Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 293 of 318
Found at i:93328202 original size:169 final size:170
Alignment explanation
Indices: 93327912--93328220 Score: 602
Period size: 169 Copynumber: 1.8 Consensus size: 170
93327902 GAGTTCAATC
*
93327912 CAACTCAAATGTTTTCTAAATTTATAATATATTATATTTTGTTACTTTATATTTATTATATAATT
1 CAACCCAAATGTTTTCTAAATTTATAATATATTATATTTTGTTACTTTATATTTATTATATAATT
93327977 ATACAGCATAAATTTTAAATCTACATAATAGTGAAATTTTAATAAATAAAAAATATGTGTATAAT
66 ATACAGCATAAATTTTAAATCTACATAATAGTGAAATTTTAATAAATAAAAAATATGTGTATAAT
93328042 TATTAAATATAGTCAGCTGACTCAACACTCAGACTCGATT
131 TATTAAATATAGTCAGCTGACTCAACACTCAGACTCGATT
93328082 CAACCCAAAT-TTTTCTAAATTTATAATATATTATATTTTGTTACTTTATATTTATTATATAATT
1 CAACCCAAATGTTTTCTAAATTTATAATATATTATATTTTGTTACTTTATATTTATTATATAATT
93328146 ATACAGCATAAATTTTAAATCTACATAATAGTGAAATTTTAATAAATAAAAAATATGTGTATAAT
66 ATACAGCATAAATTTTAAATCTACATAATAGTGAAATTTTAATAAATAAAAAATATGTGTATAAT
93328211 TATTAAATAT
131 TATTAAATAT
93328221 TAAAGGGATA
Statistics
Matches: 138, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
169 129 0.93
170 9 0.07
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (170 bp):
CAACCCAAATGTTTTCTAAATTTATAATATATTATATTTTGTTACTTTATATTTATTATATAATT
ATACAGCATAAATTTTAAATCTACATAATAGTGAAATTTTAATAAATAAAAAATATGTGTATAAT
TATTAAATATAGTCAGCTGACTCAACACTCAGACTCGATT
Found at i:93330237 original size:4 final size:4
Alignment explanation
Indices: 93330222--93330257 Score: 63
Period size: 4 Copynumber: 8.8 Consensus size: 4
93330212 GGTTGTCGTC
93330222 TTTG TCTTG TTTG TTTG TTTG TTTG TTTG TTTG TTT
1 TTTG T-TTG TTTG TTTG TTTG TTTG TTTG TTTG TTT
93330258 CTGCCCCTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.00, C:0.03, G:0.22, T:0.75
Consensus pattern (4 bp):
TTTG
Found at i:93334803 original size:14 final size:15
Alignment explanation
Indices: 93334777--93334809 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
93334767 TTTATGAGCC
93334777 AAAATATAATATCAT
1 AAAATATAATATCAT
*
93334792 AAAATA-AATATCTT
1 AAAATATAATATCAT
93334806 AAAA
1 AAAA
93334810 CGAATACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATATAATATCAT
Found at i:93341001 original size:42 final size:42
Alignment explanation
Indices: 93340954--93341037 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
93340944 AAATTAATAC
93340954 AATCCAACTATTATCTCCTTTAACAATCAATTCAATTTAATT
1 AATCCAACTATTATCTCCTTTAACAATCAATTCAATTTAATT
93340996 AATCCAACTATTATCTCCTTTAACAATCAATTCAATTTAATT
1 AATCCAACTATTATCTCCTTTAACAATCAATTCAATTTAATT
93341038 GTTGCTATTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.40
Consensus pattern (42 bp):
AATCCAACTATTATCTCCTTTAACAATCAATTCAATTTAATT
Found at i:93361812 original size:5 final size:5
Alignment explanation
Indices: 93361802--93361829 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
93361792 TATTTTTAAC
93361802 AAAGA AAAGA AAAGA AAAGA AAAGA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAA
93361830 AACCCATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:93366772 original size:42 final size:42
Alignment explanation
Indices: 93366713--93366795 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
93366703 ATCCTAATTA
* *
93366713 GGAAAATAATTCCCTTATTCTAATAAACTATTAAAATATAAG
1 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAG
* *
93366755 GGAAAATAGTTCTCTTATTCTAATAAACTACTAAAAGATAA
1 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
93366796 AATAAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (42 bp):
GGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAG
Found at i:93366847 original size:19 final size:18
Alignment explanation
Indices: 93366823--93366866 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
93366813 AATATGAATA
*
93366823 AAATTTATCTTCCTAAAT
1 AAATTTATCTACCTAAAT
93366841 AAGATTTATCTACCTAAAT
1 AA-ATTTATCTACCTAAAT
93366860 AAATTTA
1 AAATTTA
93366867 AAATATATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:93370705 original size:19 final size:18
Alignment explanation
Indices: 93370681--93370724 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
93370671 AATATGAATA
*
93370681 AAATTTATCTTCCTAAAT
1 AAATTTATCTACCTAAAT
93370699 AAGATTTATCTACCTAAAT
1 AA-ATTTATCTACCTAAAT
93370718 AAATTTA
1 AAATTTA
93370725 AAATATATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:93378066 original size:22 final size:22
Alignment explanation
Indices: 93378021--93378066 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
93378011 ACGTTAATCC
** *
93378021 TTTGAAAATTTAATTAAAATAT
1 TTTGAAAATTTAAAGAAAACAT
*
93378043 TTTGAAAATTTAAAGAAACCAT
1 TTTGAAAATTTAAAGAAAACAT
93378065 TT
1 TT
93378067 AAAACCTGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (22 bp):
TTTGAAAATTTAAAGAAAACAT
Found at i:93378388 original size:21 final size:22
Alignment explanation
Indices: 93378357--93378413 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
93378347 AAAATAAATT
93378357 AAAATTA--ATAAAAA-TAT-A
1 AAAATTATTATAAAAATTATAA
93378375 AAAATGTATTATAAAAATTATAA
1 AAAAT-TATTATAAAAATTATAA
93378398 AAAATTATTATAAAAA
1 AAAATTATTATAAAAA
93378414 ATTAATTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.15
19 2 0.06
21 7 0.21
22 14 0.41
23 6 0.18
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (22 bp):
AAAATTATTATAAAAATTATAA
Found at i:93378389 original size:13 final size:12
Alignment explanation
Indices: 93378371--93378413 Score: 63
Period size: 13 Copynumber: 3.7 Consensus size: 12
93378361 TTAATAAAAA
93378371 TATAAAAATGTAT
1 TATAAAAAT-TAT
93378384 TATAAAAATTA-
1 TATAAAAATTAT
93378395 TA-AAAAATTAT
1 TATAAAAATTAT
93378406 TATAAAAA
1 TATAAAAA
93378414 ATTAATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 8 0.29
11 4 0.14
12 7 0.25
13 9 0.32
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (12 bp):
TATAAAAATTAT
Found at i:93378414 original size:13 final size:13
Alignment explanation
Indices: 93378391--93378417 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
93378381 TATTATAAAA
93378391 ATTATAAAAAATT
1 ATTATAAAAAATT
93378404 ATTATAAAAAATT
1 ATTATAAAAAATT
93378417 A
1 A
93378418 ATTAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTATAAAAAATT
Found at i:93378549 original size:5 final size:5
Alignment explanation
Indices: 93378539--93378571 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
93378529 AGGGAGGATT
*
93378539 TTTTA TTTTA TTTTA TTTTA TATTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
93378572 AATATCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:93378559 original size:15 final size:15
Alignment explanation
Indices: 93378539--93378582 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
93378529 AGGGAGGATT
*
93378539 TTTTATTTTATTTTA
1 TTTTATATTATTTTA
93378554 TTTTATATTATTTTA
1 TTTTATATTATTTTA
* *
93378569 TTTAATATCATTTT
1 TTTTATATTATTTT
93378583 TATAATACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTATATTATTTTA
Found at i:93382287 original size:37 final size:37
Alignment explanation
Indices: 93382237--93382312 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
93382227 TTTTACTTTC
*
93382237 ATATTTTTATTCAAGTAAATATGGTAACAAGTTATTA
1 ATATTTTCATTCAAGTAAATATGGTAACAAGTTATTA
93382274 ATATTTTCATTCAAGTAAATATGGTAACAAGTTATTA
1 ATATTTTCATTCAAGTAAATATGGTAACAAGTTATTA
93382311 AT
1 AT
93382313 GTTATTTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.42
Consensus pattern (37 bp):
ATATTTTCATTCAAGTAAATATGGTAACAAGTTATTA
Found at i:93387989 original size:61 final size:62
Alignment explanation
Indices: 93387853--93387989 Score: 136
Period size: 61 Copynumber: 2.2 Consensus size: 62
93387843 CAATTTGATC
*
93387853 TTAAATATAATAAATTTAACAAATTTAACACTCAATGTTTACAAAATGTCATTTTAGTTCAAATT
1 TTAAAT-TAA-AAATTTAACAAATTTAACACTCAATCTTTACAAAATGT-ATTTTAGTTCAAATT
* * * ** ** *
93387918 CTAAA--AAAAAATTAATAAATTTAGTACTCAATCTTTACAAAATG-ATTTTTTTTTCAATTT
1 TTAAATTAAAAATTTAACAAATTTAACACTCAATCTTTACAAAATGTA-TTTTAGTTCAAATT
93387978 TTAAATTAAAAA
1 TTAAATTAAAAA
93387990 AAATCACCAA
Statistics
Matches: 59, Mismatches: 10, Indels: 9
0.76 0.13 0.12
Matches are distributed among these distances:
59 1 0.02
60 15 0.25
61 32 0.54
62 7 0.12
65 4 0.07
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (62 bp):
TTAAATTAAAAATTTAACAAATTTAACACTCAATCTTTACAAAATGTATTTTAGTTCAAATT
Found at i:93392343 original size:21 final size:21
Alignment explanation
Indices: 93392319--93392359 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
93392309 TGTAAATATT
93392319 CTCATAGATTAATAAAGTACA
1 CTCATAGATTAATAAAGTACA
* *
93392340 CTCATTGATTTATAAAGTAC
1 CTCATAGATTAATAAAGTAC
93392360 GCTATCTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (21 bp):
CTCATAGATTAATAAAGTACA
Found at i:93395856 original size:12 final size:12
Alignment explanation
Indices: 93395839--93395869 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
93395829 TTTGTCAGAA
*
93395839 GCACCACATTAT
1 GCACCACACTAT
93395851 GCACCACACTAT
1 GCACCACACTAT
93395863 GCACCAC
1 GCACCAC
93395870 CGCAACATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.42, G:0.10, T:0.16
Consensus pattern (12 bp):
GCACCACACTAT
Found at i:93396237 original size:24 final size:24
Alignment explanation
Indices: 93396188--93396274 Score: 77
Period size: 24 Copynumber: 3.6 Consensus size: 24
93396178 GATGGAGACA
* * *
93396188 AAGATGAAGATGA-GTGTGGAGCTG
1 AAGATGAAGACGATG-GTCGAGATG
93396212 AAGATGAAGACGATGGTCGAGATG
1 AAGATGAAGACGATGGTCGAGATG
* ** *
93396236 AAGATGAATACGGGGGTCGAGGTG
1 AAGATGAAGACGATGGTCGAGATG
* *
93396260 AAGATGGAGAAGATG
1 AAGATGAAGACGATG
93396275 AAGACGATGA
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
24 49 0.98
25 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.41, T:0.17
Consensus pattern (24 bp):
AAGATGAAGACGATGGTCGAGATG
Found at i:93398528 original size:34 final size:34
Alignment explanation
Indices: 93398482--93398551 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
93398472 TTTAGTATTA
* *
93398482 TTTTATAAAAATTAATTAAATTAGGGTTTATGGT
1 TTTTATAAAAATTAAGTAAATTAGGGTTTAGGGT
93398516 TTTTA-AATAAATTAAGTAAATTAGGGTTTAGGGT
1 TTTTATAA-AAATTAAGTAAATTAGGGTTTAGGGT
93398550 TT
1 TT
93398552 AAGGTTTAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 2 0.06
34 31 0.94
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (34 bp):
TTTTATAAAAATTAAGTAAATTAGGGTTTAGGGT
Found at i:93398548 original size:7 final size:7
Alignment explanation
Indices: 93398540--93398585 Score: 83
Period size: 7 Copynumber: 6.6 Consensus size: 7
93398530 AGTAAATTAG
*
93398540 GGTTTAG
1 GGTTTAA
93398547 GGTTTAA
1 GGTTTAA
93398554 GGTTTAA
1 GGTTTAA
93398561 GGTTTAA
1 GGTTTAA
93398568 GGTTTAA
1 GGTTTAA
93398575 GGTTTAA
1 GGTTTAA
93398582 GGTT
1 GGTT
93398586 AAAATTAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (7 bp):
GGTTTAA
Found at i:93402478 original size:18 final size:18
Alignment explanation
Indices: 93402452--93402494 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
93402442 GACTGAAAAA
*
93402452 AGGAAACATATAAGGGTT
1 AGGAAACATATAAGGGCT
*
93402470 AGGATACATATAAGGGCT
1 AGGAAACATATAAGGGCT
93402488 AGGAAAC
1 AGGAAAC
93402495 GCATCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGAAACATATAAGGGCT
Found at i:93403090 original size:7 final size:7
Alignment explanation
Indices: 93403078--93403102 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
93403068 TTATAGACAT
93403078 AATACTA
1 AATACTA
93403085 AATACTA
1 AATACTA
93403092 AATACTA
1 AATACTA
93403099 AATA
1 AATA
93403103 TGAAATGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:93404083 original size:20 final size:21
Alignment explanation
Indices: 93404055--93404093 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
93404045 GTTAATTAAA
*
93404055 ATTACATAA-ATGAAAAAAAT
1 ATTAAATAATATGAAAAAAAT
*
93404075 ATTAAATAATATTAAAAAA
1 ATTAAATAATATGAAAAAA
93404094 TTAAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (21 bp):
ATTAAATAATATGAAAAAAAT
Found at i:93404091 original size:18 final size:18
Alignment explanation
Indices: 93404070--93404153 Score: 52
Period size: 18 Copynumber: 4.7 Consensus size: 18
93404060 ATAAATGAAA
93404070 AAAATATTAAATAATATT
1 AAAATATTAAATAATATT
* *
93404088 AAAAAATTAAA-ATTAATT
1 AAAATATTAAATAAT-ATT
*
93404106 AAAATGACATAAATGAA-A--
1 AAAAT-A-TTAAAT-AATATT
*
93404124 AAAATATTAAACAATATT
1 AAAATATTAAATAATATT
93404142 CAAAA-ATTAAAT
1 -AAAATATTAAAT
93404154 TTAACCCTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 18
0.65 0.11 0.24
Matches are distributed among these distances:
15 2 0.04
16 5 0.10
17 3 0.06
18 28 0.57
19 5 0.10
20 5 0.10
22 1 0.02
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAATATTAAATAATATT
Found at i:93404126 original size:54 final size:54
Alignment explanation
Indices: 93404046--93404157 Score: 188
Period size: 54 Copynumber: 2.1 Consensus size: 54
93404036 AAGATACAAG
* *
93404046 TTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTAAAAAATTAAAA
1 TTAATTAAAATGACATAAATGAAAAAAATATTAAACAATATTAAAAAATTAAAA
* *
93404100 TTAATTAAAATGACATAAATGAAAAAAATATTAAACAATATTCAAAAATTAAAT
1 TTAATTAAAATGACATAAATGAAAAAAATATTAAACAATATTAAAAAATTAAAA
93404154 TTAA
1 TTAA
93404158 CCCTTACAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (54 bp):
TTAATTAAAATGACATAAATGAAAAAAATATTAAACAATATTAAAAAATTAAAA
Found at i:93407206 original size:207 final size:204
Alignment explanation
Indices: 93406849--93407253 Score: 444
Period size: 207 Copynumber: 2.0 Consensus size: 204
93406839 GCAAATAATT
*** *
93406849 TAAGAAATAAATATCTTTATAATTTACGTGATCAAATTGTATTGATTGAATCCAAAACATTAATT
1 TAAGAAATAAATATCTTTATAATTTACAAAATCAAATTGTATTGATTGAATCCAAAACATTAACT
* * * * *
93406914 AACGCGTTGAAGGCGCATCAAGGGACCACCTTTGACATCCCACTATCTCTTTTATTATCTTTGTC
66 AACGCGTTGAAGGCGCATCAAAGGACCACCTTTCACATCCCACAACCTCTCTTATTATCTTTGTC
* * ** * *** *
93406979 AGCCCGCATCATCTTTTAATGGTGTCATTTACTTTCATA-CTATCAACACAAGTTTATAAGTTTG
131 AGCCCACATCATCCTTTAATGGCATCATTCACCGCCA-AGCTATCAACACAAGTTTATAAGTTTC
93407043 TTTTTTTGCA
195 TTTTTTTGCA
* * *
93407053 TAAGAAATAAATTTCTTTGTAATTTACAAAATCAAGTTGTCAGATTGATTGAA-CCTAAAACATT
1 TAAGAAATAAATATCTTTATAATTTACAAAATCAAATTGT---ATTGATTGAATCC-AAAACATT
* * * *
93407117 GACTAA-GACGTTGGAGGCGCCTCAAAGGACCA-CTTTCCACA-CCTCACAACCTCTCTTCTTAT
62 AACTAACG-CGTTGAAGGCGCATCAAAGGACCACCTTT-CACATCC-CACAACCTCTCTTATTAT
* *
93407179 CTTTG-GAGGCCCACATCATCCTTTAATGGCATCCTTCACCGCCAAGCTATCAACACAAGTTTAT
124 CTTTGTCA-GCCCACATCATCCTTTAATGGCATCATTCACCGCCAAGCTATCAACACAAGTTTAT
93407243 AAGTTTCTTTT
188 AAGTTTCTTTT
93407254 CTTGAATACA
Statistics
Matches: 165, Mismatches: 27, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
204 34 0.21
206 11 0.07
207 120 0.73
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (204 bp):
TAAGAAATAAATATCTTTATAATTTACAAAATCAAATTGTATTGATTGAATCCAAAACATTAACT
AACGCGTTGAAGGCGCATCAAAGGACCACCTTTCACATCCCACAACCTCTCTTATTATCTTTGTC
AGCCCACATCATCCTTTAATGGCATCATTCACCGCCAAGCTATCAACACAAGTTTATAAGTTTCT
TTTTTTGCA
Found at i:93410512 original size:30 final size:31
Alignment explanation
Indices: 93410446--93410510 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
93410436 TTTTTTTAGG
**
93410446 TTTTAAGGGTCTAAAATTTTTTTTACCAACT
1 TTTTAAGGACCTAAAATTTTTTTTACCAACT
93410477 TTTTAAGGACCTAAAATTTTTTTCT-CCAACT
1 TTTTAAGGACCTAAAATTTTTTT-TACCAACT
93410508 TTT
1 TTT
93410511 AAAAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (31 bp):
TTTTAAGGACCTAAAATTTTTTTTACCAACT
Found at i:93410523 original size:31 final size:31
Alignment explanation
Indices: 93410457--93410524 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
93410447 TTTAAGGGTC
* ** *
93410457 TAAAATTTTTTTTACCAACTTTTTAAGGACC
1 TAAAATTTTTTTTACCAACTTTTAAAAAACA
*
93410488 TAAAATTTTTTTCT-CCAACTTTTAAAAAATA
1 TAAAATTTTTTT-TACCAACTTTTAAAAAACA
93410519 TAAAAT
1 TAAAAT
93410525 CCCATTTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.44
Consensus pattern (31 bp):
TAAAATTTTTTTTACCAACTTTTAAAAAACA
Found at i:93412110 original size:30 final size:30
Alignment explanation
Indices: 93412054--93412154 Score: 114
Period size: 30 Copynumber: 3.4 Consensus size: 30
93412044 GAGCCCAAAT
* * *
93412054 ACAAGCCC-AAATACCTTAGACCCGTTACA
1 ACAAACCCAAAATAGCTCAGACCCGTTACA
* *
93412083 GCAAACCCAAAATAGCTCAGACTCGTTACA
1 ACAAACCCAAAATAGCTCAGACCCGTTACA
* *
93412113 ACAAACTCAAAATAGCTCAGACCCGTTATA
1 ACAAACCCAAAATAGCTCAGACCCGTTACA
*
93412143 CACACACCCAAA
1 -ACAAACCCAAA
93412155 CAGACCGGTT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 6 0.10
30 44 0.75
31 9 0.15
ACGTcount: A:0.42, C:0.33, G:0.10, T:0.16
Consensus pattern (30 bp):
ACAAACCCAAAATAGCTCAGACCCGTTACA
Found at i:93413503 original size:21 final size:20
Alignment explanation
Indices: 93413479--93413597 Score: 61
Period size: 21 Copynumber: 6.0 Consensus size: 20
93413469 ATATTTTAAC
* *
93413479 TTATATATCTTATATATTTAT
1 TTATATATATTATACA-TTAT
*
93413500 TTATTTATATTATACATTAT
1 TTATATATATTATACATTAT
* * * *
93413520 TT-TAAAAACT-TACATTTT
1 TTATATATATTATACATTAT
*
93413538 TATATTATATATTATAAATTAT
1 T-TA-TATATATTATACATTAT
*
93413560 TTCAT-T-TATTAT-TATT-T
1 TT-ATATATATTATACATTAT
*
93413577 TTATATACTATTATATATTAT
1 TTATATA-TATTATACATTAT
93413598 CTATTTTAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 20
0.69 0.13 0.19
Matches are distributed among these distances:
16 2 0.03
17 4 0.05
18 11 0.15
19 17 0.23
20 11 0.15
21 21 0.28
22 8 0.11
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATATATATTATACATTAT
Found at i:93419408 original size:52 final size:49
Alignment explanation
Indices: 93419311--93419677 Score: 422
Period size: 46 Copynumber: 7.6 Consensus size: 49
93419301 TTTGAGTACT
* * **
93419311 TCTGATCAAGTG---ATAAAGTGATAAGTGGTATCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
93419357 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
93419409 TCTGATCAAGTG---ATAAAGTGATAAGTTATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
93419455 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
93419501 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
93419553 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
93419605 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
93419651 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
93419678 GCTACACTTA
Statistics
Matches: 290, Mismatches: 17, Indels: 28
0.87 0.05 0.08
Matches are distributed among these distances:
46 154 0.53
48 1 0.00
49 2 0.01
50 1 0.00
52 132 0.46
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:93419525 original size:98 final size:94
Alignment explanation
Indices: 93419311--93419677 Score: 431
Period size: 98 Copynumber: 3.8 Consensus size: 94
93419301 TTTGAGTACT
* * **
93419311 TCTGATCAAGTG--ATAAAGTGATAAGTGGTATCTTTAGCTACACTTATCTGATCAAGTGACAAG
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC---
*
93419374 TGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
63 ---AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
93419409 TCTGATCAAGTG--ATAAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGACAAA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAA
* *
93419472 GTGATAAGTGATAGCTTCAGCTACACTTA
66 GTGATAAGTGATAGCTTCGGCTATACTTA
93419501 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTGAC-A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
93419566 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
62 C------AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* ** *
93419605 TCTGATCAAGAGAC--AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAA
93419668 GTGATAAGTG
66 GTGATAAGTG
93419678 GCTACACTTA
Statistics
Matches: 240, Mismatches: 17, Indels: 30
0.84 0.06 0.10
Matches are distributed among these distances:
92 54 0.22
95 1 0.00
96 1 0.00
98 141 0.59
104 43 0.18
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (94 bp):
TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAA
GTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:93419659 original size:196 final size:196
Alignment explanation
Indices: 93419325--93419677 Score: 589
Period size: 196 Copynumber: 1.8 Consensus size: 196
93419315 ATCAAGTGAT
* * * *
93419325 AAAGTGATAAGTGGTATCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * * *
93419390 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
93419455 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
93419520 G
196 G
* *
93419521 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
93419586 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
93419651 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
93419678 GCTACACTTA
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 144 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:93419685 original size:37 final size:37
Alignment explanation
Indices: 93419641--93419750 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
93419631 GATAGCTTTA
93419641 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
93419678 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
93419715 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
93419751 ATCATACGTA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 12 0.17
37 58 0.83
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:93419714 original size:150 final size:149
Alignment explanation
Indices: 93419311--93419666 Score: 449
Period size: 150 Copynumber: 2.4 Consensus size: 149
93419301 TTTGAGTACT
* * * * * *
93419311 TCTGATCAAGTGATAAAGTGATAAGTGGTATCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * *
93419376 GAAAGTGATAAGTAATAGCTTC-G---GCTATACTTATC---TGATCAAGTGATAAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGCAAACTAAACTGATCAAGTGA-CAAGTGATAAAGTGATAAG
*
93419434 TTATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
* *
93419455 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * * *
93419520 GAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA-AAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGC-AAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAG
93419584 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
*
93419605 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAA
93419667 AGTGATAAGT
Statistics
Matches: 190, Mismatches: 14, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
144 82 0.43
145 1 0.01
149 7 0.04
150 90 0.47
151 7 0.04
152 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (149 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
GAAAGTGATAACTATAGCTTCAGCAAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAGTG
ATAGCTTCGGCTATACTTA
Found at i:93420603 original size:14 final size:16
Alignment explanation
Indices: 93420584--93420620 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
93420574 CGATATCCTT
93420584 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
93420598 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
93420614 TTT-CATC
1 TTTGCATC
93420621 ACATCGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:93420620 original size:15 final size:15
Alignment explanation
Indices: 93420584--93420633 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
93420574 CGATATCCTT
93420584 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
93420598 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
* *
93420614 TTT-CATCACAT-CG
1 TTTGCATCTCATGCA
93420627 TTTGCAT
1 TTTGCAT
93420634 TCAAAGAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 11 0.35
16 6 0.19
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:93428983 original size:205 final size:205
Alignment explanation
Indices: 93428631--93429099 Score: 665
Period size: 205 Copynumber: 2.3 Consensus size: 205
93428621 TAGGCCGCAG
* * * * * * *
93428631 CATAGCAGATCTCATCTTCAGATGTTTATG-CTGAAGCAGATCCAGGATGGTTTGGTATCCTTGT
1 CATAGCAGATCTCACCTTCAGACGATTA-GACTAAAGCAGATCCAAGATGATTTGGCATCCTTGT
* *
93428695 GCTTACGAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACACTAAAACAAATC
65 GCTTACAAAGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACACTAAAACAAATC
* * *
93428760 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCATTTCAATG
130 TAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACG
93428825 GAGAGCAGACA
195 GAGAGCAGACA
* *
93428836 CATAGCA-ATCTGACCTTCAGACGATTAGACTAAAGCAAGATCCAAGATGATCTGGCATCCTTGT
1 CATAGCAGATCTCACCTTCAGACGATTAGACTAAAGC-AGATCCAAGATGATTTGGCATCCTTGT
* * * * *
93428900 GTTTACAAAGAACAAATCGGAGACATAGTTTATTTGGCTTTCACGTGTTTACGA-TGAAACAAAT
65 GCTTACAAAGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTAC-ACTAAAACAAAT
93428964 CTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAAC
129 CTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAAC
* *
93429029 GGTGAGCAGATA
194 GGAGAGCAGACA
* * * *
93429041 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATC
1 CATAGCAGATCTCACCTTCAGACGATTAGACTAAAGCAGATCCAAGATGATTTGGCATC
93429100 TCTGTATTGT
Statistics
Matches: 233, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
203 1 0.00
204 22 0.09
205 185 0.79
206 25 0.11
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (205 bp):
CATAGCAGATCTCACCTTCAGACGATTAGACTAAAGCAGATCCAAGATGATTTGGCATCCTTGTG
CTTACAAAGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACACTAAAACAAATCT
AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
AGAGCAGACA
Found at i:93429130 original size:118 final size:118
Alignment explanation
Indices: 93428966--93429218 Score: 470
Period size: 118 Copynumber: 2.1 Consensus size: 118
93428956 AAACAAATCT
93428966 AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
1 AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
*
93429031 TGAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCC
66 GGAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCC
*
93429084 AAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
1 AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
*
93429149 GGAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATTC
66 GGAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCC
*
93429202 AAGATGATTTAGCATCT
1 AAGATGATTTGGCATCT
93429219 TTGTGCTTAC
Statistics
Matches: 131, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 131 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (118 bp):
AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
GGAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCC
Found at i:93429305 original size:323 final size:324
Alignment explanation
Indices: 93428761--93429418 Score: 998
Period size: 323 Copynumber: 2.0 Consensus size: 324
93428751 AAACAAATCT
* *
93428761 AAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCATTTCAATGG
1 AAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
* *
93428826 AGAGCAGACACATAGCAATCTGACCTTCAGACGATTAGACTAAAGCAAGATCCAAGATGATCTGG
66 AGAGCAGACACATAGCAATCTCACCTTCAGACGATTAGACTAAAGCAAGATCCAAGATGATCTAG
* * * *
93428891 CATCCTTGTGTTTACAAAGAACAAATCGGAGACATAGTTTATTTGGCTTTCACGTGTTTACGATG
131 CATCCTTGTGCTTACAAAGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATG
* *
93428956 AAACAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCC
196 AAACAAATCTAAGATGATTTGGCATCTCTGTATTAGCAGAGAGCAAATCGAAGTCTAGCATCTCC
* * * * *
93429021 ACTTCAACGGTGAGCAGATACATAGCAGATCTCACCTTCAGAT-GTTTATACTGAAGC-AGATCC
261 ACTTCAACGGGGAGCAAATACATAGCAGACCTCACCTTCAGATAATTT-CACTGAAGCAAGATCC
93429084 AAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
1 AAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
* * * * * * * *
93429149 GGAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGC-AGATTCAAGATGATTTA
66 AGAGCAGACACATAGCA-ATCTCACCTTCAGACGATTAGACTAAAGCAAGATCCAAGATGATCTA
* * * *
93429213 GCATCTTTGTGCTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGAT
130 GCATCCTTGTGCTTACAAAGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGAT
* * * *
93429278 GAAGCAAATCTAGGATGATTTGGCATCTCTGTATTATCAGAGAGCAAATCGAAGTCTAGCATCTT
195 GAAACAAATCTAAGATGATTTGGCATCTCTGTATTAGCAGAGAGCAAATCGAAGTCTAGCATCTC
93429343 CACTTCAACGGGGAGCAAATACATAGCAGACCTCACCTTCAGATAATTTCACTGAAGCAAGATCC
260 CACTTCAACGGGGAGCAAATACATAGCAGACCTCACCTTCAGATAATTTCACTGAAGCAAGATCC
93429408 AAGATGATTTG
1 AAGATGATTTG
93429419 ATACTCTTAT
Statistics
Matches: 301, Mismatches: 31, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
323 257 0.85
324 44 0.15
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (324 bp):
AAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGG
AGAGCAGACACATAGCAATCTCACCTTCAGACGATTAGACTAAAGCAAGATCCAAGATGATCTAG
CATCCTTGTGCTTACAAAGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATG
AAACAAATCTAAGATGATTTGGCATCTCTGTATTAGCAGAGAGCAAATCGAAGTCTAGCATCTCC
ACTTCAACGGGGAGCAAATACATAGCAGACCTCACCTTCAGATAATTTCACTGAAGCAAGATCC
Found at i:93429785 original size:30 final size:30
Alignment explanation
Indices: 93429742--93429850 Score: 182
Period size: 30 Copynumber: 3.6 Consensus size: 30
93429732 ACACAAGCCC
* *
93429742 AAATACCTTAGACCCGTTACAGCAAACCCA
1 AAATAGCTCAGACCCGTTACAGCAAACCCA
*
93429772 AAATAGCTCAGACCCGTTACAACAAACCCA
1 AAATAGCTCAGACCCGTTACAGCAAACCCA
93429802 AAATAGCTCAGACCCGTTACAGCAAACCCA
1 AAATAGCTCAGACCCGTTACAGCAAACCCA
*
93429832 AAATAGCCCAGACCCGTTA
1 AAATAGCTCAGACCCGTTA
93429851 TACACACACC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 74 1.00
ACGTcount: A:0.40, C:0.33, G:0.12, T:0.15
Consensus pattern (30 bp):
AAATAGCTCAGACCCGTTACAGCAAACCCA
Found at i:93429831 original size:60 final size:61
Alignment explanation
Indices: 93429732--93429864 Score: 198
Period size: 60 Copynumber: 2.2 Consensus size: 61
93429722 AAGAGCCCAA
* * *
93429732 ACACAAGCCC-AAATACCTTAGACCCGTTACAGCAAACCCAAAATAGCTCAGACCCGTTAC
1 ACACAAACCCAAAATACCTCAGACCCGTTACAGCAAACCCAAAATAGCCCAGACCCGTTAC
* *
93429792 A-ACAAACCCAAAATAGCTCAGACCCGTTACAGCAAACCCAAAATAGCCCAGACCCGTTAT
1 ACACAAACCCAAAATACCTCAGACCCGTTACAGCAAACCCAAAATAGCCCAGACCCGTTAC
*
93429852 ACACACACCCAAA
1 ACACAAACCCAAA
93429865 CAGACCGGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
59 7 0.11
60 48 0.74
61 10 0.15
ACGTcount: A:0.41, C:0.35, G:0.11, T:0.13
Consensus pattern (61 bp):
ACACAAACCCAAAATACCTCAGACCCGTTACAGCAAACCCAAAATAGCCCAGACCCGTTAC
Found at i:93431219 original size:7 final size:7
Alignment explanation
Indices: 93431207--93431326 Score: 54
Period size: 7 Copynumber: 17.1 Consensus size: 7
93431197 TTTTAACTTA
93431207 TATATAT
1 TATATAT
93431214 TATATATT
1 TATATA-T
*
93431222 TATTTAT
1 TATATAT
93431229 T-TATAT
1 TATATAT
*
93431235 TATACAT
1 TATATAT
93431242 TAT-T-T
1 TATATAT
* *
93431247 TAAAAACT
1 TATATA-T
*
93431255 TACAT-T
1 TATATAT
*
93431261 TTTATAT
1 TATATAT
93431268 TATATAT
1 TATATAT
*
93431275 TATAAAT
1 TATATAT
*
93431282 TATTTCAT
1 TATAT-AT
93431290 T-TATTAT
1 TATA-TAT
*
93431297 TAT-TTT
1 TATATAT
93431303 ATATACTAT
1 -TATA-TAT
93431312 TATATAT
1 TATATAT
*
93431319 TATCTAT
1 TATATAT
93431326 T
1 T
93431327 TTAAAATCCA
Statistics
Matches: 83, Mismatches: 18, Indels: 24
0.66 0.14 0.19
Matches are distributed among these distances:
5 3 0.04
6 11 0.13
7 48 0.58
8 19 0.23
9 2 0.02
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (7 bp):
TATATAT
Found at i:93431222 original size:23 final size:21
Alignment explanation
Indices: 93431191--93431238 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
93431181 ATTATTATGC
93431191 ATTATAT-TTTAACTTATATAT
1 ATTATATATTT-ACTTATATAT
* *
93431212 ATTATATATTTATTTATTTAT
1 ATTATATATTTACTTATATAT
93431233 ATTATA
1 ATTATA
93431239 CATTATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTATATATTTACTTATATAT
Found at i:93435028 original size:37 final size:37
Alignment explanation
Indices: 93434987--93435060 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
93434977 AACTCCGATA
* *
93434987 ATTCTGTCAGGCCATTTTGAGTGGCTATTGTAATCTT
1 ATTCTGTCAGACCATTTTGAGTGGCTATTATAATCTT
*
93435024 ATTCTGTTAGACCATTTTGAGTGGCTATTATAATCTT
1 ATTCTGTCAGACCATTTTGAGTGGCTATTATAATCTT
93435061 TCGAATTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.45
Consensus pattern (37 bp):
ATTCTGTCAGACCATTTTGAGTGGCTATTATAATCTT
Found at i:93436183 original size:19 final size:20
Alignment explanation
Indices: 93436159--93436199 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
93436149 ATGAATCAAA
93436159 TTATTTTTT-AAATTATATT
1 TTATTTTTTAAAATTATATT
*
93436178 TTATTTTTTAAAATTTTATT
1 TTATTTTTTAAAATTATATT
93436198 TT
1 TT
93436200 TAAACAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TTATTTTTTAAAATTATATT
Found at i:93437135 original size:41 final size:40
Alignment explanation
Indices: 93437057--93437135 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 40
93437047 AAATAAAAAT
* * * *
93437057 AAAAATTAAAAAAAATATTTTAAAAATTAAAGGAATTTAA
1 AAAAATAAAAAAAAAAATTATAAAAATTAAAGAAATTTAA
93437097 AAAAATAAAAAAATAAAATTATAAAAATTACAA-AAATTT
1 AAAAATAAAAAAA-AAAATTATAAAAATTA-AAGAAATTT
93437136 TAGAACATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 12 0.36
41 19 0.58
42 2 0.06
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (40 bp):
AAAAATAAAAAAAAAAATTATAAAAATTAAAGAAATTTAA
Found at i:93438721 original size:128 final size:129
Alignment explanation
Indices: 93438534--93438773 Score: 385
Period size: 128 Copynumber: 1.9 Consensus size: 129
93438524 AACTCAATCA
93438534 AGAGTTATATAGATAATATATTTATATAAAAAATTAGGTAAAGCTTTGGTTGAAATAATAATGTT
1 AGAGTTATATAGATAATATATTTATATAAAAAATTAGGTAAAGCTTTGGTTGAAATAATAATGTT
*
93438599 AAAAACTTAAAAATCCTAATGTCTTGAAT-TCAAATATGATCATATAAAACTCAATCGGGAGACG
66 AAAAACTTAAAAATCCTAATGTCTTAAATAT-AAATATGATCATATAAAACTCAATCGGGAGACG
* *
93438663 AGAGTTTTATAGATAATATATTTATAT-AAAAATTAGTTAAAGCTTTGGTTGAAATAATAATGTT
1 AGAGTTATATAGATAATATATTTATATAAAAAATTAGGTAAAGCTTTGGTTGAAATAATAATGTT
* * * * *
93438727 AAAAGCTTAAAATTTCTAATGTCTTAAATATTAATATGATTATATAA
66 AAAAACTTAAAAATCCTAATGTCTTAAATATAAATATGATCATATAA
93438774 CTTTTATATT
Statistics
Matches: 102, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
128 75 0.74
129 27 0.26
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (129 bp):
AGAGTTATATAGATAATATATTTATATAAAAAATTAGGTAAAGCTTTGGTTGAAATAATAATGTT
AAAAACTTAAAAATCCTAATGTCTTAAATATAAATATGATCATATAAAACTCAATCGGGAGACG
Found at i:93439756 original size:14 final size:15
Alignment explanation
Indices: 93439737--93439769 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
93439727 TAAGTAAAAA
93439737 ATAATATA-AAATTT
1 ATAATATATAAATTT
*
93439751 ATAATATATAACTTT
1 ATAATATATAAATTT
93439766 ATAA
1 ATAA
93439770 AAAAAAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATATATAAATTT
Found at i:93441890 original size:10 final size:11
Alignment explanation
Indices: 93441842--93441894 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
93441832 AAATGGTAAT
*
93441842 AAAATAAAAAG
1 AAAATAACAAG
*
93441853 AAAACAACAAG
1 AAAATAACAAG
**
93441864 AAAATAACATT
1 AAAATAACAAG
93441875 AAAATAACAA-
1 AAAATAACAAG
93441885 AAAATAACAA
1 AAAATAACAA
93441895 TTTTTTTGTC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
10 10 0.28
11 26 0.72
ACGTcount: A:0.75, C:0.09, G:0.04, T:0.11
Consensus pattern (11 bp):
AAAATAACAAG
Found at i:93441890 original size:21 final size:22
Alignment explanation
Indices: 93441853--93441893 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
93441843 AAATAAAAAG
93441853 AAAACAACAAGAAAATAACATT
1 AAAACAACAAGAAAATAACATT
*
93441875 AAAATAACAA-AAAATAACA
1 AAAACAACAAGAAAATAACA
93441894 ATTTTTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.73, C:0.12, G:0.02, T:0.12
Consensus pattern (22 bp):
AAAACAACAAGAAAATAACATT
Found at i:93451391 original size:38 final size:39
Alignment explanation
Indices: 93451341--93451434 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 39
93451331 CCATCTCCGT
* * *
93451341 CCAA-CCTAACACACCA-TGTGGGGATAAAATCGACCTAC
1 CCAACCCT-ACACACCAGTATGGGGATAAAATCAACCCAC
* * *
93451379 CCAGCCTTACACACCAAGTATGGGGATAAAATCAACCCAT
1 CCAACCCTACACACC-AGTATGGGGATAAAATCAACCCAC
93451419 CCAACCCTACACACCA
1 CCAACCCTACACACCA
93451435 AATGGTACAG
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
38 10 0.22
39 4 0.09
40 31 0.69
ACGTcount: A:0.37, C:0.35, G:0.13, T:0.15
Consensus pattern (39 bp):
CCAACCCTACACACCAGTATGGGGATAAAATCAACCCAC
Found at i:93451406 original size:40 final size:40
Alignment explanation
Indices: 93451359--93451435 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
93451349 ACACACCATG
* * * *
93451359 TGGGGATAAAATCGACCTACCCAGCCTTACACACCAAGTA
1 TGGGGATAAAATCAACCCACCCAACCCTACACACCAAGTA
*
93451399 TGGGGATAAAATCAACCCATCCAACCCTACACACCAA
1 TGGGGATAAAATCAACCCACCCAACCCTACACACCAA
93451436 ATGGTACAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.38, C:0.32, G:0.14, T:0.16
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCACCCAACCCTACACACCAAGTA
Found at i:93456815 original size:19 final size:18
Alignment explanation
Indices: 93456799--93456847 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 18
93456789 TAATTTATCC
93456799 ATTTTTATTTTTATTATA
1 ATTTTTATTTTTATTATA
93456817 ATTTTTATTTTT-TTAGTTTA
1 ATTTTTATTTTTATTA---TA
93456837 ATTTTTATTTT
1 ATTTTTATTTT
93456848 CTAATTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.11
18 12 0.43
20 13 0.46
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (18 bp):
ATTTTTATTTTTATTATA
Found at i:93456831 original size:20 final size:20
Alignment explanation
Indices: 93456806--93456847 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
93456796 TCCATTTTTA
93456806 TTTTTA-TTATAATTTTTATT
1 TTTTTAGTT-TAATTTTTATT
93456826 TTTTTAGTTTAATTTTTATT
1 TTTTTAGTTTAATTTTTATT
93456846 TT
1 TT
93456848 CTAATTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTTAGTTTAATTTTTATT
Found at i:93460007 original size:20 final size:21
Alignment explanation
Indices: 93459984--93460022 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
93459974 AAAATAAGTA
93459984 ATATAATAAAAA-TATATAAC
1 ATATAATAAAAATTATATAAC
93460004 ATATAATAAAAATTATATA
1 ATATAATAAAAATTATATA
93460023 TATAATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATAATAAAAATTATATAAC
Found at i:93460027 original size:18 final size:17
Alignment explanation
Indices: 93459966--93460028 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 17
93459956 TACATATAAA
*
93459966 AATATAAT-AAAATAAGT
1 AATATAATAAAAATTA-T
93459983 AATATAATAAAAATATAT
1 AATATAATAAAAAT-TAT
93460001 AACATATAATAAAAATTAT
1 -A-ATATAATAAAAATTAT
93460020 ATATATAAT
1 A-ATATAAT
93460029 GTTACAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.20
18 14 0.35
19 5 0.12
20 13 0.32
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
AATATAATAAAAATTAT
Found at i:93466249 original size:40 final size:40
Alignment explanation
Indices: 93466205--93466310 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 40
93466195 CAGATAGAGT
* *
93466205 ATTAGCAGTGCTTTTTAAAAAACACCACTATAGGTCGAGC
1 ATTAGCGGTGCTTTTTAAAAAACACCACTATAGGTCGACC
* * ** **
93466245 ATTAGCGGCGCTTCTTAAAAAATGCTGCTATAGGTCGACC
1 ATTAGCGGTGCTTTTTAAAAAACACCACTATAGGTCGACC
*
93466285 ATTAGCGGTGCTTTTTGAAAAACACC
1 ATTAGCGGTGCTTTTTAAAAAACACC
93466311 GCAAAAAAAT
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (40 bp):
ATTAGCGGTGCTTTTTAAAAAACACCACTATAGGTCGACC
Found at i:93467626 original size:16 final size:16
Alignment explanation
Indices: 93467605--93467635 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
93467595 TATTTCATCT
*
93467605 ATTTTCTTTTGTTTTG
1 ATTTTCTTTTATTTTG
93467621 ATTTTCTTTTATTTT
1 ATTTTCTTTTATTTT
93467636 TTTATTTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.06, T:0.77
Consensus pattern (16 bp):
ATTTTCTTTTATTTTG
Found at i:93467847 original size:11 final size:10
Alignment explanation
Indices: 93467830--93467854 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
93467820 AAGGAGGAGA
93467830 GTTTTTTTTT
1 GTTTTTTTTT
93467840 GTTTTTTTTT
1 GTTTTTTTTT
93467850 GTTTT
1 GTTTT
93467855 CAAAGGACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (10 bp):
GTTTTTTTTT
Found at i:93468487 original size:25 final size:25
Alignment explanation
Indices: 93468459--93468507 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
93468449 TCGCTTACCC
93468459 TTTCATGTTA-TTTATTTAGTTATTG
1 TTTC-TGTTATTTTATTTAGTTATTG
*
93468484 TTTCTGTTATTTTATTTATTTATT
1 TTTCTGTTATTTTATTTAGTTATT
93468508 AATTCTATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.18, C:0.04, G:0.08, T:0.69
Consensus pattern (25 bp):
TTTCTGTTATTTTATTTAGTTATTG
Found at i:93468513 original size:25 final size:24
Alignment explanation
Indices: 93468464--93468513 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
93468454 TACCCTTTCA
**
93468464 TGTTATTTATTTAGTTATTGTTTC
1 TGTTATTTATTTAGTTATTAATTC
*
93468488 TGTTATTTTATTTATTTATTAATTC
1 TGTTA-TTTATTTAGTTATTAATTC
93468513 T
1 T
93468514 ATTCTTAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.20, C:0.04, G:0.08, T:0.68
Consensus pattern (24 bp):
TGTTATTTATTTAGTTATTAATTC
Found at i:93471848 original size:7 final size:7
Alignment explanation
Indices: 93471829--93471934 Score: 63
Period size: 7 Copynumber: 15.0 Consensus size: 7
93471819 AGCCCTTAAT
93471829 CCCTAAA
1 CCCTAAA
*
93471836 CTCTAAA
1 CCCTAAA
* *
93471843 GCCTAAT
1 CCCTAAA
93471850 CCCTAAA
1 CCCTAAA
*
93471857 -CCTTAA
1 CCCTAAA
93471863 CACCTAAA
1 C-CCTAAA
93471871 CCCTAAA
1 CCCTAAA
**
93471878 ATCTAAA
1 CCCTAAA
* *
93471885 GCCTAAC
1 CCCTAAA
93471892 CCCTAAA
1 CCCTAAA
*
93471899 TCCT-AA
1 CCCTAAA
*
93471905 CCCATGAA
1 CCC-TAAA
**
93471913 CTGTAAA
1 CCCTAAA
93471920 CCCTTAAA
1 CCC-TAAA
93471928 CCCTAAA
1 CCCTAAA
93471935 ACCTTAAACT
Statistics
Matches: 72, Mismatches: 22, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
6 9 0.12
7 47 0.65
8 16 0.22
ACGTcount: A:0.41, C:0.35, G:0.04, T:0.21
Consensus pattern (7 bp):
CCCTAAA
Found at i:93471849 original size:21 final size:21
Alignment explanation
Indices: 93471825--93471898 Score: 89
Period size: 21 Copynumber: 3.5 Consensus size: 21
93471815 TTTCAGCCCT
93471825 TAATCCCTAAACTCTAAAGCC
1 TAATCCCTAAACTCTAAAGCC
93471846 TAATCCCTAAAC-CTTAACA-CC
1 TAATCCCTAAACTC-TAA-AGCC
* *
93471867 TAAACCCTAAAATCTAAAGCC
1 TAATCCCTAAACTCTAAAGCC
*
93471888 TAACCCCTAAA
1 TAATCCCTAAA
93471899 TCCTAACCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
20 2 0.04
21 42 0.91
22 2 0.04
ACGTcount: A:0.42, C:0.34, G:0.03, T:0.22
Consensus pattern (21 bp):
TAATCCCTAAACTCTAAAGCC
Found at i:93472966 original size:261 final size:262
Alignment explanation
Indices: 93472545--93473052 Score: 786
Period size: 261 Copynumber: 1.9 Consensus size: 262
93472535 ACGTTTGGCC
** * *
93472545 TTGTTATTAGTGGCGTTTCGCCAAAAAACGCTGCAAAATGTGTTAAGTGTTAGCAAAATGGCGCT
1 TTGTTATTAGTGGCGTTTCGCCAAAAAACGCCACAAAATGTGTTAAGTGTTAGCAAAACGACGCT
* * * *
93472610 GTTTTATTCTTTGTATTTAGTGGTGCTTTTATAAAATGCCACAAATGTGTATTATGAGTCCATAA
66 GTTTTATTCTTTGTATTTAGTGGCGCTTCTATAAAACGCCACAAATGTGTATTACGAGTCCATAA
** * * * *
93472675 AATGATGCCGTTTTATCCTTTTTGTTAGTGGCATTTTGTCCAAAACGTCGCAATAGGCTATGCAT
131 AATGACACCGTTTTATCCGTGTTATTAGTGGCATTTTGTCCAAAACGCCGCAATAGGCTATGCAT
**
93472740 TACCGGCGTTTTAGCCAAAAATGCCGCAAATATGTGTTAGGTGTTAGTAAAACGACACCATTTAT
196 TACCGGCGTTTTAGCCAAAAATGCAACAAATATGTGTTAGGTGTTAGTAAAACGACACCATTTAT
93472805 CG
261 CG
* *
93472807 TTGTTATTAGTGGCGTTT-TCC-AAAAACGCCACAAATATGTGTTAAGTGTTAGCAAAACGATGC
1 TTGTTATTAGTGGCGTTTCGCCAAAAAACGCCACAAA-ATGTGTTAAGTGTTAGCAAAACGACGC
*
93472870 TGTTTTGTTCTTTGTATTTAGTGGCGCTTCTATAAAACGCCACAAATGTGTATTACGAGTCCATA
65 TGTTTTATTCTTTGTATTTAGTGGCGCTTCTATAAAACGCCACAAATGTGTATTACGAGTCCATA
**
93472935 AAATGACACCGTTTTATCCGTGTTATTAGTGGTGTTTTGTCCAAAACGCCGCAATAGGCTATGCA
130 AAATGACACCGTTTTATCCGTGTTATTAGTGGCATTTTGTCCAAAACGCCGCAATAGGCTATGCA
* *
93473000 TTACCGGCTTTTTAGCCAAAAATGCAATAAATATGTGTTAGGTGTTAGTAAAA
195 TTACCGGCGTTTTAGCCAAAAATGCAACAAATATGTGTTAGGTGTTAGTAAAA
93473053 TGGCGCCATT
Statistics
Matches: 222, Mismatches: 23, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
260 12 0.05
261 192 0.86
262 18 0.08
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (262 bp):
TTGTTATTAGTGGCGTTTCGCCAAAAAACGCCACAAAATGTGTTAAGTGTTAGCAAAACGACGCT
GTTTTATTCTTTGTATTTAGTGGCGCTTCTATAAAACGCCACAAATGTGTATTACGAGTCCATAA
AATGACACCGTTTTATCCGTGTTATTAGTGGCATTTTGTCCAAAACGCCGCAATAGGCTATGCAT
TACCGGCGTTTTAGCCAAAAATGCAACAAATATGTGTTAGGTGTTAGTAAAACGACACCATTTAT
CG
Found at i:93478309 original size:17 final size:19
Alignment explanation
Indices: 93478275--93478315 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
93478265 AAAAATTCTG
*
93478275 AAAAACATTGAAAATAAA-
1 AAAAAAATTGAAAATAAAC
*
93478293 AAAAAAATT-AAATTAAAC
1 AAAAAAATTGAAAATAAAC
93478311 AAAAA
1 AAAAA
93478316 TATATGAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (19 bp):
AAAAAAATTGAAAATAAAC
Found at i:93482925 original size:20 final size:20
Alignment explanation
Indices: 93482895--93482958 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
93482885 TATTGGCTTG
*
93482895 TTATTCTTTTATGTATATTGT
1 TTATTC-TTTATATATATTGT
* * *
93482916 TTATTCTTTATTTTTATTAT
1 TTATTCTTTATATATATTGT
* * *
93482936 ATCTTCATTATATATATTGT
1 TTATTCTTTATATATATTGT
93482956 TTA
1 TTA
93482959 CATCAATTTT
Statistics
Matches: 32, Mismatches: 11, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
20 26 0.81
21 6 0.19
ACGTcount: A:0.23, C:0.06, G:0.05, T:0.66
Consensus pattern (20 bp):
TTATTCTTTATATATATTGT
Found at i:93487683 original size:9 final size:9
Alignment explanation
Indices: 93487669--93487735 Score: 71
Period size: 9 Copynumber: 7.2 Consensus size: 9
93487659 AAAAGAGATC
93487669 AAAATAAAA
1 AAAATAAAA
93487678 AAAATAAAA
1 AAAATAAAA
*
93487687 AAAAGAGAAGA
1 AAAATA-AA-A
*
93487698 AAAATTAAA
1 AAAATAAAA
*
93487707 AAAAGAAAA
1 AAAATAAAA
* *
93487716 TAAAGAAAA
1 AAAATAAAA
93487725 AAAATAAAA
1 AAAATAAAA
93487734 AA
1 AA
93487736 GAAGAAAGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
9 39 0.81
10 4 0.08
11 5 0.10
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (9 bp):
AAAATAAAA
Found at i:93487694 original size:28 final size:28
Alignment explanation
Indices: 93487654--93487735 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 28
93487644 TTGAGACCTT
**
93487654 TAAAAAAAAGAGATCAAAATAAAAAAAA
1 TAAAAAAAAGAGAAAAAAATAAAAAAAA
*
93487682 TAAAAAAAAGAGAAGAAAAATTAAAAAAA
1 TAAAAAAAAGAGAA-AAAAATAAAAAAAA
* *
93487711 GAAAATAAAGA-AAAAAAATAAAAAA
1 TAAAAAAAAGAGAAAAAAATAAAAAA
93487736 GAAGAAAGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 11 0.23
28 15 0.32
29 21 0.45
ACGTcount: A:0.80, C:0.01, G:0.09, T:0.10
Consensus pattern (28 bp):
TAAAAAAAAGAGAAAAAAATAAAAAAAA
Found at i:93487747 original size:20 final size:20
Alignment explanation
Indices: 93487677--93487747 Score: 54
Period size: 25 Copynumber: 3.2 Consensus size: 20
93487667 TCAAAATAAA
93487677 AAAAATAAAAAA-AAGAGAAG
1 AAAAATAAAAAAGAAGA-AAG
*
93487697 AAAAATTAAAAAAAGAAAATAAAG
1 AAAAA-T-AAAAAAG--AAGAAAG
93487721 AAAAAAAATAAAAAAGAAGAAAG
1 ---AAAAATAAAAAAGAAGAAAG
93487744 AAAA
1 AAAA
93487748 GGAGAGGGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 16
0.69 0.03 0.27
Matches are distributed among these distances:
20 9 0.22
21 1 0.02
22 6 0.15
23 6 0.15
24 3 0.07
25 10 0.24
26 1 0.02
27 5 0.12
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (20 bp):
AAAAATAAAAAAGAAGAAAG
Found at i:93492647 original size:37 final size:40
Alignment explanation
Indices: 93492578--93492664 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 40
93492568 TACTCGCCCG
* *
93492578 GGCTAAACCTTTGACAACACAATAATAGATTATCGGTCTA
1 GGCTAAACCTTTGACAACACAATAATAGATTATCAGTCCA
*
93492618 GGCTAAACCTTT-A-AA-ACGATAATAGATTATCAGTCCA
1 GGCTAAACCTTTGACAACACAATAATAGATTATCAGTCCA
93492655 GGCTAAACCT
1 GGCTAAACCT
93492665 GTGTCACATG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
37 29 0.66
38 2 0.05
39 1 0.02
40 12 0.27
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (40 bp):
GGCTAAACCTTTGACAACACAATAATAGATTATCAGTCCA
Found at i:93494629 original size:25 final size:26
Alignment explanation
Indices: 93494595--93494645 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
93494585 GTAAGCCATG
* *
93494595 TAACAGGAAGCTTAT-CCAGGCAATA
1 TAACAGGAAGCTCATGCCAGCCAATA
93494620 TAACAGGAAGCTCATGCCAGCCAATA
1 TAACAGGAAGCTCATGCCAGCCAATA
93494646 ATGGGTAGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.18
Consensus pattern (26 bp):
TAACAGGAAGCTCATGCCAGCCAATA
Found at i:93509037 original size:131 final size:131
Alignment explanation
Indices: 93508803--93509057 Score: 384
Period size: 131 Copynumber: 1.9 Consensus size: 131
93508793 TGTTTAAAAG
* * ** * * *
93508803 AAAATTCTTTAAAGCGAAGGCGATGTTCGATGTTTGGTAATTCGGGGAATCGTGCCCTATTGTGC
1 AAAATTCCTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCACTATCGTGC
** **
93508868 TAGGTTGCAATTTCCTGTTTGTTCAAAATAATCGAATATCCCTTTGGAATTTCACTCATATCTTT
66 TAGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCATATCTTT
93508933 A
131 A
*
93508934 AAAATTCCTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATTGTGCACTATCGTGC
1 AAAATTCCTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCACTATCGTGC
**
93508999 TAGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATATCTTTTTAAAATTTCACTCAT
66 TAGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCAT
93509058 GTTTTCTAAA
Statistics
Matches: 110, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
131 110 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (131 bp):
AAAATTCCTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCACTATCGTGC
TAGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCATATCTTT
A
Found at i:93520620 original size:133 final size:133
Alignment explanation
Indices: 93520392--93520680 Score: 418
Period size: 133 Copynumber: 2.2 Consensus size: 133
93520382 ATCTTGTTTT
* * *
93520392 CCTGAAGTTGCGGTGGAGCAGATCGAAGACGGCAAATCTTGTCTTCCTAAAGTTGCAGTGAAGTA
1 CCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAAATCTTGGCTTCCTAAAGTTGCAGTGAAGCA
** * *
93520457 GATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTAGAGTAGGTTGAAGATTGTAGATCTTGC
66 GATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTAGAGTAGGCCGAAGATTGCAAATCTTGC
93520522 CTC
131 CTC
* * *
93520525 CCTGAAGTTACAGTGGAGCAGATCGCAGACGGCGAATCTTGGCTTCCTAAAGTTGCAGTGAAGCA
1 CCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAAATCTTGGCTTCCTAAAGTTGCAGTGAAGCA
* *
93520590 TATTTAAGCCACCA-CCTTATCTCCCTAAAGTTGTAGTGGAGTAGGCCGAAGATTGCAAATCTTG
66 GATTTAAGCCACCATCC-TATCTCCCTAAAGTTGTAGTAGAGTAGGCCGAAGATTGCAAATCTTG
* *
93520654 TCTT
130 CCTC
* *
93520658 CTTGAAGTTGCAGTGAAGCAGAT
1 CCTGAAGTTGCAGTGGAGCAGAT
93520681 TTAAGCCACC
Statistics
Matches: 138, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
132 2 0.01
133 136 0.99
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (133 bp):
CCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAAATCTTGGCTTCCTAAAGTTGCAGTGAAGCA
GATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTAGAGTAGGCCGAAGATTGCAAATCTTGC
CTC
Found at i:93520651 original size:88 final size:88
Alignment explanation
Indices: 93520559--93520760 Score: 332
Period size: 88 Copynumber: 2.3 Consensus size: 88
93520549 GCAGACGGCG
* * * *
93520559 AATCTTGGCTTCCTAAAGTTGCAGTGAAGCATATTTAAGCCACCACCTTATCTCCCTAAAGTTGT
1 AATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGT
* *
93520624 AGTGGAGTAGGCCGAAGATTGCA
66 AATAGAGTAGGCCGAAGATTGCA
*
93520647 AATCTTGTCTTCTTGAAGTTGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGT
1 AATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGT
93520712 AATAGAGTAGGCCGAAGATTGCA
66 AATAGAGTAGGCCGAAGATTGCA
*
93520735 GATCTTGTCTTCCTGAAGTTGCAGTG
1 AATCTTGTCTTCCTGAAGTTGCAGTG
93520761 GAGAAAATCG
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 105 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (88 bp):
AATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGT
AATAGAGTAGGCCGAAGATTGCA
Found at i:93522173 original size:133 final size:133
Alignment explanation
Indices: 93521945--93522233 Score: 400
Period size: 133 Copynumber: 2.2 Consensus size: 133
93521935 ATCTTGTTTT
* * *
93521945 CCTGAAGTTGCGGTGGAGCAGATCGAAGAAGGCAAATCTTGTCTTCCTAAAGTTGCAGTGAAGTA
1 CCTGAAGTTGCAGTGGAGCAGATCGAAGAAGGCAAATCTTGGCTTCCTAAAGTTGCAGTGAAGCA
*** * *
93522010 GATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTAGAGTAGGTTGAAGATTGTAGATCTTGC
66 GATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTAGAGTAGGCCAAAGATTGCAAATCTTGC
93522075 CTC
131 CTC
* * **
93522078 CCTGAAGTTACAGTGGAGCAGATCGAAGACGGTGAATCTTGGCTTCCTAAAGTTGCAGTGAAGCA
1 CCTGAAGTTGCAGTGGAGCAGATCGAAGAAGGCAAATCTTGGCTTCCTAAAGTTGCAGTGAAGCA
* *
93522143 TATTTAAGCCACCA-CCTTATCTCCCTAAAGTTGTAGTGGAGTAGGCCAAAGATTGCAAATCTTG
66 GATTTAAGCCACCATCC-TATCTCCCTAAAGTTGTAGTAGAGTAGGCCAAAGATTGCAAATCTTG
* *
93522207 TCTT
130 CCTC
* *
93522211 CTTGAAGTTGCAGTGAAGCAGAT
1 CCTGAAGTTGCAGTGGAGCAGAT
93522234 TTAAGCCACC
Statistics
Matches: 136, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
132 2 0.01
133 134 0.99
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (133 bp):
CCTGAAGTTGCAGTGGAGCAGATCGAAGAAGGCAAATCTTGGCTTCCTAAAGTTGCAGTGAAGCA
GATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTAGAGTAGGCCAAAGATTGCAAATCTTGC
CTC
Found at i:93522204 original size:88 final size:88
Alignment explanation
Indices: 93522112--93522313 Score: 323
Period size: 88 Copynumber: 2.3 Consensus size: 88
93522102 GAAGACGGTG
* * * *
93522112 AATCTTGGCTTCCTAAAGTTGCAGTGAAGCATATTTAAGCCACCACCTTATCTCCCTAAAGTTGT
1 AATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGT
* *
93522177 AGTGGAGTAGGCCAAAGATTGCA
66 AATAGAGTAGGCCAAAGATTGCA
*
93522200 AATCTTGTCTTCTTGAAGTTGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGT
1 AATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGT
*
93522265 AATAGAGTAGGCCGAAGATTGCA
66 AATAGAGTAGGCCAAAGATTGCA
*
93522288 GATCTTGTCTTCCTGAAGTTGCAGTG
1 AATCTTGTCTTCCTGAAGTTGCAGTG
93522314 GAGAAAATCG
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 104 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (88 bp):
AATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGT
AATAGAGTAGGCCAAAGATTGCA
Found at i:93524669 original size:14 final size:14
Alignment explanation
Indices: 93524650--93524680 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
93524640 TATTTGCTTG
93524650 TTAGTCCATCATTT
1 TTAGTCCATCATTT
*
93524664 TTAGTCCATTATTT
1 TTAGTCCATCATTT
93524678 TTA
1 TTA
93524681 TGTCATGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.16, G:0.06, T:0.55
Consensus pattern (14 bp):
TTAGTCCATCATTT
Found at i:93525198 original size:131 final size:128
Alignment explanation
Indices: 93525057--93525384 Score: 415
Period size: 131 Copynumber: 2.5 Consensus size: 128
93525047 TGTTTAAAAA
* ** *
93525057 AAAAATTTTAAACCGAAGGCGATGTTCGATGTTTGGTAATTCGGGGAATCGTGCCCTATCGTGCT
1 AAAAATTTTAAAACGAAGGAAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCT
* ** *
93525122 GGGTTGCAATTTCCTATTTGTTCAAAATAATCGAATATCCCTTTGGAATTTTACTCATATCTTT
66 GGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCATAT-TTT
* * * *
93525186 AAAAATTCTTTAAAATGAAGGAAATGTTCGATGTTTGGCAATTCGGTGAATCGTGCGCTATCGTG
1 AAAAA-T-TTTAAAACGAAGGAAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTG
* * *
93525251 CTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATCCCTTTAAAATTTCACTCATGTTTT
64 CTGGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCATATTTT
** * ** * * *
93525316 CTAAATTTTAAAAC-AAGGAAATGTTCAATGGCTAGAAATTCGAGGAATCGTGCCCTATTGTGCT
1 AAAAATTTTAAAACGAAGGAAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCT
93525380 GGGTT
66 GGGTT
93525385 TCGGTTTCTC
Statistics
Matches: 171, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
127 46 0.27
128 7 0.04
129 6 0.04
130 7 0.04
131 105 0.61
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (128 bp):
AAAAATTTTAAAACGAAGGAAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCT
GGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCATATTTT
Found at i:93525991 original size:13 final size:13
Alignment explanation
Indices: 93525973--93526006 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
93525963 GGAAGAAACT
93525973 AAAAGAAAAGAAA
1 AAAAGAAAAGAAA
93525986 AAAAGAAAAGAAA
1 AAAAGAAAAGAAA
*
93525999 AGAAGAAA
1 AAAAGAAA
93526007 TTTAGAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAGAAA
Found at i:93527924 original size:12 final size:12
Alignment explanation
Indices: 93527894--93527918 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
93527884 TTCAAAAAAT
93527894 AATAATAATAAA
1 AATAATAATAAA
93527906 AATAATAATAAA
1 AATAATAATAAA
93527918 A
1 A
93527919 TAAATATGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:93527924 original size:15 final size:15
Alignment explanation
Indices: 93527888--93527916 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
93527878 ATTGAGTTCA
93527888 AAAAATAATAATAAT
1 AAAAATAATAATAAT
93527903 AAAAATAATAATAA
1 AAAAATAATAATAA
93527917 AATAAATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAAATAATAATAAT
Found at i:93530170 original size:27 final size:27
Alignment explanation
Indices: 93530033--93530170 Score: 199
Period size: 27 Copynumber: 5.1 Consensus size: 27
93530023 AGGAAGCGTC
*
93530033 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGTT
* *
93530060 CTGGTGGCTCTGCCAC-ATATATCTGTC
1 CTGGTGGCTATGCCACAAT-TATCTGTT
*
93530087 CTGGTGGCTATGCCACAATTATCTGTC
1 CTGGTGGCTATGCCACAATTATCTGTT
93530114 CTGGTGGCTATGCCACAATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGTT
*
93530141 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTGT-T
93530168 CTG
1 CTG
93530171 ATGACTTCGT
Statistics
Matches: 102, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
26 9 0.09
27 91 0.89
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGTT
Found at i:93530185 original size:54 final size:55
Alignment explanation
Indices: 93530030--93530191 Score: 194
Period size: 54 Copynumber: 3.0 Consensus size: 55
93530020 TGGAGGAAGC
93530030 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGC-TCTGCCAC-ATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGTATCTGGTGGCTTC-GCCACAAT-TATCT
*
93530084 GTCCTGGTGGCTATGCCACAATTATCTGT-CCTGGTGGCTAT-GCCACAATTATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGTATCTGGTGGCT-TCGCCACAATTATCT
* * * * *
93530138 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGATGACTTCGTCACAA-TATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGTATCTGGTGGCTTCGCCACAATTATCT
93530191 G
1 G
93530192 GCAGCCTCGC
Statistics
Matches: 95, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
53 14 0.15
54 78 0.82
55 2 0.02
56 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (55 bp):
GTCCTGGTGGCTATGCCACAATTATCTGTATCTGGTGGCTTCGCCACAATTATCT
Found at i:93530185 original size:81 final size:80
Alignment explanation
Indices: 93530030--93530191 Score: 238
Period size: 81 Copynumber: 2.0 Consensus size: 80
93530020 TGGAGGAAGC
* *
93530030 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGC
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGATGAC
93530095 TATGCCACAATTATCT
66 TATGCCACAA-TATCT
* *
93530111 GTCCTGGTGGCTATGCCACAATTATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGATGA
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGATGA
*
93530175 CT-TCGTCACAATATCT
65 CTAT-GCCACAATATCT
93530191 G
1 G
93530192 GCAGCCTCGC
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
80 15 0.20
81 59 0.80
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (80 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGATGAC
TATGCCACAATATCT
Found at i:93533270 original size:18 final size:18
Alignment explanation
Indices: 93533232--93533340 Score: 132
Period size: 18 Copynumber: 6.1 Consensus size: 18
93533222 TAAATAAAGG
*
93533232 TACTGAATAACT-ACTGC
1 TACTGAATAACTGACTGT
93533249 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGT
* *
93533267 TACTGGATAACTGACTGC
1 TACTGAATAACTGACTGT
*
93533285 TACTGAATAATTGACTGT
1 TACTGAATAACTGACTGT
* *
93533303 TACTGAATAATTTA-TCGT
1 TACTGAATAACTGACT-GT
*
93533321 TACTGAATAATTGACTGT
1 TACTGAATAACTGACTGT
93533339 TA
1 TA
93533341 AAGAGTGACT
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.16
18 67 0.83
19 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (18 bp):
TACTGAATAACTGACTGT
Found at i:93533290 original size:36 final size:35
Alignment explanation
Indices: 93533232--93533340 Score: 148
Period size: 36 Copynumber: 3.1 Consensus size: 35
93533222 TAAATAAAGG
*
93533232 TACTGAATAACTACTGCTACTGAATAACTGACTGT
1 TACTGAATAACTACTGCTACTGAATAATTGACTGT
*
93533267 TACTGGATAACTGACTGCTACTGAATAATTGACTGT
1 TACTGAATAACT-ACTGCTACTGAATAATTGACTGT
* *
93533303 TACTGAATAATTTA-TCGTTACTGAATAATTGACTGT
1 TACTGAATAA-CTACT-GCTACTGAATAATTGACTGT
93533339 TA
1 TA
93533341 AAGAGTGACT
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
35 12 0.18
36 53 0.80
37 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (35 bp):
TACTGAATAACTACTGCTACTGAATAATTGACTGT
Found at i:93533393 original size:18 final size:18
Alignment explanation
Indices: 93533346--93533402 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
93533336 TGTTAAAGAG
*
93533346 TGACTGAATATTATTGAA
1 TGACTGAATGTTATTGAA
*
93533364 AGACT-AATTGTTATTGAA
1 TGACTGAA-TGTTATTGAA
* *
93533382 TGATTGAATGTTACTGAA
1 TGACTGAATGTTATTGAA
93533400 TGA
1 TGA
93533403 AACTGATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 2 0.06
18 28 0.88
19 2 0.06
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (18 bp):
TGACTGAATGTTATTGAA
Found at i:93534473 original size:23 final size:22
Alignment explanation
Indices: 93534438--93534480 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
93534428 ATCCATAGCA
* *
93534438 AAGGTTAAGAAGAATACAAAAAT
1 AAGGGTAAAAAGAA-ACAAAAAT
93534461 AAGGGTAAAAAGAAACAAAA
1 AAGGGTAAAAAGAAACAAAA
93534481 CAGTTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.65, C:0.05, G:0.19, T:0.12
Consensus pattern (22 bp):
AAGGGTAAAAAGAAACAAAAAT
Found at i:93547158 original size:14 final size:16
Alignment explanation
Indices: 93547139--93547171 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
93547129 TCGATATCCT
93547139 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
93547153 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
93547169 TTT
1 TTT
93547172 CAGCGTCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 4 0.24
16 6 0.35
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.45
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:93555588 original size:204 final size:204
Alignment explanation
Indices: 93555141--93555694 Score: 775
Period size: 204 Copynumber: 2.7 Consensus size: 204
93555131 GCAGATCCAG
* *
93555141 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTATGCTTACAAGGAACAAACCGAAGACATAGAT
1 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGAT
* ** * *
93555206 GATTTGGCTTTCACCTGTTTACGCTGAAAAAAATCTAAGATGATTTAGTATCTCTGTATTGTTAG
66 GATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGTATCTC--TATTGTCAG
* * *
93555271 AGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGGGGGCAGATACATAGCAGATCTCACTTTC
129 AGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGAGCAGATACATAGCAGATCTCACCTTC
**
93555336 AGATGTTTTCA
194 AGATAATTTCA
* * * *
93555347 TTGAAGCAAGATCCAAGATGATTTGGCATCATTGTGCTTACAAAGAACAAATCGAAGACATAGAT
1 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGAT
93555412 GATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGTATCTCTATTGTCAGAG
66 GATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGTATCTCTATTGTCAGAG
* * *
93555477 AACAAATCGAAGTCTGGCATCTCCACTTTGATGGAGAGTAGATACATAGCAGATCTCACCTTCAG
131 AACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGAGCAGATACATAGCAGATCTCACCTTCAG
93555542 ATAATTTCA
196 ATAATTTCA
* * *
93555551 CTGAAGCAAGATCCAAGATGGTTTGGTACCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGAT
* * ** * * * ** * *
93555616 GCTTTGGTTTTTGCGTGCTTACACTAAAGCAAATCTAAGATGATTTGCCATCTTTGTATTGTCAA
66 GATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGTATC--TCTATTGTCAG
93555681 AGAACAAATCGAAG
129 AGAACAAATCGAAG
93555695 AAGCAGATTT
Statistics
Matches: 309, Mismatches: 37, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
204 177 0.57
206 132 0.43
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (204 bp):
CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGAT
GATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGTATCTCTATTGTCAGAG
AACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGAGCAGATACATAGCAGATCTCACCTTCAG
ATAATTTCA
Found at i:93557369 original size:20 final size:19
Alignment explanation
Indices: 93557333--93557378 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
93557323 AATATATGTA
93557333 TTATATTTTATATTATTTAC
1 TTATATTTTATATTA-TTAC
93557353 TTATATTTTAT-TATATTAC
1 TTATATTTTATAT-TATTAC
93557372 TTGATAT
1 TT-ATAT
93557379 CTTCCTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (19 bp):
TTATATTTTATATTATTAC
Found at i:93557389 original size:23 final size:18
Alignment explanation
Indices: 93557333--93557378 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 18
93557323 AATATATGTA
93557333 TTATATTTTATATTATTTAC
1 TTATA-TTT-TATTATTTAC
93557353 TTATATTTTATTATATTAC
1 TTATATTTTATTAT-TTAC
93557372 TTGATAT
1 TT-ATAT
93557379 CTTCCTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.25
19 9 0.38
20 9 0.38
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (18 bp):
TTATATTTTATTATTTAC
Found at i:93557511 original size:16 final size:15
Alignment explanation
Indices: 93557492--93557560 Score: 67
Period size: 13 Copynumber: 4.8 Consensus size: 15
93557482 ATTAACCATG
93557492 TATTATTTCATATTAT
1 TATTATTT-ATATTAT
93557508 TATTA-TT-TATTAT
1 TATTATTTATATTAT
*
93557521 ATATT-TTTAAATTAT
1 -TATTATTTATATTAT
*
93557536 TATTATTT-TA-CAT
1 TATTATTTATATTAT
93557549 TATTATTTATAT
1 TATTATTTATAT
93557561 ATTTTTACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
13 16 0.36
14 13 0.30
15 10 0.23
16 5 0.11
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTATTTATATTAT
Found at i:93557535 original size:38 final size:38
Alignment explanation
Indices: 93557493--93557601 Score: 91
Period size: 38 Copynumber: 2.9 Consensus size: 38
93557483 TTAACCATGT
*
93557493 ATTATT-TCATATTATTATTATT-TATTATATATTTTTAA
1 ATTATTATCATATTA-CATTATTAT-TTATATATTTTTAA
* * *
93557531 ATTATTATTATTTTACATTATTATTTATATATTTTTAC
1 ATTATTATCATATTACATTATTATTTATATATTTTTAA
* * *
93557569 TTGTATTAT-ATCTT-TATTAATTATTTATATATT
1 AT-TATTATCATATTACATT-ATTATTTATATATT
93557602 ATACATTATT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
37 3 0.05
38 44 0.73
39 13 0.22
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (38 bp):
ATTATTATCATATTACATTATTATTTATATATTTTTAA
Found at i:93557553 original size:57 final size:61
Alignment explanation
Indices: 93557492--93557620 Score: 157
Period size: 57 Copynumber: 2.2 Consensus size: 61
93557482 ATTAACCATG
*
93557492 TATTATTTCATATTATTATTA-TT-TATTATATATTT-TTAAATTA-TTAT-TATTTTACAT
1 TATTATTTCATATTATTATTACTTGTATTATATATTTATT-AATTATTTATATATTATACAT
* *
93557549 TATTATTT-ATA-TATTTTTACTTGTATTATATCTTTATTAATTATTTATATATTATACAT
1 TATTATTTCATATTATTATTACTTGTATTATATATTTATTAATTATTTATATATTATACAT
93557608 TATT-TTTGCATAT
1 TATTATTT-CATAT
93557621 ATACTTTCAA
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
55 7 0.11
56 5 0.08
57 24 0.39
58 9 0.15
59 13 0.21
60 3 0.05
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (61 bp):
TATTATTTCATATTATTATTACTTGTATTATATATTTATTAATTATTTATATATTATACAT
Found at i:93557579 original size:19 final size:18
Alignment explanation
Indices: 93557512--93557601 Score: 69
Period size: 19 Copynumber: 4.8 Consensus size: 18
93557502 TATTATTATT
93557512 ATTTATTATATATTTTTA
1 ATTTATTATATATTTTTA
*
93557530 AATTATTAT-TA-TTTTA
1 ATTTATTATATATTTTTA
93557546 CATTATTATTTATATATTTTTA
1 -A-T-TTA-TTATATATTTTTA
* *
93557568 CTTGTATTATATCTTTATTA
1 ATT-TATTATATATTT-TTA
93557588 A-TTATTTATATATT
1 ATTTA-TTATATATT
93557602 ATACATTATT
Statistics
Matches: 57, Mismatches: 6, Indels: 17
0.71 0.08 0.21
Matches are distributed among these distances:
16 5 0.09
17 3 0.05
18 10 0.18
19 22 0.39
20 10 0.18
21 2 0.04
22 5 0.09
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (18 bp):
ATTTATTATATATTTTTA
Found at i:93561419 original size:21 final size:20
Alignment explanation
Indices: 93561389--93561439 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
93561379 ATCTAATTTT
*
93561389 TTTATCTATTTAC-ATTTCTA
1 TTTATATATTT-CTATTTCTA
93561409 TTTATTATATTTCTATTTCTA
1 TTTA-TATATTTCTATTTCTA
93561430 TTTATATATT
1 TTTATATATT
93561440 AATATTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.25, C:0.10, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTATATATTTCTATTTCTA
Found at i:93561445 original size:20 final size:21
Alignment explanation
Indices: 93561402--93561445 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
93561392 ATCTATTTAC
**
93561402 ATTTCTATTTATTATATTTCT
1 ATTTCTATTTATTATATTAAT
93561423 ATTTCTATTTA-TATATTAAT
1 ATTTCTATTTATTATATTAAT
93561443 ATT
1 ATT
93561446 ATTTTCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTCTATTTATTATATTAAT
Found at i:93561731 original size:3 final size:3
Alignment explanation
Indices: 93561717--93561751 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
93561707 TCAATTCTTG
*
93561717 TAT TAT TCAT TAT TAT TGT TAT TAT TAT TAT TAT T
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT T
93561752 TCCACTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:93561842 original size:7 final size:7
Alignment explanation
Indices: 93561830--93561860 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
93561820 GTCAATGTTA
93561830 TATATTT
1 TATATTT
93561837 TATATTT
1 TATATTT
93561844 TATATTT
1 TATATTT
93561851 TATATTT
1 TATATTT
93561858 TAT
1 TAT
93561861 TACGTATGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TATATTT
Found at i:93567503 original size:10 final size:9
Alignment explanation
Indices: 93567488--93567528 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
93567478 AAAGTTTTCT
93567488 AAAAAAAAC
1 AAAAAAAAC
93567497 AAAAAAAAC
1 AAAAAAAAC
*
93567506 AAAAAAAAG
1 AAAAAAAAC
* *
93567515 GAAGAAAAC
1 AAAAAAAAC
93567524 AAAAA
1 AAAAA
93567529 GAAAAGAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:93567526 original size:27 final size:26
Alignment explanation
Indices: 93567492--93567542 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
93567482 TTTTCTAAAA
93567492 AAAACAAAAAAAACAAAAAAAAGGAAG
1 AAAACAAAAAAAA-AAAAAAAAGGAAG
* *
93567519 AAAACAAAAAGAAAAGAAAAAGGA
1 AAAACAAAAAAAAAAAAAAAAGGA
93567543 GAGGCCAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (26 bp):
AAAACAAAAAAAAAAAAAAAAGGAAG
Found at i:93569705 original size:44 final size:44
Alignment explanation
Indices: 93569200--93570179 Score: 304
Period size: 44 Copynumber: 22.0 Consensus size: 44
93569190 AATACATAAA
* * *
93569200 CCTTATC-CTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAG
1 CCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAT
* * * * ***
93569244 CCTTATCTCTCTAAAGTTGTAGTGGAGCAGGTTCAAATTACCAAT
1 CCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAT
* * * * * * *
93569289 TCTTACCTC-CTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAAT
1 CCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTGAAGCCAC-AAT
* * * * ** * *
93569334 -CTCT-TCTCCCTGAAATTACATTATAGAAGATCGAAGCCACAAT
1 CCT-TATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAT
* ** ** *
93569377 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACACAAAA
1 CCTTATCTCTCTGAAGTTGCAGTGGAGCA-GAT-TGAAGCCAC-AAT
* * ** * *
93569424 CCTTATCTCCCTGAAGTTGCAATAAAGTAGATTCAAGCCACCAA-
1 CCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAT
* ***
93569468 CCTTATCTCTCTGAAGTTACAGTGGAGCA-AGTTGAAATTACCAAT
1 CCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TTGAAGCCA-CAAT
* * * * * * *
93569513 TCTCATCTC-CTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAAT
1 CCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTGAAGCCAC-AAT
* * * * *
93569558 CTCTT-T-TCCCTGAAATTGCATTAGAGCAGATTGGAGCCACAAT
1 C-CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAT
* * ** ** * *
93569601 CCTTATCTCTCTGAAGTTGCAGTAGAGTAGGATAAAAATACATAAA
1 CCTTATCTCTCTGAAGTTGCAGTGGAGCA-GAT-TGAAGCCACAAT
* *
93569647 CCTTATCT-TCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAG
1 CCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAT
* ***
93569691 CCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAATTACCAAT
1 CCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAT
* * * ** * * * *
93569736 TCTTACCTC-CTTGAAGTTCCAACGAAGTAGATCGAAGCTACAAAT
1 CCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTGAAGCCAC-AAT
* * ** * * **
93569781 CTCTTCTC-CT-TGAAATTATATTAGAGCAGATCAAAGCCACAAT
1 C-CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAT
** * ** ** *
93569824 ATTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACACAAA
1 CCTTATCTCTCTGAAGTTGCAGTGGAGCA-GAT-TGAAGCCACAAT
* * * * * *
93569870 CCCTATCTC-CTTGAAGTTGTAATGGAGCAGATTGAAACCACCAG
1 CCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTGAAGCCACAAT
* ** ***
93569914 CCTTATCTCTCTGAAGTTACAGTGGAGCAGGCTGAAATTACCAAT
1 CCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAT
* * * * * ** * *
93569959 TCTTACCTCAT-TGAAGTTCCAGCGGAGTAGATCAAAACTACAAAT
1 CCTTATCTC-TCTGAAGTTGCAGTGGAGCAGATTGAAGCCAC-AAT
* * * * ** *
93570004 CTCTTCTC-CT-TGAAATTACATTGGAGCAGATCAAAGCTACAAT
1 C-CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAT
* * ** ** *
93570047 CCTTATCTCTCTGAAGTTGTAGTAGAGCAGGATAAAATACACAAA
1 CCTTATCTCTCTGAAGTTGCAGTGGAGCA-GATTGAAGCCACAAT
* * * * ***
93570092 CCTTATCTCCCTGAAGTCGCAGTGAAGCAGGTTGAAATTACCAAT
1 CCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAT
* * * * *
93570137 TCTTATCTCTTTGAAGTTTCAAG-GGAGTAGATTGAAGCTACAA
1 CCTTATCTCTCTGAAGTTGC-AGTGGAGCAGATTGAAGCCACAA
93570180 ATCTTTTCCC
Statistics
Matches: 677, Mismatches: 214, Indels: 90
0.69 0.22 0.09
Matches are distributed among these distances:
42 12 0.02
43 21 0.03
44 311 0.46
45 224 0.33
46 82 0.12
47 27 0.04
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (44 bp):
CCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAT
Found at i:93569775 original size:223 final size:223
Alignment explanation
Indices: 93568977--93570127 Score: 1640
Period size: 223 Copynumber: 5.2 Consensus size: 223
93568967 TATGGCGAAT
* * * * * * *
93568977 CTTATCTTCCTAAAGTTGCAGTAAAGTAGATTCAAGCCACCAACCTTATCTCTCTGAAGTTGTAG
1 CTTATCTTCCTGAAGTTGCAATGAAGCAGATTGAAGCCACCAGCCTTATCTCTCTGAAGTTGCAG
* * *
93569042 TGGAGCAGGTTGAAATTACCAATTGTCACCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTGCA
66 TGGAGCAGGTTGAAATTACCAATTCTTACCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACA
* * * * *
93569107 AATCTCTTCTCTCTGAAATTACATTAGAGCAGATCGGAGCCACAATCCTTATCTCTTTAAAGTTA
131 AATCTCTTCTCCCTGAAATTACATTAGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAGTTG
** *
93569172 CAGTAGAGTTGGATAAAAAATACATAAAC
196 CAGTAGAGCAGGAT-AAAAATACACAAAC
* * * *
93569201 CTTATCCTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAGCCTTATCTCTCTAAAGTTGTAG
1 CTTATCTTCCTGAAGTTGCAATGAAGCAGATTGAAGCCACCAGCCTTATCTCTCTGAAGTTGCAG
*
93569266 TGGAGCAGGTTCAAATTACCAATTCTTACCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACA
66 TGGAGCAGGTTGAAATTACCAATTCTTACCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACA
* *
93569331 AATCTCTTCTCCCTGAAATTACATTATAGAAGATCGAAGCCACAATCCTTATCTCTCTGAAGTTG
131 AATCTCTTCTCCCTGAAATTACATTAGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAGTTG
93569396 CAGTAGAGCAGGATAAAAATACACAAAAC
196 CAGTAGAGCAGGATAAAAATACAC-AAAC
* * * * * *
93569425 CTTATCTCCCTGAAGTTGCAATAAAGTAGATTCAAGCCACCAACCTTATCTCTCTGAAGTTACAG
1 CTTATCTTCCTGAAGTTGCAATGAAGCAGATTGAAGCCACCAGCCTTATCTCTCTGAAGTTGCAG
* * *
93569490 TGGAGCAAGTTGAAATTACCAATTCTCATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACA
66 TGGAGCAGGTTGAAATTACCAATTCTTACCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACA
* * * *
93569555 AATCTCTTTTCCCTGAAATTGCATTAGAGCAGATTGGAGCCACAATCCTTATCTCTCTGAAGTTG
131 AATCTCTTCTCCCTGAAATTACATTAGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAGTTG
* *
93569620 CAGTAGAGTAGGATAAAAATACATAAAC
196 CAGTAGAGCAGGATAAAAATACACAAAC
* *
93569648 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCTCTGAAGTTGCAG
1 CTTATCTTCCTGAAGTTGCAATGAAGCAGATTGAAGCCACCAGCCTTATCTCTCTGAAGTTGCAG
* * *
93569713 TGGAGCAGGTTGAAATTACCAATTCTTACCTCCTTGAAGTTCCAACGAAGTAGATCGAAGCTACA
66 TGGAGCAGGTTGAAATTACCAATTCTTACCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACA
* * * **
93569778 AATCTCTTCTCCTTGAAATTATATTAGAGCAGATCAAAGCCACAATATTTATCTCTCTGAAGTTG
131 AATCTCTTCTCCCTGAAATTACATTAGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAGTTG
93569843 CAGTAGAGCAGGATAAAAATACACAAAC
196 CAGTAGAGCAGGATAAAAATACACAAAC
* * * * *
93569871 CCTATC-TCCTTGAAGTTGTAATGGAGCAGATTGAAACCACCAGCCTTATCTCTCTGAAGTTACA
1 CTTATCTTCC-TGAAGTTGCAATGAAGCAGATTGAAGCCACCAGCCTTATCTCTCTGAAGTTGCA
* * * * *
93569935 GTGGAGCAGGCTGAAATTACCAATTCTTACCTCATTGAAGTTCCAGCGGAGTAGATCAAAACTAC
65 GTGGAGCAGGTTGAAATTACCAATTCTTACCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTAC
* * * *
93570000 AAATCTCTTCTCCTTGAAATTACATTGGAGCAGATCAAAGCTACAATCCTTATCTCTCTGAAGTT
130 AAATCTCTTCTCCCTGAAATTACATTAGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAGTT
*
93570065 GTAGTAGAGCAGGAT-AAAATACACAAAC
195 GCAGTAGAGCAGGATAAAAATACACAAAC
* * * *
93570093 CTTATCTCCCTGAAGTCGCAGTGAAGCAGGTTGAA
1 CTTATCTTCCTGAAGTTGCAATGAAGCAGATTGAA
93570128 ATTACCAATT
Statistics
Matches: 830, Mismatches: 94, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
222 41 0.05
223 401 0.48
224 388 0.47
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (223 bp):
CTTATCTTCCTGAAGTTGCAATGAAGCAGATTGAAGCCACCAGCCTTATCTCTCTGAAGTTGCAG
TGGAGCAGGTTGAAATTACCAATTCTTACCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACA
AATCTCTTCTCCCTGAAATTACATTAGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAGTTG
CAGTAGAGCAGGATAAAAATACACAAAC
Found at i:93571679 original size:20 final size:20
Alignment explanation
Indices: 93571621--93571679 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
93571611 ATACTATTAT
* *
93571621 TATTTATCTATTTACATTTC
1 TATTTATATATTTATATTTC
*
93571641 TATTTATTATATTTCTATTTC
1 TATTTA-TATATTTATATTTC
*
93571662 TATTTATATATTAATATT
1 TATTTATATATTTATATT
93571680 ATTTTCATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTTATATATTTATATTTC
Found at i:93571951 original size:3 final size:3
Alignment explanation
Indices: 93571943--93572057 Score: 96
Period size: 3 Copynumber: 38.7 Consensus size: 3
93571933 ATTCTCGCCC
* * * *
93571943 TTA TTA TTA TTA TTA TT- TTA TTA CT- TTA CTT- TCAA TTC TTG T-A
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA
93571986 TTA TTCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
93572032 TTA TCA TT- TTCA TCA TTA TCA TTA TT
1 TTA TTA TTA TT-A TTA TTA TTA TTA TT
93572058 GTTCATGCAT
Statistics
Matches: 90, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
2 7 0.08
3 76 0.84
4 7 0.08
ACGTcount: A:0.29, C:0.08, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:93573048 original size:31 final size:31
Alignment explanation
Indices: 93573006--93573068 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
93572996 GGTTTCGACA
*
93573006 TATGAGCATATATAGAAAAGGCAACTATGGT
1 TATGAGAATATATAGAAAAGGCAACTATGGT
93573037 TATGAGAATATATAGAAAAGGCAACTATGGT
1 TATGAGAATATATAGAAAAGGCAACTATGGT
93573068 T
1 T
93573069 TAAGTTATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (31 bp):
TATGAGAATATATAGAAAAGGCAACTATGGT
Found at i:93585191 original size:49 final size:49
Alignment explanation
Indices: 93585119--93585306 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
93585109 TGAGGTCACG
* *
93585119 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCA
* * * * *
93585168 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-T-TGGTCGCA
* * *
93585219 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCA
*
93585268 TGTGTAGTACTAAATGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
93585307 GCTTCAGCTG
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 77 0.65
50 2 0.02
51 40 0.34
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCA
Found at i:93585287 original size:100 final size:100
Alignment explanation
Indices: 93585114--93585301 Score: 340
Period size: 100 Copynumber: 1.9 Consensus size: 100
93585104 TATTGTGAGG
* *
93585114 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
93585179 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAATGCAGGCTACTATGCGTACCCGAAAACTGTGA
*
93585214 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
93585279 AAATGCAGGCTACTATGCGTACC
66 AAATGCAGGCTACTATGCGTACC
93585302 AGATAGCTTC
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAATGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:93593283 original size:55 final size:55
Alignment explanation
Indices: 93593224--93593345 Score: 127
Period size: 55 Copynumber: 2.2 Consensus size: 55
93593214 GTGCAAGCCC
* * * * * *
93593224 CACGCCCGTGTTAATTTAACAGGTTCGACCATGGGTGTTAGACATGGGCGTGTCT
1 CACGCCCGTGTTAATTTAACAGGTTCAACCACGGGTCTTACACACGGGCGTGTCG
* * * ** * *
93593279 CACGCCCATGGTAGTTTCTCAGTTTCAACCACGGGTCTTCCACACGGGCGTGTCG
1 CACGCCCGTGTTAATTTAACAGGTTCAACCACGGGTCTTACACACGGGCGTGTCG
93593334 CACGCCCGTGTT
1 CACGCCCGTGTT
93593346 GTTTTGGAAG
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.27
Consensus pattern (55 bp):
CACGCCCGTGTTAATTTAACAGGTTCAACCACGGGTCTTACACACGGGCGTGTCG
Found at i:93593914 original size:247 final size:247
Alignment explanation
Indices: 93593478--93593976 Score: 953
Period size: 247 Copynumber: 2.0 Consensus size: 247
93593468 TCTGTGAAAA
93593478 CACCTGTATTCAAGATTTCTATTAGTAAGTTAGGAGTTAAATACCAAAATTTAAAGAAATTAATA
1 CACCTGTATTCAAGATTTCTATTAGTAAGTTAGGAGTTAAATACCAAAATTTAAAGAAATTAATA
*
93593543 TTGTTAGTGCTCGGGTTGCCTCTCAAGAAACGCTTATTTATAGTCTAAGCTCGACTTACCTCTTC
66 TTGTTAGTGCTCGGGTTGCCTCCCAAGAAACGCTTATTTATAGTCTAAGCTCGACTTACCTCTTC
*
93593608 AGTGAATGGTCATGGTGGTTTAAGGAGTTTATACTCCTCATTCCTGCTATTAATCTCATCAAAAT
131 AGTGAATGGTCATGGTGGTTTAAGGAGTTTATACTCCTAATTCCTGCTATTAATCTCATCAAAAT
*
93593673 AAGGTTTTAAGTGGGTGTTGTTTACCTTAAAAGTGCCGAACTTGGGATGACT
196 AAGGTTTTAAGCGGGTGTTGTTTACCTTAAAAGTGCCGAACTTGGGATGACT
93593725 CACCTGTATTCAAGATTTCTATTAGTAAGTTAGGAGTTAAATACCAAAATTTAAAGAAATTAATA
1 CACCTGTATTCAAGATTTCTATTAGTAAGTTAGGAGTTAAATACCAAAATTTAAAGAAATTAATA
*
93593790 TTGTTAGTGCTCGGGTTGCCTCCCAAGAAGCGCTTATTTATAGTCTAAGCTCGACTTACCTCTTC
66 TTGTTAGTGCTCGGGTTGCCTCCCAAGAAACGCTTATTTATAGTCTAAGCTCGACTTACCTCTTC
93593855 AGTGAATGGTCATGGTGGTTTAAGGAGTTTATACTCCTAATTCCTGCTATTAATCTCATCAAAAT
131 AGTGAATGGTCATGGTGGTTTAAGGAGTTTATACTCCTAATTCCTGCTATTAATCTCATCAAAAT
*
93593920 AAGGTTTTAAGCGGGTGTTGTTTACCTTAAAAGTGCCGTACTTGGGATGACT
196 AAGGTTTTAAGCGGGTGTTGTTTACCTTAAAAGTGCCGAACTTGGGATGACT
93593972 CACCT
1 CACCT
93593977 CCACCGTACC
Statistics
Matches: 247, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
247 247 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (247 bp):
CACCTGTATTCAAGATTTCTATTAGTAAGTTAGGAGTTAAATACCAAAATTTAAAGAAATTAATA
TTGTTAGTGCTCGGGTTGCCTCCCAAGAAACGCTTATTTATAGTCTAAGCTCGACTTACCTCTTC
AGTGAATGGTCATGGTGGTTTAAGGAGTTTATACTCCTAATTCCTGCTATTAATCTCATCAAAAT
AAGGTTTTAAGCGGGTGTTGTTTACCTTAAAAGTGCCGAACTTGGGATGACT
Found at i:93609616 original size:15 final size:16
Alignment explanation
Indices: 93609596--93609629 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
93609586 ATGTTGGACC
*
93609596 ATTAACTGGA-GATTT
1 ATTAACTGCACGATTT
93609611 ATTAACTGCACGATTT
1 ATTAACTGCACGATTT
93609627 ATT
1 ATT
93609630 GATTGTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (16 bp):
ATTAACTGCACGATTT
Found at i:93612053 original size:17 final size:17
Alignment explanation
Indices: 93612031--93612064 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
93612021 AATAAATGTG
93612031 AATGTCCATATTCTAAC
1 AATGTCCATATTCTAAC
93612048 AATGTCCATATTCTAAC
1 AATGTCCATATTCTAAC
93612065 CCCCCTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (17 bp):
AATGTCCATATTCTAAC
Found at i:93624563 original size:28 final size:28
Alignment explanation
Indices: 93624531--93624595 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
93624521 ATTTACTAGA
*
93624531 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
93624559 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
93624587 ATACCCCTA
1 ATACCCCTA
93624596 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:93624759 original size:27 final size:27
Alignment explanation
Indices: 93624701--93624790 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 27
93624691 AGGAAGCGTC
93624701 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
93624729 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
* *
93624756 CTGGTGACACTGCCATAAAATATCTGTAT
1 CTGGTGGCACTGCCA-CAAATATCTGT-T
93624785 CTGGTG
1 CTGGTG
93624791 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 21 0.40
28 25 0.47
29 7 0.13
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:93664385 original size:90 final size:90
Alignment explanation
Indices: 93664279--93664458 Score: 342
Period size: 90 Copynumber: 2.0 Consensus size: 90
93664269 AAGAAAGTTA
* *
93664279 GAATCGAGATTGGATTGACAAATTTCCTAACTAGAAAAATAAACTAACACTATATAATTAAATCA
1 GAATCGAGATTAGATTGAAAAATTTCCTAACTAGAAAAATAAACTAACACTATATAATTAAATCA
93664344 ATCGAATTTATTAAAGAAAAACATG
66 ATCGAATTTATTAAAGAAAAACATG
93664369 GAATCGAGATTAGATTGAAAAATTTCCTAACTAGAAAAATAAACTAACACTATATAATTAAATCA
1 GAATCGAGATTAGATTGAAAAATTTCCTAACTAGAAAAATAAACTAACACTATATAATTAAATCA
93664434 ATCGAATTTATTAAAGAAAAACATG
66 ATCGAATTTATTAAAGAAAAACATG
93664459 AGCTTCTTCC
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 88 1.00
ACGTcount: A:0.50, C:0.12, G:0.11, T:0.28
Consensus pattern (90 bp):
GAATCGAGATTAGATTGAAAAATTTCCTAACTAGAAAAATAAACTAACACTATATAATTAAATCA
ATCGAATTTATTAAAGAAAAACATG
Found at i:93665530 original size:6 final size:6
Alignment explanation
Indices: 93665521--93665600 Score: 90
Period size: 6 Copynumber: 13.3 Consensus size: 6
93665511 ACATAAAAGG
* *
93665521 AAAAAT AAAACT CAAAAT AAAAAT -AAAAT AAAAGAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT
* * * *
93665569 AAACAT AAACAT AAACAT AAACAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
93665601 TCAGACTCAA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
5 5 0.08
6 55 0.83
7 6 0.09
ACGTcount: A:0.75, C:0.07, G:0.01, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:93665539 original size:30 final size:30
Alignment explanation
Indices: 93665503--93665577 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
93665493 AATAGGATAA
* *
93665503 CAAAATAGACATAAAAGGAAAA-ATAAAACT
1 CAAAATAAACATAAAA-GAAAAGATAAAAAT
* *
93665533 CAAAATAAAAATAAAATAAAAGATAAAAAT
1 CAAAATAAACATAAAAGAAAAGATAAAAAT
*
93665563 AAAAATAAACATAAA
1 CAAAATAAACATAAA
93665578 CATAAACATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 4 0.11
30 34 0.89
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.15
Consensus pattern (30 bp):
CAAAATAAACATAAAAGAAAAGATAAAAAT
Done.