAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.23, G:0.13, T:0.10
Consensus pattern (24 bp):
AACGAACATAAACAAACATAACCG
Found at i:204708 original size:102 final size:99
Alignment explanation
Indices: 204528--204756 Score: 325
Period size: 102 Copynumber: 2.3 Consensus size: 99
204518 AATGAACAAC
* *
204528 CAACAGTAGCAATAAATTAAACAGTTTATTTAAACTGTAAATAAAGACAGCTAACAACCTTATAA
1 CAACAGTAGCAACAAATTAAACAGTTTATTTAAACTCTAAATAAAGACAGCTAACAACCTTATAA
*
204593 AAACAATTCGAATGAACAACCAACAACACAAACAAAT
66 AAACAATTCGAATGAAAAACC-A-AA-ACAAACAAAT
* * * *
204630 CAACAGTAGCAACAAATTGAACAGTTTATTTAAACTCTAAATAAAGGCATCTAACAACCTTATAG
1 CAACAGTAGCAACAAATTAAACAGTTTATTTAAACTCTAAATAAAGACAGCTAACAACCTTATAA
**
204695 AAGTAA-TCTGAATGAAAAACCAAAACAAACAAAT
66 AAACAATTC-GAATGAAAAACCAAAACAAACAAAT
*
204729 CAACAGTAGCAACAAATTAAACATTTTA
1 CAACAGTAGCAACAAATTAAACAGTTTA
204757 GTTACCTCTT
Statistics
Matches: 115, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
99 36 0.31
100 2 0.02
101 3 0.03
102 74 0.64
ACGTcount: A:0.52, C:0.18, G:0.09, T:0.22
Consensus pattern (99 bp):
CAACAGTAGCAACAAATTAAACAGTTTATTTAAACTCTAAATAAAGACAGCTAACAACCTTATAA
AAACAATTCGAATGAAAAACCAAAACAAACAAAT
Found at i:204980 original size:33 final size:33
Alignment explanation
Indices: 204928--205030 Score: 170
Period size: 33 Copynumber: 3.1 Consensus size: 33
204918 TGAAACCCTT
* *
204928 GAAAAAAAGGATTCAAATATCAACCAAAAACAGA
1 GAAAAAAA-TATTCGAATATCAACCAAAAACAGA
204962 GAAAAAAATATTCGAATATCAACCAAAAACAGA
1 GAAAAAAATATTCGAATATCAACCAAAAACAGA
*
204995 GAAAAAATTATTCGAATATCAACCAAAAACAGA
1 GAAAAAAATATTCGAATATCAACCAAAAACAGA
205028 GAA
1 GAA
205031 TTTGAGAGAA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
33 58 0.88
34 8 0.12
ACGTcount: A:0.60, C:0.15, G:0.11, T:0.15
Consensus pattern (33 bp):
GAAAAAAATATTCGAATATCAACCAAAAACAGA
Done.