Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 116 of 171
Found at i:36943237 original size:51 final size:50
Alignment explanation
Indices: 36943126--36943260 Score: 164
Period size: 50 Copynumber: 2.6 Consensus size: 50
36943116 GCTATAAACG
* * * * *
36943126 AAAGAGTCCGATGATTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAG-GTCCGATGACT-AGTGTCATCGTGAGTAAATGAATCCATGACGAACT
*
36943178 AAAGGTCCGATGACTAGTGTCATCGTGAGTAAATGAATCCATGATGAACT
1 AAAGGTCCGATGACTAGTGTCATCGTGAGTAAATGAATCCATGACGAACT
36943228 AAATGGTCCGATGACAATA-TGTCATCGTGAGTA
1 AAA-GGTCCGATGAC--TAGTGTCATCGTGAGTA
36943261 TTCAATGAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
50 33 0.45
51 21 0.28
52 18 0.24
53 2 0.03
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (50 bp):
AAAGGTCCGATGACTAGTGTCATCGTGAGTAAATGAATCCATGACGAACT
Found at i:36947061 original size:37 final size:37
Alignment explanation
Indices: 36947018--36947111 Score: 170
Period size: 37 Copynumber: 2.5 Consensus size: 37
36947008 GACCACGAAT
*
36947018 CGATGAGCCACTGGGTGTCAAATTACTTCGGTTTAAC
1 CGATGAGACACTGGGTGTCAAATTACTTCGGTTTAAC
*
36947055 CGATGAGACACTGGGTGTCAAATTTCTTCGGTTTAAC
1 CGATGAGACACTGGGTGTCAAATTACTTCGGTTTAAC
36947092 CGATGAGACACTGGGTGTCA
1 CGATGAGACACTGGGTGTCA
36947112 CTTTTATTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (37 bp):
CGATGAGACACTGGGTGTCAAATTACTTCGGTTTAAC
Found at i:36959809 original size:280 final size:280
Alignment explanation
Indices: 36959266--36959831 Score: 1100
Period size: 281 Copynumber: 2.0 Consensus size: 280
36959256 TTGTACTTTC
36959266 ATTTTG-ATCTTTCAACTTTTAGGTTGCTTTCATTTTGGTCACCCAGAAAATATCTTTTCTAAGT
1 ATTTTGAATCTTTCAACTTTTAGGTTGCTTTCATTTTGGTCACCCAGAAAATATCTTTTCTAAGT
*
36959330 ATTGATTTGGGTAAAAAAATCAAGGATTAAAGTTAAAAAGAGATAGAAACTAAAATAATACAATA
66 ATTGATTTGGGTAAAAAAATCAAGGATTAAAGTGAAAAAGAGATAGAAACTAAAATAATACAATA
36959395 AAATTATCGAATTGTACTTGTTTATCTCATTGTCGAAAATTCTAAATTTTGGTTTTGAAATATAA
131 AAATTATCGAATTGTACTTGTTTATCTCATTGTCGAAAATTCTAAATTTTGGTTTTGAAATATAA
36959460 ATTTTTAAATATTAAGATTCAAAAGTATACTAACAAATTGGTTGATATTATCAATGGAGAAAAAA
196 ATTTTTAAATATTAAGATTCAAAAGTATACTAACAAATTGGTTGATATTATCAATGGAGAAAAAA
36959525 AGTCAACATTTTTTTTAATTT
261 AGTCAACA-TTTTTTTAATTT
36959546 ATTTTGAATCTTTCAACTTTTAGGTTGCTTTCATTTTGGTCACCCAGAAAATATCTTTTCTAAGT
1 ATTTTGAATCTTTCAACTTTTAGGTTGCTTTCATTTTGGTCACCCAGAAAATATCTTTTCTAAGT
36959611 ATTGATTTGGGTAAAAAAATCAAGGATTAAAGTGAAAAAGAGATAGAAACTAAAATAATACAATA
66 ATTGATTTGGGTAAAAAAATCAAGGATTAAAGTGAAAAAGAGATAGAAACTAAAATAATACAATA
36959676 AAATTATCGAATTGTACTTGTTTATCTCATTGTCGAAAATTCTAAATTTTGG-TTTGAAATATAA
131 AAATTATCGAATTGTACTTGTTTATCTCATTGTCGAAAATTCTAAATTTTGGTTTTGAAATATAA
36959740 ATTTTTAAATATTAAGATTCAAAAGTATACTAACAAATTGGTTGATATTATCAATGGAGAAAAAA
196 ATTTTTAAATATTAAGATTCAAAAGTATACTAACAAATTGGTTGATATTATCAATGGAGAAAAAA
36959805 AGTCAACATTTTTTTAATTT
261 AGTCAACATTTTTTTAATTT
36959825 ATTTTGA
1 ATTTTGA
36959832 TGTTTTGAAA
Statistics
Matches: 284, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
279 19 0.07
280 91 0.32
281 174 0.61
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (280 bp):
ATTTTGAATCTTTCAACTTTTAGGTTGCTTTCATTTTGGTCACCCAGAAAATATCTTTTCTAAGT
ATTGATTTGGGTAAAAAAATCAAGGATTAAAGTGAAAAAGAGATAGAAACTAAAATAATACAATA
AAATTATCGAATTGTACTTGTTTATCTCATTGTCGAAAATTCTAAATTTTGGTTTTGAAATATAA
ATTTTTAAATATTAAGATTCAAAAGTATACTAACAAATTGGTTGATATTATCAATGGAGAAAAAA
AGTCAACATTTTTTTAATTT
Found at i:36961711 original size:22 final size:21
Alignment explanation
Indices: 36961686--36961728 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
36961676 CTATTTTTAA
36961686 ATTTTTTTAAATTTATAAAAAT
1 ATTTTTTT-AATTTATAAAAAT
*
36961708 ATTTTTTTAATTTTTAAAAAT
1 ATTTTTTTAATTTATAAAAAT
36961729 TAATTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTTTTTAATTTATAAAAAT
Found at i:36961729 original size:31 final size:31
Alignment explanation
Indices: 36961660--36961729 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
36961650 TCCTGTCATC
*
36961660 TAAAAATATATAAAAACTATTTTTAAATTTT
1 TAAAAATTTATAAAAACTATTTTTAAATTTT
** *
36961691 TTTAAATTTATAAAAA-TATTTTTTTAATTTT
1 TAAAAATTTATAAAAACTA-TTTTTAAATTTT
36961722 TAAAAATT
1 TAAAAATT
36961730 AATTAAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 2 0.06
31 30 0.94
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (31 bp):
TAAAAATTTATAAAAACTATTTTTAAATTTT
Found at i:36961907 original size:34 final size:36
Alignment explanation
Indices: 36961868--36961939 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
36961858 TTAAACTAAG
*
36961868 AATTAAAAT-AA-TTTTTTATAAAATTTGAGAGTCA
1 AATTAAAATAAATTTTTTTATAAAATTTGAAAGTCA
36961902 AATTAAAATAAATTTTTTTATAAAATTTGAAAGTCA
1 AATTAAAATAAATTTTTTTATAAAATTTGAAAGTCA
36961938 AA
1 AA
36961940 AAATTAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 9 0.26
35 2 0.06
36 24 0.69
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (36 bp):
AATTAAAATAAATTTTTTTATAAAATTTGAAAGTCA
Found at i:36961948 original size:34 final size:35
Alignment explanation
Indices: 36961871--36961948 Score: 108
Period size: 36 Copynumber: 2.3 Consensus size: 35
36961861 AACTAAGAAT
*
36961871 TAAAAT-AA-TTTTTTATAAAATTTGAGAGTCAAA
1 TAAAATAAATTTTTTTATAAAATTTGAAAGTCAAA
36961904 TTAAAATAAATTTTTTTATAAAATTTGAAAGTCAAA
1 -TAAAATAAATTTTTTTATAAAATTTGAAAGTCAAA
*
36961940 -AAATTAAAT
1 TAAAATAAAT
36961949 AAAAAGTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 14 0.35
35 2 0.05
36 24 0.60
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (35 bp):
TAAAATAAATTTTTTTATAAAATTTGAAAGTCAAA
Found at i:36963158 original size:18 final size:17
Alignment explanation
Indices: 36963127--36963163 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
36963117 TTAAAAATTA
*
36963127 TTTTAAAAATTTAAAAC
1 TTTTAAAAAATTAAAAC
36963144 TTTTAAAAAAATTAAAAC
1 TTTT-AAAAAATTAAAAC
36963162 TT
1 TT
36963164 AAAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTTAAAAAATTAAAAC
Found at i:36970947 original size:15 final size:16
Alignment explanation
Indices: 36970911--36970950 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
36970901 ATATTAAAAA
36970911 TATAATTTTATCATTTT
1 TATAA-TTTATCATTTT
*
36970928 AATAATTTAT-ATTTT
1 TATAATTTATCATTTT
36970943 TATAATTT
1 TATAATTT
36970951 TAAAGAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 12 0.57
16 5 0.24
17 4 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATAATTTATCATTTT
Found at i:36970951 original size:8 final size:8
Alignment explanation
Indices: 36970911--36970952 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
36970901 ATATTAAAAA
36970911 TATAATTT
1 TATAATTT
*
36970919 TATCATTT
1 TATAATTT
36970927 TAATAA-TT
1 T-ATAATTT
*
36970935 TATATTTT
1 TATAATTT
36970943 TATAATTT
1 TATAATTT
36970951 TA
1 TA
36970953 AAGAATTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 3 0.11
8 22 0.79
9 3 0.11
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (8 bp):
TATAATTT
Found at i:36972783 original size:2 final size:2
Alignment explanation
Indices: 36972771--36972803 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
36972761 AATATTCAAA
36972771 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36972804 TTATTTATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36986181 original size:16 final size:17
Alignment explanation
Indices: 36986155--36986190 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
36986145 TCTGAATTTA
36986155 TTTATTTATTTATTATT
1 TTTATTTATTTATTATT
36986172 TTTA-TTATTTATTATT
1 TTTATTTATTTATTATT
36986188 TTT
1 TTT
36986191 TCCATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTATTTATTTATTATT
Found at i:37005805 original size:91 final size:91
Alignment explanation
Indices: 37005644--37005850 Score: 353
Period size: 91 Copynumber: 2.3 Consensus size: 91
37005634 TCTTATCAAT
37005644 ATGAATGAAATGATTTTCTTATTAACTACTAACATATTTGCATGAACTAATATGTATTCCTTGAA
1 ATGAATGAAATGATTTTCTTATTAACTACTAACATATTTGCATGAACTAATATGTATTCCTTGAA
* *
37005709 CTTGAATTTTTATTCTTGTATAAGAA
66 ATTGAATTTATATTCTTGTATAAGAA
* *
37005735 ATTAATGAAATGATTTTCTTATTAACTACTAACATATTTGCATGAATTAATATGTATTCCTTGAA
1 ATGAATGAAATGATTTTCTTATTAACTACTAACATATTTGCATGAACTAATATGTATTCCTTGAA
37005800 ATTGAATTTATATTCTTGTATAAGAA
66 ATTGAATTTATATTCTTGTATAAGAA
*
37005826 ATGAATGAAATGGA-TTTCATATTAA
1 ATGAATGAAAT-GATTTTCTTATTAA
37005851 AGCTCTATTT
Statistics
Matches: 109, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
91 107 0.98
92 2 0.02
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (91 bp):
ATGAATGAAATGATTTTCTTATTAACTACTAACATATTTGCATGAACTAATATGTATTCCTTGAA
ATTGAATTTATATTCTTGTATAAGAA
Found at i:37006356 original size:46 final size:46
Alignment explanation
Indices: 37006280--37006381 Score: 132
Period size: 46 Copynumber: 2.2 Consensus size: 46
37006270 TATTACAAAT
* * * * *
37006280 TAGTAGTACATCACATGATAAATACAATATTTTCCAAGTGCATGAC
1 TAGTATTACACCACATGATAAATACAATATTGTCCAAATGCATAAC
* *
37006326 TAGTATTACACCACATGATAACTACTATATTGTCCAAATGCATAAC
1 TAGTATTACACCACATGATAAATACAATATTGTCCAAATGCATAAC
*
37006372 TAATATTACA
1 TAGTATTACA
37006382 AAATAGTAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (46 bp):
TAGTATTACACCACATGATAAATACAATATTGTCCAAATGCATAAC
Found at i:37007411 original size:32 final size:33
Alignment explanation
Indices: 37007370--37007445 Score: 113
Period size: 32 Copynumber: 2.4 Consensus size: 33
37007360 CAATCATTTC
37007370 AATATCCAACAAGC-TTAAAACATAATAAATT-A
1 AATATCCAACAA-CTTTAAAACATAATAAATTCA
*
37007402 AATATCCAACAACTTTAAAACATAATAATTTCA
1 AATATCCAACAACTTTAAAACATAATAAATTCA
37007435 AA-ATCCAACAA
1 AATATCCAACAA
37007446 ACTAATTTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
31 1 0.02
32 37 0.90
33 3 0.07
ACGTcount: A:0.55, C:0.18, G:0.01, T:0.25
Consensus pattern (33 bp):
AATATCCAACAACTTTAAAACATAATAAATTCA
Found at i:37014118 original size:30 final size:30
Alignment explanation
Indices: 37014082--37014146 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
37014072 CAACTTAACA
* * *
37014082 AACAAATGTCTTTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAAAAACAAAATT
*
37014112 AACAAATGCCTCTAAAATAAAAATAAAATT
1 AACAAATGCCTCTAAAATAAAAACAAAATT
37014142 AACAA
1 AACAA
37014147 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.60, C:0.12, G:0.03, T:0.25
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAAAAACAAAATT
Found at i:37015584 original size:24 final size:24
Alignment explanation
Indices: 37015557--37015606 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
37015547 ATTTCAATGC
*
37015557 ATGTAAATAAATCTAGATTTTGAT
1 ATGTAAATAAATCTAGATTTTAAT
*
37015581 ATGTGAATAAATCTAGATTTTAAT
1 ATGTAAATAAATCTAGATTTTAAT
37015605 AT
1 AT
37015607 TTTGATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (24 bp):
ATGTAAATAAATCTAGATTTTAAT
Found at i:37016064 original size:7 final size:8
Alignment explanation
Indices: 37016045--37016076 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
37016035 ATTACAAAAA
37016045 AAAAATTC
1 AAAAATTC
37016053 AAAAATTC
1 AAAAATTC
37016061 AAAAAATTC
1 -AAAAATTC
37016070 AAAAATT
1 AAAAATT
37016077 TATATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (8 bp):
AAAAATTC
Found at i:37016066 original size:17 final size:17
Alignment explanation
Indices: 37016044--37016076 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
37016034 AATTACAAAA
37016044 AAAAAATTCAAAAATTC
1 AAAAAATTCAAAAATTC
37016061 AAAAAATTCAAAAATT
1 AAAAAATTCAAAAATT
37016077 TATATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAAATTCAAAAATTC
Found at i:37017220 original size:21 final size:21
Alignment explanation
Indices: 37017181--37017220 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
37017171 AAAATTTTAA
* *
37017181 AATAATTAAAATTAGTAAAAC
1 AATAATAAAAATAAGTAAAAC
*
37017202 AATAATAAAAATAATTAAA
1 AATAATAAAAATAAGTAAA
37017221 TAGTTTAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (21 bp):
AATAATAAAAATAAGTAAAAC
Found at i:37018511 original size:49 final size:49
Alignment explanation
Indices: 37018439--37018536 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
37018429 CAGCATCTCA
37018439 ATATCTGTTCTTAAGGTACATAATAAATATATATTAATATATTTATTGT
1 ATATCTGTTCTTAAGGTACATAATAAATATATATTAATATATTTATTGT
37018488 ATATCTGTTCTTAAGGTACATAATAAATATATATTAATATATTTATTGT
1 ATATCTGTTCTTAAGGTACATAATAAATATATATTAATATATTTATTGT
37018537 TTGTTTACTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (49 bp):
ATATCTGTTCTTAAGGTACATAATAAATATATATTAATATATTTATTGT
Found at i:37018671 original size:16 final size:16
Alignment explanation
Indices: 37018650--37018680 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
37018640 ATTTTTAATA
37018650 AATAAATAATAAAGGT
1 AATAAATAATAAAGGT
37018666 AATAAATAATAAAGG
1 AATAAATAATAAAGG
37018681 AAGATTAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.23
Consensus pattern (16 bp):
AATAAATAATAAAGGT
Found at i:37019343 original size:36 final size:36
Alignment explanation
Indices: 37019296--37019381 Score: 154
Period size: 36 Copynumber: 2.4 Consensus size: 36
37019286 TACTCTGGTG
37019296 AAACGACGCTGTTTAGTGAAGGGTGTTTAAGTGCCA
1 AAACGACGCTGTTTAGTGAAGGGTGTTTAAGTGCCA
37019332 AAACGACGCTGTTTAGTGAAGGGTGTTTAAGTGCCA
1 AAACGACGCTGTTTAGTGAAGGGTGTTTAAGTGCCA
* *
37019368 AAACGGCGCCGTTT
1 AAACGACGCTGTTT
37019382 TGCCAGGACA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (36 bp):
AAACGACGCTGTTTAGTGAAGGGTGTTTAAGTGCCA
Found at i:37019696 original size:29 final size:28
Alignment explanation
Indices: 37019632--37019844 Score: 163
Period size: 30 Copynumber: 7.5 Consensus size: 28
37019622 CTATTTTATA
*
37019632 CCAAAATTACATTATGACCACCAAACTTTT
1 CCAAAATTACATT-TTACC-CCAAACTTTT
37019662 CCAAAATTACATTTTCACCCCAAACTTTT
1 CCAAAATTACATTTT-ACCCCAAACTTTT
* *
37019691 CTAAAATTAC--CTT----CAAACTTTT
1 CCAAAATTACATTTTACCCCAAACTTTT
*
37019713 CCAAAATTGCATTTTAGCCACCAAACTTTT
1 CCAAAATTACATTTTA-CC-CCAAACTTTT
* * * *
37019743 CCAAAATTGCATTTAACCCTAAAC-TTC
1 CCAAAATTACATTTTACCCCAAACTTTT
* *
37019770 CCAAAAATCACATTTTAACACCCAAACCTTT
1 CC-AAAATTACATTTT-AC-CCCAAACTTTT
* *
37019801 CCAAAATTGCATTTTGACCCCTAAACTTCT
1 CCAAAATTACATTTT-ACCCC-AAACTTTT
*
37019831 -CAAAATCACATTTT
1 CCAAAATTACATTTT
37019845 GATCCTCAAC
Statistics
Matches: 148, Mismatches: 21, Indels: 29
0.75 0.11 0.15
Matches are distributed among these distances:
22 17 0.11
24 2 0.01
27 6 0.04
28 15 0.10
29 39 0.26
30 65 0.44
31 4 0.03
ACGTcount: A:0.37, C:0.28, G:0.03, T:0.32
Consensus pattern (28 bp):
CCAAAATTACATTTTACCCCAAACTTTT
Found at i:37019708 original size:51 final size:52
Alignment explanation
Indices: 37019653--37019750 Score: 155
Period size: 51 Copynumber: 1.9 Consensus size: 52
37019643 TTATGACCAC
*
37019653 CAAACTTTTCCAAAATTACATTTTCA-CC-CCAAACTTTTCTAAAATTACCTT
1 CAAACTTTTCCAAAATTACATTTT-AGCCACCAAACTTTTCCAAAATTACCTT
*
37019704 CAAACTTTTCCAAAATTGCATTTTAGCCACCAAACTTTTCCAAAATT
1 CAAACTTTTCCAAAATTACATTTTAGCCACCAAACTTTTCCAAAATT
37019751 GCATTTAACC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
50 1 0.02
51 25 0.58
52 17 0.40
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.36
Consensus pattern (52 bp):
CAAACTTTTCCAAAATTACATTTTAGCCACCAAACTTTTCCAAAATTACCTT
Found at i:37019845 original size:29 final size:29
Alignment explanation
Indices: 37019759--37019877 Score: 116
Period size: 29 Copynumber: 4.0 Consensus size: 29
37019749 TTGCATTTAA
*
37019759 CCCTAAACTTCCCAAAAATCACATTTTAAC
1 CCCTAAACTTCCC-AAAATCACATTTTGAC
* **
37019789 ACCC-AAACCTTTCCAAAATTGCATTTTGAC
1 -CCCTAAA-CTTCCCAAAATCACATTTTGAC
*
37019819 CCCTAAACTTCTCAAAATCACATTTTGA-
1 CCCTAAACTTCCCAAAATCACATTTTGAC
* * *
37019847 TCCTCAACCTTCCCGAAATCACATTTTGAC
1 CCCT-AAACTTCCCAAAATCACATTTTGAC
37019877 C
1 C
37019878 TCGAATTCTC
Statistics
Matches: 71, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
28 3 0.04
29 41 0.58
30 19 0.27
31 8 0.11
ACGTcount: A:0.34, C:0.33, G:0.04, T:0.29
Consensus pattern (29 bp):
CCCTAAACTTCCCAAAATCACATTTTGAC
Found at i:37019857 original size:58 final size:60
Alignment explanation
Indices: 37019733--37019844 Score: 176
Period size: 58 Copynumber: 1.9 Consensus size: 60
37019723 ATTTTAGCCA
* *
37019733 CCAAACTTTTCCAAAATTGCA-TTT-AACCCTAAACTTCCCAAAAATCACATTTTAACAC
1 CCAAACCTTTCCAAAATTGCATTTTGACCCCTAAACTTCCCAAAAATCACATTTTAACAC
*
37019791 CCAAACCTTTCCAAAATTGCATTTTGACCCCTAAACTTCTC-AAAATCACATTTT
1 CCAAACCTTTCCAAAATTGCATTTTGACCCCTAAACTTCCCAAAAATCACATTTT
37019845 GATCCTCAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
58 20 0.41
59 16 0.33
60 13 0.27
ACGTcount: A:0.37, C:0.29, G:0.03, T:0.31
Consensus pattern (60 bp):
CCAAACCTTTCCAAAATTGCATTTTGACCCCTAAACTTCCCAAAAATCACATTTTAACAC
Found at i:37019877 original size:58 final size:60
Alignment explanation
Indices: 37019759--37019877 Score: 145
Period size: 58 Copynumber: 2.0 Consensus size: 60
37019749 TTGCATTTAA
* **
37019759 CCCTAAACTTCCCAAAAATCACATTTTAACACCCAAACCTTTCCAAAATTGCATTTTGAC
1 CCCTAAACTTCCCAAAAATCACATTTTAACACCCAAACCTTCCCAAAATCACATTTTGAC
* * * *
37019819 CCCTAAACTTCTC-AAAATCACATTTTGATC-CTC-AACCTTCCCGAAATCACATTTTGAC
1 CCCTAAACTTCCCAAAAATCACATTTT-AACACCCAAACCTTCCCAAAATCACATTTTGAC
37019877 C
1 C
37019878 TCGAATTCTC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
58 22 0.43
59 15 0.29
60 14 0.27
ACGTcount: A:0.34, C:0.33, G:0.04, T:0.29
Consensus pattern (60 bp):
CCCTAAACTTCCCAAAAATCACATTTTAACACCCAAACCTTCCCAAAATCACATTTTGAC
Found at i:37019891 original size:28 final size:28
Alignment explanation
Indices: 37019810--37019892 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 28
37019800 TCCAAAATTG
* * * *
37019810 CATTTTGACCCCTAAACTTCTCAAAATCA
1 CATTTTGA-TCCTCAACTTCCCGAAATCA
37019839 CATTTTGATCCTCAACCTTCCCGAAATCA
1 CATTTTGATCCTCAA-CTTCCCGAAATCA
37019868 CATTTTGA-CCTCGAA-TTCTCCGAAA
1 CATTTTGATCCTC-AACTTC-CCGAAA
37019893 CTTCATTTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
27 3 0.06
28 15 0.32
29 29 0.62
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.31
Consensus pattern (28 bp):
CATTTTGATCCTCAACTTCCCGAAATCA
Found at i:37040869 original size:23 final size:22
Alignment explanation
Indices: 37040818--37040873 Score: 85
Period size: 23 Copynumber: 2.5 Consensus size: 22
37040808 AGTGTTGGGC
37040818 AACAGTAAGCACACACAGTGCA
1 AACAGTAAGCACACACAGTGCA
*
37040840 AATCAGTAAGCACACACAGTGCTG
1 AA-CAGTAAGCACACACAGTGC-A
37040864 AACAGTAAGC
1 AACAGTAAGC
37040874 GCGCTAGTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
22 2 0.06
23 27 0.87
24 2 0.06
ACGTcount: A:0.43, C:0.25, G:0.20, T:0.12
Consensus pattern (22 bp):
AACAGTAAGCACACACAGTGCA
Found at i:37041503 original size:11 final size:11
Alignment explanation
Indices: 37041472--37041506 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
37041462 AATTTAAGTC
37041472 TCTACTAATTTT
1 TCTA-TAATTTT
37041484 TCTAT-ATTTT
1 TCTATAATTTT
37041494 TCTATAATTTT
1 TCTATAATTTT
37041505 TC
1 TC
37041507 AAAGTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 8 0.36
12 4 0.18
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (11 bp):
TCTATAATTTT
Found at i:37047767 original size:31 final size:31
Alignment explanation
Indices: 37047729--37047808 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 31
37047719 CCTCATGCTC
* * *
37047729 CACCTCGTTAGGTAGTTAGGTGTGATGGGAT
1 CACCTCGTTAGGTAGTGAAGAGTGATGGGAT
* *
37047760 CACCTCGTTAGATGGTGAAGAGTGATGGGAT
1 CACCTCGTTAGGTAGTGAAGAGTGATGGGAT
* * *
37047791 CACCCCGTGAGGTGGTGA
1 CACCTCGTTAGGTAGTGA
37047809 TGTGTGACGA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.21, C:0.16, G:0.36, T:0.26
Consensus pattern (31 bp):
CACCTCGTTAGGTAGTGAAGAGTGATGGGAT
Found at i:37048765 original size:53 final size:54
Alignment explanation
Indices: 37048556--37048765 Score: 179
Period size: 54 Copynumber: 3.9 Consensus size: 54
37048546 TAGATCAACT
** * * * * * * * *
37048556 AACTGCAAGATTCAAAAAATCTTGTAAGCAAAAAGTTATGATTTTATATTAACG
1 AACTGCAAGATTCTGAAAATCTTGTAAGTAAAAGGTCACGATTGTAAATCAATG
* * * * * * *
37048610 AGCCGCAAAATTTTGAAAATATTGTAAGTAAAAGGTTACAATTGTAAATCAATG
1 AACTGCAAGATTCTGAAAATCTTGTAAGTAAAAGGTCACGATTGTAAATCAATG
* ** * *
37048664 AACTGCAAGATTCTGAAAATCTTGAAAGTAAAAGGTCGTGATCGTAAATCGATG
1 AACTGCAAGATTCTGAAAATCTTGTAAGTAAAAGGTCACGATTGTAAATCAATG
* ** *
37048718 AATTG-AAGATTCTGAAAATCTTGTAAGTAGGAGGTCACGATTATAAAT
1 AACTGCAAGATTCTGAAAATCTTGTAAGTAAAAGGTCACGATTGTAAAT
37048766 TGACGAATCG
Statistics
Matches: 121, Mismatches: 35, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
53 36 0.30
54 85 0.70
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (54 bp):
AACTGCAAGATTCTGAAAATCTTGTAAGTAAAAGGTCACGATTGTAAATCAATG
Found at i:37067480 original size:3 final size:3
Alignment explanation
Indices: 37067474--37067506 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
37067464 ATAATAATAA
37067474 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
37067507 AAAAAGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:37074076 original size:23 final size:24
Alignment explanation
Indices: 37074046--37074102 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
37074036 ATCTGCATAC
37074046 TTGG-TTTGAACTTTG-TTTTGAT
1 TTGGATTTGAACTTTGTTTTTGAT
*
37074068 TTGGATTTGAACTTTGTTTTTGTT
1 TTGGATTTGAACTTTGTTTTTGAT
37074092 TTGGATTTGAA
1 TTGGATTTGAA
37074103 AGTAATAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 4 0.12
23 11 0.34
24 17 0.53
ACGTcount: A:0.16, C:0.04, G:0.23, T:0.58
Consensus pattern (24 bp):
TTGGATTTGAACTTTGTTTTTGAT
Found at i:37074914 original size:2 final size:2
Alignment explanation
Indices: 37074907--37074931 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37074897 GTTAAAAGAA
37074907 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
37074932 AAGATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37087835 original size:18 final size:19
Alignment explanation
Indices: 37087809--37087844 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
37087799 AAAATAAAAA
37087809 TTAATTAAAGAAAAATAAT
1 TTAATTAAAGAAAAATAAT
*
37087828 TTAA-TAAATAAAAATAA
1 TTAATTAAAGAAAAATAA
37087845 ACTAAAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
TTAATTAAAGAAAAATAAT
Found at i:37089497 original size:7 final size:7
Alignment explanation
Indices: 37089485--37089510 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
37089475 AAGAGGACGT
37089485 GGGTTTA
1 GGGTTTA
37089492 GGGTTTA
1 GGGTTTA
37089499 GGGTTTA
1 GGGTTTA
37089506 GGGTT
1 GGGTT
37089511 GGAGAGGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.46, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:37089746 original size:153 final size:157
Alignment explanation
Indices: 37089461--37089774 Score: 546
Period size: 153 Copynumber: 2.0 Consensus size: 157
37089451 TGGCATAGGC
*
37089461 ATTGTTTCCAATGCAAGAGGACGTGGGTTTAGGGTTTAGGGTTTAGGGTTGGAGAGGGGTTATAA
1 ATTGTTTCCAATGCAAGAGGACGTGGGTTTAGGGTTTAGGGTTT--GG-TGGAGAGGGGCTATAA
*
37089526 GTAGTTCTAGGCATTGTTTCAAAAAGATCAAATATGATCGGAACCTATAATAAGATTATTCAAAA
63 GTAGTTCTAGGCATTGTTTCAAAAAGAGCAAATATGATCGGAACCTATAATAAGATTATTCAAAA
37089591 AAAATGCAATATCTCTTTTTGTATTGTTGA
128 AAAATGCAATATCTCTTTTTGTATTGTTGA
37089621 ATTGTTTCCAATGCAAGAGGACGTGGGTTTAGGGTTTAGGG-TT-G-GG-GAGGGGCTATAAGTA
1 ATTGTTTCCAATGCAAGAGGACGTGGGTTTAGGGTTTAGGGTTTGGTGGAGAGGGGCTATAAGTA
*
37089682 GTTCTAGGCATTGTTTCAAAAAGAGCAAATATGATTGGAACCTATAATAAGATTATTCAAAAAAA
66 GTTCTAGGCATTGTTTCAAAAAGAGCAAATATGATCGGAACCTATAATAAGATTATTCAAAAAAA
37089747 ATGCAATATCTCTTTTTGTATTGTTGA
131 ATGCAATATCTCTTTTTGTATTGTTGA
37089774 A
1 A
37089775 GAAGTATAAC
Statistics
Matches: 151, Mismatches: 3, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
153 105 0.70
154 2 0.01
156 1 0.01
159 2 0.01
160 41 0.27
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.34
Consensus pattern (157 bp):
ATTGTTTCCAATGCAAGAGGACGTGGGTTTAGGGTTTAGGGTTTGGTGGAGAGGGGCTATAAGTA
GTTCTAGGCATTGTTTCAAAAAGAGCAAATATGATCGGAACCTATAATAAGATTATTCAAAAAAA
ATGCAATATCTCTTTTTGTATTGTTGA
Found at i:37092505 original size:24 final size:24
Alignment explanation
Indices: 37092455--37092506 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
37092445 TTCGTAGGTC
* * **
37092455 AAATAAATTATGCTTATAAATGTT
1 AAATAAATTATACTAATAAATACT
*
37092479 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
37092503 AAAT
1 AAAT
37092507 CTTTTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:37092984 original size:18 final size:19
Alignment explanation
Indices: 37092958--37093004 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
37092948 TTCAATATCT
*
37092958 TAAAATATAAAAATAATAA-
1 TAAACTATAAAAATAA-AAC
37092977 T-AACTAT-AAAATAAAAC
1 TAAACTATAAAAATAAAAC
37092994 TAAACTATAAA
1 TAAACTATAAA
37093005 CTTTAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 2 0.08
17 8 0.33
18 11 0.46
19 3 0.12
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (19 bp):
TAAACTATAAAAATAAAAC
Found at i:37093116 original size:118 final size:118
Alignment explanation
Indices: 37092986--37093221 Score: 463
Period size: 118 Copynumber: 2.0 Consensus size: 118
37092976 ATAACTATAA
37092986 AATAAAACTAAACTATAAACTTTAAAATACAATAAAAAAATAAAAGTAAAATTGTAAAAAGATGC
1 AATAAAACTAAACTATAAACTTTAAAATACAATAAAAAAATAAAAGTAAAATTGTAAAAAGATGC
*
37093051 GAAGAATGTGAATTTGATGTTGCTTTTGAAGGATAAACATTGATAACAGTAAT
66 GAAGAATGTGAATTTGATGTTGCTTTTGAAGGACAAACATTGATAACAGTAAT
37093104 AATAAAACTAAACTATAAACTTTAAAATACAATAAAAAAATAAAAGTAAAATTGTAAAAAGATGC
1 AATAAAACTAAACTATAAACTTTAAAATACAATAAAAAAATAAAAGTAAAATTGTAAAAAGATGC
37093169 GAAGAATGTGAATTTGATGTTGCTTTTGAAGGACAAACATTGATAACAGTAAT
66 GAAGAATGTGAATTTGATGTTGCTTTTGAAGGACAAACATTGATAACAGTAAT
37093222 CATTAATAGT
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 117 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (118 bp):
AATAAAACTAAACTATAAACTTTAAAATACAATAAAAAAATAAAAGTAAAATTGTAAAAAGATGC
GAAGAATGTGAATTTGATGTTGCTTTTGAAGGACAAACATTGATAACAGTAAT
Found at i:37093649 original size:39 final size:38
Alignment explanation
Indices: 37093579--37093658 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
37093569 AATTTTTTTT
37093579 TTTAAAAATTAAAATTTATAAAAAAATATTTTTTAAA-A
1 TTTAAAAATTAAAATTTATAAAAAAATA-TTTTTAAATA
* *
37093617 TTTAAAAAGTATAAAA-TTATTAAATAATATTTTTAAATA
1 TTTAAAAA-T-TAAAATTTATAAAAAAATATTTTTAAATA
37093656 TTT
1 TTT
37093659 TTATTTGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
38 16 0.43
39 16 0.43
40 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (38 bp):
TTTAAAAATTAAAATTTATAAAAAAATATTTTTAAATA
Found at i:37094307 original size:15 final size:16
Alignment explanation
Indices: 37094277--37094315 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
37094267 TAATAAAAAT
37094277 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
37094294 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
37094309 ATAATTT
1 ATAATTT
37094316 TTAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:37094401 original size:36 final size:32
Alignment explanation
Indices: 37094303--37094386 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 32
37094293 AATAATTTAT
* *
37094303 ATTTTTATAATT-TTTAAAAAATT-AAATCA-A
1 ATTTTTATTATTATTTAAAAAGTTAAAAT-ATA
*
37094333 ATTTTTATTATTTTTTAAAAAGTTAAAATATA
1 ATTTTTATTATTATTTAAAAAGTTAAAATATA
37094365 ATTTATTATTATTAATTTAAAA
1 ATTT-TTATTATT-ATTTAAAA
37094387 TTTTATAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
30 11 0.24
31 11 0.24
32 9 0.20
33 8 0.17
34 7 0.15
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (32 bp):
ATTTTTATTATTATTTAAAAAGTTAAAATATA
Found at i:37094428 original size:82 final size:84
Alignment explanation
Indices: 37094272--37094428 Score: 194
Period size: 82 Copynumber: 1.9 Consensus size: 84
37094262 TACGATAATA
* * * * **
37094272 AAAATATAATTTTATTATTTTAATAATTTATATTTTTATAATTTTTAAAAAATTAAATCAAATTT
1 AAAATATAATTTTATTA-TTTAATAATTTAAAATTTTATAAATTATAAAAAATTAAATCAAATAA
*
37094337 TTATTATTTTTTAAAAAGTT
65 TTATCATTTTTTAAAAAGTT
* *
37094357 AAAATATAA-TTTATTA-TTATTAATTTAAAATTTTATAAATTATAAAAAATTTAAATTAAA-AA
1 AAAATATAATTTTATTATTTAATAATTTAAAATTTTATAAATTATAAAAAA-TTAAATCAAATAA
37094419 TTATCATTTT
65 TTATCATTTT
37094429 AAAAGGAACT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
82 37 0.60
83 9 0.15
84 7 0.11
85 9 0.15
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (84 bp):
AAAATATAATTTTATTATTTAATAATTTAAAATTTTATAAATTATAAAAAATTAAATCAAATAAT
TATCATTTTTTAAAAAGTT
Found at i:37095655 original size:21 final size:21
Alignment explanation
Indices: 37095630--37095671 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
37095620 AAATTAATTT
* *
37095630 TAAATAATTATTTTTTGATAA
1 TAAATAATTATTATTTAATAA
37095651 TAAATAATTATTATTTAATAA
1 TAAATAATTATTATTTAATAA
37095672 CCCTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TAAATAATTATTATTTAATAA
Found at i:37096724 original size:21 final size:21
Alignment explanation
Indices: 37096691--37096733 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
37096681 AATATGCACC
37096691 ATTAAAATATTGTATC-AATTA
1 ATTAAAATATTGT-TCAAATTA
* *
37096712 ATTACAATCTTGTTCAAATTA
1 ATTAAAATATTGTTCAAATTA
37096733 A
1 A
37096734 GTAATTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTAAAATATTGTTCAAATTA
Found at i:37101322 original size:16 final size:13
Alignment explanation
Indices: 37101292--37101317 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37101282 TAATTTACCG
37101292 AAATTATTATAAT
1 AAATTATTATAAT
37101305 AAATTATTATAAT
1 AAATTATTATAAT
37101318 TATAATTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:37103325 original size:9 final size:10
Alignment explanation
Indices: 37103304--37103329 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
37103294 TAGTTGTAGC
37103304 AAAATTCTAA
1 AAAATTCTAA
37103314 AAAATTCTAA
1 AAAATTCTAA
37103324 AAAATT
1 AAAATT
37103330 ATTTAAACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAATTCTAA
Found at i:37106338 original size:19 final size:19
Alignment explanation
Indices: 37106299--37106339 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
37106289 TAATGATATA
* *
37106299 ATGTGGTGTAGTTCTAATT
1 ATGTGGTGTAATACTAATT
*
37106318 ATGTGGTGTAATACTAGTT
1 ATGTGGTGTAATACTAATT
37106337 ATG
1 ATG
37106340 CACTTGGACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.27, T:0.44
Consensus pattern (19 bp):
ATGTGGTGTAATACTAATT
Found at i:37107881 original size:238 final size:238
Alignment explanation
Indices: 37107461--37107938 Score: 665
Period size: 238 Copynumber: 2.0 Consensus size: 238
37107451 TAGTCCTTTA
** *
37107461 TAATTTGCAAATTACACTTTTGAGTATTTAATTGTAATTTTATTAATTCAATTTAATCCCTGATT
1 TAATTTGCAAATTACACTTTTGAGTACCTAATTGCAATTTTATTAATTCAATTTAATCCCTGATT
* * *
37107526 TTATCCATTTTAATTATTTATATCATATTTATGATTTACAAATTATTGTTGATGTTTTGTATCAT
66 CTATCCATTTTAATTACTTATATCATATTTATGATTTACAAATTATTGTTGATATTTTGTATCAT
* * *
37107591 TATTTTTTAATATTTATTTTAATTACTTATATTTTGAAAAATAAATATTTGGTTTTTCATAGTGT
131 TATTTTTGAATATTTATTTTAATTACTTATATTTTGAAAAATAAAAATTTGGTCTTTCATAGTGT
*
37107656 GCATGATTTATAATATTTTAATTACTTATATAATGAATTATAT
196 GCATGATCTATAATATTTTAATTACTTATATAATGAATTATAT
** * * * *** *
37107699 TAATTTGCAAATTATGCTTTTGATTACCTAATTGCAATTTTATTGATTCAATTTGATTTTTTATT
1 TAATTTGCAAATTACACTTTTGAGTACCTAATTGCAATTTTATTAATTCAATTTAATCCCTGATT
** * * *
37107764 CTATTTATTTTAATTACTTATATCATATTTATGATTTATAAATTCTTTTTGATATTTTGTATC-T
66 CTATCCATTTTAATTACTTATATCATATTTATGATTTACAAATTATTGTTGATATTTTGTATCAT
37107828 CTAATTTTCTGAATATTTA-TTTAATTACTTATATTTTGAAAAA-AAAAATTTGGTCTTTCATAG
131 -T-ATTTT-TGAATATTTATTTTAATTACTTATATTTTGAAAAATAAAAATTTGGTCTTTCATAG
* * *
37107891 TTTGTATGATCTATAATATTTTAATTACTTATATAATTAATTATAT
193 TGTGCATGATCTATAATATTTTAATTACTTATATAATGAATTATAT
37107937 TA
1 TA
37107939 TAAATTATTG
Statistics
Matches: 210, Mismatches: 27, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
237 1 0.00
238 171 0.81
239 29 0.14
240 9 0.04
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.53
Consensus pattern (238 bp):
TAATTTGCAAATTACACTTTTGAGTACCTAATTGCAATTTTATTAATTCAATTTAATCCCTGATT
CTATCCATTTTAATTACTTATATCATATTTATGATTTACAAATTATTGTTGATATTTTGTATCAT
TATTTTTGAATATTTATTTTAATTACTTATATTTTGAAAAATAAAAATTTGGTCTTTCATAGTGT
GCATGATCTATAATATTTTAATTACTTATATAATGAATTATAT
Found at i:37108491 original size:15 final size:17
Alignment explanation
Indices: 37108452--37108494 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
37108442 CCCTTTTGTC
37108452 CTTCTCTCACGATTTTG
1 CTTCTCTCACGATTTTG
37108469 CTTCTCTCACGATTTTG
1 CTTCTCTCACGATTTTG
37108486 CTTCTCTCA
1 CTTCTCTCA
37108495 ATCTTGCTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.12, C:0.33, G:0.09, T:0.47
Consensus pattern (17 bp):
CTTCTCTCACGATTTTG
Found at i:37111214 original size:24 final size:23
Alignment explanation
Indices: 37111169--37111218 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
37111159 CTAATTAGAT
* * *
37111169 TTTATAAATAATTAATATTAATTA
1 TTTAAAAATAATTAAAAATAA-TA
*
37111193 TTTAAAAATATTTAAAAATAATA
1 TTTAAAAATAATTAAAAATAATA
37111216 TTT
1 TTT
37111219 CATATATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTAAAAATAATTAAAAATAATA
Found at i:37111256 original size:29 final size:30
Alignment explanation
Indices: 37111197--37111256 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
37111187 TAATTATTTA
* *
37111197 AAAATATTTAAAAATAATATTTCATATATT
1 AAAATATTTAAAAATAATATTTAATAAATT
*
37111227 AAAATA-TTAACAATAA-ATTATAATAAATT
1 AAAATATTTAAAAATAATATT-TAATAAATT
37111256 A
1 A
37111257 TTTTTTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 3 0.12
29 17 0.65
30 6 0.23
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (30 bp):
AAAATATTTAAAAATAATATTTAATAAATT
Found at i:37116735 original size:17 final size:17
Alignment explanation
Indices: 37116709--37116748 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
37116699 GCATATGCGA
37116709 TGGTGGCAGAAGCGTGG
1 TGGTGGCAGAAGCGTGG
* *
37116726 TGGTGTCAGACGCGTGG
1 TGGTGGCAGAAGCGTGG
*
37116743 TCGTGG
1 TGGTGG
37116749 TGGTGTCAGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.12, C:0.15, G:0.50, T:0.23
Consensus pattern (17 bp):
TGGTGGCAGAAGCGTGG
Found at i:37122257 original size:23 final size:22
Alignment explanation
Indices: 37122231--37122368 Score: 111
Period size: 23 Copynumber: 5.9 Consensus size: 22
37122221 TTACCGTTCA
*
37122231 GCACTGTGTGTGCTTACTGTTTC
1 GCACT-TGTGTGCCTACTGTTTC
37122254 GCACTTTGTGTGCCTACTGTTTC
1 GCAC-TTGTGTGCCTACTGTTTC
37122277 GCACTTCGTGTGCCTACTGATTT-
1 GCACTT-GTGTGCCTACTG-TTTC
* *
37122300 GCGCTT-TGTGCACCTACTGATT-
1 GCACTTGTGTG--CCTACTGTTTC
*
37122322 GCACTGTGTGTGCTTACTGTTTCCCC
1 GCACT-TGTGTGCCTACTGTTT---C
*
37122348 AGCACTTGTGTGCTTACTGTT
1 -GCACTTGTGTGCCTACTGTT
37122369 AAGTACTTCG
Statistics
Matches: 97, Mismatches: 6, Indels: 21
0.78 0.05 0.17
Matches are distributed among these distances:
21 4 0.04
22 16 0.16
23 49 0.51
24 8 0.08
26 15 0.15
27 5 0.05
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.41
Consensus pattern (22 bp):
GCACTTGTGTGCCTACTGTTTC
Found at i:37122307 original size:46 final size:45
Alignment explanation
Indices: 37122231--37122344 Score: 142
Period size: 46 Copynumber: 2.5 Consensus size: 45
37122221 TTACCGTTCA
** *
37122231 GCACTGTGTGTGCTTACTGTTTCGCACTTTGTGTGCCTACTGTTT
1 GCACTGTGTGTGCTTACTGTTTCGCACTTTGTGCACCTACTGATT
* *
37122276 CGCACT-TCGTGTGCCTACTGATTT-GCGCTTTGTGCACCTACTGATT
1 -GCACTGT-GTGTGCTTACTG-TTTCGCACTTTGTGCACCTACTGATT
37122322 GCACTGTGTGTGCTTACTGTTTC
1 GCACTGTGTGTGCTTACTGTTTC
37122345 CCCAGCACTT
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
44 3 0.05
45 17 0.29
46 35 0.60
47 3 0.05
ACGTcount: A:0.11, C:0.25, G:0.24, T:0.41
Consensus pattern (45 bp):
GCACTGTGTGTGCTTACTGTTTCGCACTTTGTGCACCTACTGATT
Found at i:37122331 original size:22 final size:23
Alignment explanation
Indices: 37122289--37122331 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
37122279 ACTTCGTGTG
* *
37122289 CCTACTGATTTGCGCTTTGTGCA
1 CCTACTGATTTGCACTGTGTGCA
37122312 CCTACTGA-TTGCACTGTGTG
1 CCTACTGATTTGCACTGTGTG
37122332 TGCTTACTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.37
Consensus pattern (23 bp):
CCTACTGATTTGCACTGTGTGCA
Found at i:37125797 original size:12 final size:13
Alignment explanation
Indices: 37125773--37125801 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
37125763 AAAATTGTAT
37125773 ATAACATATAATA
1 ATAACATATAATA
37125786 ATAACA-ATAATA
1 ATAACATATAATA
37125798 ATAA
1 ATAA
37125802 TTTAAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (13 bp):
ATAACATATAATA
Found at i:37125854 original size:16 final size:15
Alignment explanation
Indices: 37125827--37125867 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
37125817 TTATCAAATA
37125827 AAATAT-TAAATTAC
1 AAATATATAAATTAC
*
37125841 AATATATATAAATTAT
1 AA-ATATATAAATTAC
37125857 AAAT-TATAAAT
1 AAATATATAAAT
37125868 ATATCATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 9 0.38
15 6 0.25
16 9 0.38
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATATATAAATTAC
Found at i:37125859 original size:23 final size:23
Alignment explanation
Indices: 37125824--37125871 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
37125814 TTTTTATCAA
37125824 ATAAAATATTAAATTACAATATAT
1 ATAAAATATTAAATTACAA-ATAT
* *
37125848 ATAAATTA-TAAATTATAAATAT
1 ATAAAATATTAAATTACAAATAT
37125870 AT
1 AT
37125872 CATATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 9 0.41
24 7 0.32
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
ATAAAATATTAAATTACAAATAT
Found at i:37126128 original size:17 final size:18
Alignment explanation
Indices: 37126097--37126137 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
37126087 TAACTTTTTT
*
37126097 TTTTTACATGCAATAAGA
1 TTTTTACATGAAATAAGA
*
37126115 TTTTTACAT-AAATAAGT
1 TTTTTACATGAAATAAGA
37126132 TTTTTA
1 TTTTTA
37126138 AACTATCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (18 bp):
TTTTTACATGAAATAAGA
Found at i:37126479 original size:28 final size:27
Alignment explanation
Indices: 37126430--37126483 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
37126420 TAAAATATAA
37126430 ATTTTAAAAAAAAATTAAAATTTTATC
1 ATTTTAAAAAAAAATTAAAATTTTATC
* *
37126457 ATTTTAAAAAAATATATATAATTTTAT
1 ATTTTAAAAAAAAAT-TAAAATTTTAT
37126484 TTTAATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (27 bp):
ATTTTAAAAAAAAATTAAAATTTTATC
Found at i:37126658 original size:21 final size:21
Alignment explanation
Indices: 37126632--37126671 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
37126622 CTCAAGAACA
*
37126632 ATCTAGAAACCCACAGTAAAT
1 ATCTAGAAACCAACAGTAAAT
*
37126653 ATCTAGCAACCAACAGTAA
1 ATCTAGAAACCAACAGTAA
37126672 TAAAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.25, G:0.10, T:0.17
Consensus pattern (21 bp):
ATCTAGAAACCAACAGTAAAT
Found at i:37127815 original size:255 final size:255
Alignment explanation
Indices: 37127353--37127847 Score: 945
Period size: 255 Copynumber: 1.9 Consensus size: 255
37127343 TTGATCTTGA
37127353 TGGACGTCCACTTAATAAAATATTAATAACACACCCCCTTGGATGTCCATTGGTAGATAATGTGC
1 TGGACGTCCACTTAATAAAATATTAATAACACACCCCCTTGGATGTCCATTGGTAGATAATGTGC
37127418 CTCGTTAAAACCTTTACTAAGGTAAAAATCCCATGGAAAAAAAAATTCCTAATGAAAGAAAAAGA
66 CTCGTTAAAACCTTTACTAAGGTAAAAATCCCATGGAAAAAAAAATTCCTAATGAAAGAAAAAGA
37127483 GTACAAATATCTATAATATGCATAACATGTTGCCTCATTAAAAACATTACCAGAAAAACTCAATG
131 GTACAAATATCTATAATATGCATAACATGTTGCCTCATTAAAAACATTACCAGAAAAACTCAATG
37127548 GGACAAAATCTCGGTTAAGGAAAAAAGAGTACAACGCTTATTACTAATAACACACCCCCT
196 GGACAAAATCTCGGTTAAGGAAAAAAGAGTACAACGCTTATTACTAATAACACACCCCCT
* *
37127608 TGGATGTCCATTTAATAAAATATTAATAACACACCCCCTTGGATGTCCATTGGTAGATAATGTGC
1 TGGACGTCCACTTAATAAAATATTAATAACACACCCCCTTGGATGTCCATTGGTAGATAATGTGC
37127673 CTCGTTAAAACCTTTACTAAGGTAAAAATCCCATGGAAAAAAAAATTCCTAATGAAAGAAAAAGA
66 CTCGTTAAAACCTTTACTAAGGTAAAAATCCCATGGAAAAAAAAATTCCTAATGAAAGAAAAAGA
* * *
37127738 GTACACATATCTATAATATGTATAACATGTTGCCTCATTAAAAACATTACCAGAAAAATTCAATG
131 GTACAAATATCTATAATATGCATAACATGTTGCCTCATTAAAAACATTACCAGAAAAACTCAATG
37127803 GGACAAAATCTCGGTTAAGGAAAAAAGAGTACAACGCTTATTACT
196 GGACAAAATCTCGGTTAAGGAAAAAAGAGTACAACGCTTATTACT
37127848 CCCCCTCAAA
Statistics
Matches: 235, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
255 235 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (255 bp):
TGGACGTCCACTTAATAAAATATTAATAACACACCCCCTTGGATGTCCATTGGTAGATAATGTGC
CTCGTTAAAACCTTTACTAAGGTAAAAATCCCATGGAAAAAAAAATTCCTAATGAAAGAAAAAGA
GTACAAATATCTATAATATGCATAACATGTTGCCTCATTAAAAACATTACCAGAAAAACTCAATG
GGACAAAATCTCGGTTAAGGAAAAAAGAGTACAACGCTTATTACTAATAACACACCCCCT
Found at i:37129226 original size:4 final size:4
Alignment explanation
Indices: 37129217--37129249 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
37129207 TATTTAGACA
37129217 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
37129250 TTTTTATCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:37129784 original size:30 final size:29
Alignment explanation
Indices: 37129742--37129936 Score: 128
Period size: 30 Copynumber: 6.6 Consensus size: 29
37129732 TCATTTTAAC
* * *
37129742 CCCTAAATTTTCCCAAAATT-AAGTTTTGA
1 CCCTAAACTTTCCAAAAATTCAA-ATTTGA
37129771 CCCTAAAACTTTCCAAAAATTCAAATTTGA
1 CCCT-AAACTTTCCAAAAATTCAAATTTGA
* *
37129801 CCCTTAAACCTTCAAAAAATTCAAATTTGA
1 CCC-TAAACTTTCCAAAAATTCAAATTTGA
* ***
37129831 CCCTCGAAC--TCCTAAAAATTTGGATTTGA
1 CCCT-AAACTTTCC-AAAAATTCAAATTTGA
* * * *
37129860 TCCCCAAACTTTCCAAAAATTTAGATTTAA
1 -CCCTAAACTTTCCAAAAATTCAAATTTGA
* * **
37129890 CCCCTAAATTTTTCAAAAATTTGAATTTG-
1 -CCCTAAACTTTCCAAAAATTCAAATTTGA
*
37129919 GCCTCAAACTTTCCAAAA
1 CCCT-AAACTTTCCAAAA
37129937 TTTTATTTTT
Statistics
Matches: 133, Mismatches: 24, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
28 5 0.04
29 32 0.24
30 90 0.68
31 6 0.05
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (29 bp):
CCCTAAACTTTCCAAAAATTCAAATTTGA
Found at i:37135048 original size:6 final size:6
Alignment explanation
Indices: 37135033--37135093 Score: 81
Period size: 6 Copynumber: 10.0 Consensus size: 6
37135023 AAGAGAGGAA
37135033 AAAAAG -AAAAG AAAAAGG AAAAAG AAAAAG AAAAA- ATAAGAAG AAAAAG
1 AAAAAG AAAAAG AAAAA-G AAAAAG AAAAAG AAAAAG A-AA-AAG AAAAAG
37135082 AAAAAG AAAAAG
1 AAAAAG AAAAAG
37135094 GAGAGATCAA
Statistics
Matches: 50, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
5 6 0.12
6 33 0.66
7 10 0.20
8 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:37135054 original size:19 final size:19
Alignment explanation
Indices: 37135032--37135092 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
37135022 AAAGAGAGGA
37135032 AAAAAAG-AAAAGAAAAAG
1 AAAAAAGAAAAAGAAAAAG
*
37135050 GAAAAAGAAAAAGAAAAA-
1 AAAAAAGAAAAAGAAAAAG
*
37135068 ATAAGAAGAAAAAGAAAAAG
1 A-AAAAAGAAAAAGAAAAAG
37135088 AAAAA
1 AAAAA
37135093 GGAGAGATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 6 0.17
19 29 0.81
20 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (19 bp):
AAAAAAGAAAAAGAAAAAG
Found at i:37136040 original size:48 final size:46
Alignment explanation
Indices: 37135975--37136146 Score: 148
Period size: 48 Copynumber: 3.6 Consensus size: 46
37135965 ACGATGAATT
*
37135975 TTATACCGTA-AGAATGTGAAGGAAGAGATTAAAGTCGCAATGACAATC
1 TTATACCTTAGAG-ATGTGAAGGAA-AGATTAAAGTCGCAA-GACAATC
* * * *
37136023 TTATACCTTAGAGATGTGATAGGAAAGGTTGAAGTCGCAACAACAAAC
1 TTATACCTTAGAGATGTGA-AGGAAAGATTAAAGTCGCAA-GACAATC
* * * *
37136071 TTTATACCTTAGTGATGTGAAGGGAAAGATTAAAGCCGCGAGGCGAATC
1 -TTATACCTTAGAGATGTGAA-GGAAAGATTAAAGTCGCAAGAC-AATC
* * *
37136120 TTATACCCTAAAGATGAGAAGAGAAAG
1 TTATACCTTAGAGATGTGAAG-GAAAG
37136147 GTACAATCCA
Statistics
Matches: 100, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
47 1 0.01
48 56 0.56
49 43 0.43
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (46 bp):
TTATACCTTAGAGATGTGAAGGAAAGATTAAAGTCGCAAGACAATC
Found at i:37136080 original size:49 final size:48
Alignment explanation
Indices: 37135974--37136105 Score: 151
Period size: 49 Copynumber: 2.7 Consensus size: 48
37135964 AACGATGAAT
* ** *
37135974 TTTATACCGTA-AGAATGTGAAGGAAGAGATTAAAGTCGCAATGACAATC
1 TTTATACCTTAGAG-ATGTGAAGGAA-AGATTAAAGTCGCAACAACAAAC
* *
37136023 -TTATACCTTAGAGATGTGATAGGAAAGGTTGAAGTCGCAACAACAAAC
1 TTTATACCTTAGAGATGTGA-AGGAAAGATTAAAGTCGCAACAACAAAC
*
37136071 TTTATACCTTAGTGATGTGAAGGGAAAGATTAAAG
1 TTTATACCTTAGAGATGTGAA-GGAAAGATTAAAG
37136106 CCGCGAGGCG
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
48 34 0.49
49 36 0.51
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.26
Consensus pattern (48 bp):
TTTATACCTTAGAGATGTGAAGGAAAGATTAAAGTCGCAACAACAAAC
Found at i:37136565 original size:123 final size:123
Alignment explanation
Indices: 37136396--37136955 Score: 833
Period size: 123 Copynumber: 4.6 Consensus size: 123
37136386 TACAGTAGGT
* * **
37136396 TGGATAAAAACAAATGAAGCGGTCATCTTCCTGATGAGATATAGAGAAGTGGACCAAATCAATAA
1 TGGATCAAAAC-AATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCAACGA
* *
37136461 AG-AAGAGCTCAATGTGAGTGAAACGTCAAACCCCATCTTCCTGATGAGATACAGAGAAG
65 AGCGA-AGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAG
* *
37136520 T-GAGTCAAAACAATGAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAACGA
1 TGGA-TCAAAACAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCAACGA
37136584 AGCGAAGCTCAAT-TAGAGTGAAACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAG
65 AGCGAAGCTCAATGT-GAGTGAAACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAG
* ** *
37136643 TGGATCAAAACAAT-AAGCAGTCATCTTAATGATGAGATATAGAGAAGTGGACCAAATCAACGAA
1 TGGATCAAAACAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCAACGAA
* * *
37136707 GCGAAGCTCAATGAGAGTGAAACTTCAAACCCCATCTTCCTAATGAGATACAGAAAAG
66 GCGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAG
* * * *
37136765 TGGATCAAAGCAATGAAGCGGTCATCTTCTTGACGAGATACAGAGAAGTGGACCAAATCAGCGAA
1 TGGATCAAAACAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCAACGAA
* *
37136830 GTGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCCT-ATTGAGATATAGAGAAG
66 GCGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCCTGA-TGAGATACAGAGAAG
* *
37136888 TGGATCAAAATAATGAAGCAGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCAACGAA
1 TGGATCAAAACAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCAACGAA
37136953 GCG
66 GCG
37136956 GAGCGACCAA
Statistics
Matches: 394, Mismatches: 35, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
122 113 0.29
123 271 0.69
124 10 0.03
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.20
Consensus pattern (123 bp):
TGGATCAAAACAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCAACGAA
GCGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAG
Found at i:37136850 original size:245 final size:247
Alignment explanation
Indices: 37136396--37136959 Score: 854
Period size: 245 Copynumber: 2.3 Consensus size: 247
37136386 TACAGTAGGT
* * **
37136396 TGGATAAAAACAAATGAAGCGGTCATCTTCCTGATGAGATATAGAGAAGTGGACCAAATCAATAA
1 TGGATCAAAAC-AATGAAGCAGTCATCTTCCTGATGAGATATAGAGAAGTGGACCAAATCAACGA
* * * *
37136461 AG-AAGAGCTCAATGTGAGTGAAACGTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGAGT
65 AGCGAGAGCTCAATGAGAGTGAAACGTCAAACCCCATCTTCCTAATGAGATACAGAAAAGTGAGT
* *
37136525 CAAAACAATGAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAACGAAGCGAA
130 CAAAACAATGAAGCGGTCATCTTCCTGACGAGATACAGAGAAGTAGACCAAATCAACGAAGCGAA
37136590 GCTCAATTAGAGTGAAACTTCAAACCCCATCTTCCTGA-TGAGATACAGAGAAG
195 GCTCAATTAGAGTGAAACTTCAAACCCCATCTTCCT-ATTGAGATACAGAGAAG
**
37136643 TGGATCAAAACAAT-AAGCAGTCATCTTAATGATGAGATATAGAGAAGTGGACCAAATCAACGAA
1 TGGATCAAAACAATGAAGCAGTCATCTTCCTGATGAGATATAGAGAAGTGGACCAAATCAACGAA
*
37136707 GCGA-AGCTCAATGAGAGTGAAACTTCAAACCCCATCTTCCTAATGAGATACAGAAAAGTG-GAT
66 GCGAGAGCTCAATGAGAGTGAAACGTCAAACCCCATCTTCCTAATGAGATACAGAAAAGTGAG-T
* * * * *
37136770 CAAAGCAATGAAGCGGTCATCTTCTTGACGAGATACAGAGAAGTGGACCAAATCAGCGAAGTGAA
130 CAAAACAATGAAGCGGTCATCTTCCTGACGAGATACAGAGAAGTAGACCAAATCAACGAAGCGAA
*
37136835 GCTCAATGT-GAGTGAAACTTCAAACCCCATCTTCCTATTGAGATATAGAGAAG
195 GCTCAAT-TAGAGTGAAACTTCAAACCCCATCTTCCTATTGAGATACAGAGAAG
* *
37136888 TGGATCAAAATAATGAAGCAGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCAACGAA
1 TGGATCAAAACAATGAAGCAGTCATCTTCCTGATGAGATATAGAGAAGTGGACCAAATCAACGAA
37136953 GCG-GAGC
66 GCGAGAGC
37136960 GACCAATAAA
Statistics
Matches: 288, Mismatches: 23, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
244 2 0.01
245 218 0.76
246 58 0.20
247 10 0.03
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.20
Consensus pattern (247 bp):
TGGATCAAAACAATGAAGCAGTCATCTTCCTGATGAGATATAGAGAAGTGGACCAAATCAACGAA
GCGAGAGCTCAATGAGAGTGAAACGTCAAACCCCATCTTCCTAATGAGATACAGAAAAGTGAGTC
AAAACAATGAAGCGGTCATCTTCCTGACGAGATACAGAGAAGTAGACCAAATCAACGAAGCGAAG
CTCAATTAGAGTGAAACTTCAAACCCCATCTTCCTATTGAGATACAGAGAAG
Found at i:37136954 original size:48 final size:48
Alignment explanation
Indices: 37136862--37136954 Score: 127
Period size: 48 Copynumber: 1.9 Consensus size: 48
37136852 CTTCAAACCC
* *
37136862 CATCTTCCTATTGAGATATAGAGAAGTGGATCAAAATAATGAAGCAGT
1 CATCTTCCTATTGAGATACAGAGAAGTGGATCAAAATAACGAAGCAGT
*
37136910 CATCTTCCTGA-TGAGATACAGAGAAGTGGA-CCAAATCAACGAAGC
1 CATCTTCCT-ATTGAGATACAGAGAAGTGGATCAAAAT-AACGAAGC
37136955 GGAGCGACCA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
47 5 0.12
48 34 0.85
49 1 0.03
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.23
Consensus pattern (48 bp):
CATCTTCCTATTGAGATACAGAGAAGTGGATCAAAATAACGAAGCAGT
Found at i:37137556 original size:18 final size:18
Alignment explanation
Indices: 37137533--37137568 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
37137523 ATATTATTTA
37137533 TTTATTTATTTAT-TTTCT
1 TTTATTT-TTTATATTTCT
37137551 TTTATTTTTTATATTTCT
1 TTTATTTTTTATATTTCT
37137569 ATACATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTATTTTTTATATTTCT
Found at i:37138369 original size:20 final size:22
Alignment explanation
Indices: 37138341--37138386 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
37138331 ATCATGACAT
*
37138341 TTAAGGGC-TAAAA-TGATTAA
1 TTAAAGGCTTAAAAGTGATTAA
37138361 TTAAAGGCTTAAAAGTGATTAA
1 TTAAAGGCTTAAAAGTGATTAA
37138383 TTAA
1 TTAA
37138387 GTTAATGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.30
21 5 0.22
22 11 0.48
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (22 bp):
TTAAAGGCTTAAAAGTGATTAA
Found at i:37138528 original size:44 final size:44
Alignment explanation
Indices: 37138479--37138567 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
37138469 CTTATTTTCA
*
37138479 TCTCCTTCATTCGGCCAAAGAAAGGAAAACCTAGGGTTCCATTG
1 TCTCCTTCATTCGGCCAAAGAAAGGAAAACCAAGGGTTCCATTG
*
37138523 TCTCCTTCATTCGGCCAAAGAAAGGAAAATCAAGGGTTCCATTG
1 TCTCCTTCATTCGGCCAAAGAAAGGAAAACCAAGGGTTCCATTG
37138567 T
1 T
37138568 TGAGATTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (44 bp):
TCTCCTTCATTCGGCCAAAGAAAGGAAAACCAAGGGTTCCATTG
Found at i:37140880 original size:30 final size:30
Alignment explanation
Indices: 37140846--37141038 Score: 100
Period size: 29 Copynumber: 6.6 Consensus size: 30
37140836 TTTTATTTAG
*
37140846 AAATTTCA-TTTTGACC-CTTAAACTTACCAA
1 AAATTTCAGATTTGACCTC-TAAACTT-CCAA
*
37140876 AAA-TTCAGATTTGACCTCTGAACTTCCAA
1 AAATTTCAGATTTGACCTCTAAACTTCCAA
* * * * * *
37140905 AAA-TTAAGTTTTAACCCCCAAACTTTCTAA
1 AAATTTCAGATTTGACCTCTAAAC-TTCCAA
*
37140935 AAATTT-AGATTTGACCCCTAAACTTTCC-A
1 AAATTTCAGATTTGACCTCTAAAC-TTCCAA
* *
37140964 ATATTT-AGATTTGA-CTCTCGAACTTTCCAA
1 AAATTTCAGATTTGACCTCT-AAAC-TTCCAA
* * * * *
37140994 AAATTT-AAATTTGGCC-CCAAACTTTCTA
1 AAATTTCAGATTTGACCTCTAAACTTCCAA
**
37141022 AAATTTCATTTTTGACC
1 AAATTTCAGATTTGACC
37141039 CCATTTTTCC
Statistics
Matches: 129, Mismatches: 26, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
28 13 0.10
29 57 0.44
30 55 0.43
31 4 0.03
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (30 bp):
AAATTTCAGATTTGACCTCTAAACTTCCAA
Found at i:37140905 original size:29 final size:30
Alignment explanation
Indices: 37140855--37141024 Score: 159
Period size: 29 Copynumber: 5.8 Consensus size: 30
37140845 GAAATTTCAT
* * *
37140855 TTTGACCCTTAAACTTACCAAAAATTCAGA
1 TTTGACCCCTAAACTTTCCAAAAATTTAGA
* * * *
37140885 TTTGACCTCTGAAC-TTCCAAAAATTAAGT
1 TTTGACCCCTAAACTTTCCAAAAATTTAGA
* * *
37140914 TTTAACCCCCAAACTTTCTAAAAATTTAGA
1 TTTGACCCCTAAACTTTCCAAAAATTTAGA
*
37140944 TTTGACCCCTAAACTTTCC-AATATTTAGA
1 TTTGACCCCTAAACTTTCCAAAAATTTAGA
* * *
37140973 TTTGA-CTCTCGAACTTTCCAAAAATTTAAA
1 TTTGACCCCT-AAACTTTCCAAAAATTTAGA
* *
37141003 TTTGGCCCC-AAACTTTCTAAAA
1 TTTGACCCCTAAACTTTCCAAAA
37141025 TTTCATTTTT
Statistics
Matches: 111, Mismatches: 25, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
28 3 0.03
29 55 0.50
30 51 0.46
31 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (30 bp):
TTTGACCCCTAAACTTTCCAAAAATTTAGA
Found at i:37141037 original size:59 final size:59
Alignment explanation
Indices: 37140866--37141027 Score: 157
Period size: 59 Copynumber: 2.8 Consensus size: 59
37140856 TTGACCCTTA
* * * * * * * * * * *
37140866 AACTTACCAAAAATTCAGATTTGACCTCTGAAC-TTCCAAAAATTAAGTTTTAACCCCCA
1 AACTTTCCAAAAATTTAAATTTGACCCCTAAACTTTCC-AAAATTTAGATTTGACTCTCG
* * *
37140925 AACTTTCTAAAAATTTAGATTTGACCCCTAAACTTTCCAATATTTAGATTTGACTCTCG
1 AACTTTCCAAAAATTTAAATTTGACCCCTAAACTTTCCAAAATTTAGATTTGACTCTCG
* *
37140984 AACTTTCCAAAAATTTAAATTTGGCCCC-AAACTTTCTAAAATTT
1 AACTTTCCAAAAATTTAAATTTGACCCCTAAACTTTCCAAAATTT
37141028 CATTTTTGAC
Statistics
Matches: 85, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
58 14 0.16
59 67 0.79
60 4 0.05
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.35
Consensus pattern (59 bp):
AACTTTCCAAAAATTTAAATTTGACCCCTAAACTTTCCAAAATTTAGATTTGACTCTCG
Found at i:37145247 original size:3 final size:3
Alignment explanation
Indices: 37145232--37145266 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
37145222 AAAATTGTAT
*
37145232 ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
37145267 TTAATAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:37145627 original size:40 final size:38
Alignment explanation
Indices: 37145573--37145722 Score: 130
Period size: 41 Copynumber: 3.9 Consensus size: 38
37145563 AACTTTTTTT
*
37145573 AAAA-AAATTAGGAT-ATTTTTCATTTTAAAAGTAATTTA
1 AAAATAAATTGGGATAATTTTT-ATTTTAAAA-TAATTTA
37145611 AAAATTAAATTGGGATAAATTTATT-TTTTAAAATAATTT-
1 AAAA-TAAATTGGGAT-AATTT-TTATTTTAAAATAATTTA
* * * *
37145650 AAAA-AAATTTGGATAATATTTGTTTTAAATTTAATTTTAA
1 AAAATAAATTGGGATAATTTTTATTTTAAA-ATAA-TTT-A
* *
37145690 AAAATAAATTGAGATAATTTTCATTTTAAAATA
1 AAAATAAATTGGGATAATTTTTATTTTAAAATA
37145723 TTCTTTTGGA
Statistics
Matches: 91, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
35 2 0.02
36 11 0.12
37 12 0.13
38 7 0.08
39 4 0.04
40 21 0.23
41 28 0.31
42 4 0.04
43 2 0.02
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.44
Consensus pattern (38 bp):
AAAATAAATTGGGATAATTTTTATTTTAAAATAATTTA
Found at i:37145657 original size:77 final size:79
Alignment explanation
Indices: 37145570--37145716 Score: 192
Period size: 78 Copynumber: 1.9 Consensus size: 79
37145560 CATAACTTTT
* * *
37145570 TTTAAAAAAATTAGGAT-ATTTTTCATTTTAAAAGTAA-TTTAAAAATTAAATTGGGATAAATTT
1 TTTAAAAAAATTAGGATAATATTT-ATTTTAAAAGTAATTTTAAAAAATAAATTGAGATAAATTT
37145633 -ATTTTTTAAAATAA
65 CATTTTTTAAAATAA
* * ** *
37145647 TTTAAAAAAATTTGGATAATATTTGTTTTAAATTTAATTTTAAAAAATAAATTGAGATAATTTTC
1 TTTAAAAAAATTAGGATAATATTTATTTTAAAAGTAATTTTAAAAAATAAATTGAGATAAATTTC
37145712 ATTTT
66 ATTTT
37145717 AAAATATTCT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
77 26 0.44
78 28 0.47
79 5 0.08
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.46
Consensus pattern (79 bp):
TTTAAAAAAATTAGGATAATATTTATTTTAAAAGTAATTTTAAAAAATAAATTGAGATAAATTTC
ATTTTTTAAAATAA
Found at i:37145685 original size:37 final size:36
Alignment explanation
Indices: 37145570--37145694 Score: 110
Period size: 37 Copynumber: 3.3 Consensus size: 36
37145560 CATAACTTTT
*
37145570 TTTAAAAAAATTAGGAT-ATTTTTCATTTTAAAAGTAA
1 TTTAAAAAAATTAGGATAATATTT-ATTTTAAAA-TAA
*
37145607 TTTAAAAATTAAATTGGGATAA-ATTTATTTTTTAAAATAA
1 TTT-AAAA--AAATTAGGATAATATTTA--TTTTAAAATAA
* * *
37145647 TTTAAAAAAATTTGGATAATATTTGTTTTAAATTTAA
1 TTTAAAAAAATTAGGATAATATTTATTTTAAA-ATAA
*
37145684 TTTTAAAAAAT
1 TTTAAAAAAAT
37145695 AAATTGAGAT
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
36 7 0.09
37 27 0.36
38 8 0.11
39 5 0.07
40 18 0.24
41 9 0.12
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.46
Consensus pattern (36 bp):
TTTAAAAAAATTAGGATAATATTTATTTTAAAATAA
Found at i:37145717 original size:77 final size:77
Alignment explanation
Indices: 37145570--37145722 Score: 186
Period size: 77 Copynumber: 2.0 Consensus size: 77
37145560 CATAACTTTT
* * *
37145570 TTTAAAAAAATTAGGATATTTTTCATTTTAAAAGTAATTTAAAAATTAAATTGGGATAAATTTAT
1 TTTAAAAAAATTAGGATATATTTCATTTTAAAAGTAATTTAAAAAATAAATTGAGATAAATTTAT
*
37145635 TTTTTAAAATAA
66 ATTTTAAAATAA
* * **
37145647 TTTAAAAAAATTTGGATAATATTT-GTTTTAAATTTAATTTTAAAAAATAAATTGAGAT-AATTT
1 TTTAAAAAAATTAGGAT-ATATTTCATTTTAAAAGTAA-TTTAAAAAATAAATTGAGATAAATTT
37145710 -TCATTTTAAAATA
64 AT-ATTTTAAAATA
37145723 TTCTTTTGGA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
76 1 0.02
77 41 0.63
78 23 0.35
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.45
Consensus pattern (77 bp):
TTTAAAAAAATTAGGATATATTTCATTTTAAAAGTAATTTAAAAAATAAATTGAGATAAATTTAT
ATTTTAAAATAA
Found at i:37145864 original size:26 final size:25
Alignment explanation
Indices: 37145792--37145856 Score: 69
Period size: 28 Copynumber: 2.5 Consensus size: 25
37145782 TTAAAAATAA
37145792 TTTTTAAAAA-AATTAGATAATTTT
1 TTTTTAAAAATAATTAGATAATTTT
**
37145816 TGTTTTAAAAATAAAATGGGATAACTTTT
1 T-TTTTAAAAAT--AATTAGATAA-TTTT
37145845 TTTTTAAAAATA
1 TTTTTAAAAATA
37145857 GTTTGATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
24 1 0.03
25 9 0.26
26 1 0.03
28 18 0.53
29 5 0.15
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.46
Consensus pattern (25 bp):
TTTTTAAAAATAATTAGATAATTTT
Found at i:37155408 original size:41 final size:41
Alignment explanation
Indices: 37155311--37155415 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 41
37155301 GAGAAATTCG
* *
37155311 ATATTAAAGGAATACTCATATCTCGGGACGAGAATAAGATC
1 ATATTAAAGGAAGACTCATGTCTCGGGACGAGAATAAGATC
* * * *
37155352 ATACTAAATGAAGACTCATGTCTCGGGATGAGAATGAA-ATT
1 ATATTAAAGGAAGACTCATGTCTCGGGACGAGAAT-AAGATC
*
37155393 ATATTAAAGGGAGACTCATGTCT
1 ATATTAAAGGAAGACTCATGTCT
37155416 TCAAACTGAG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 52 0.96
42 2 0.04
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (41 bp):
ATATTAAAGGAAGACTCATGTCTCGGGACGAGAATAAGATC
Found at i:37155502 original size:40 final size:40
Alignment explanation
Indices: 37155448--37155540 Score: 150
Period size: 40 Copynumber: 2.3 Consensus size: 40
37155438 TTTTTTTTAA
* *
37155448 AAAAAGAAGACTTATGACTCGGTAGAGCATAAGAGTGAGT
1 AAAAGGAAGACTTATGACTCGGTAAAGCATAAGAGTGAGT
* *
37155488 AAAAGGAAGACTTATGACTCGGTAAAGTATAAGAGTGATT
1 AAAAGGAAGACTTATGACTCGGTAAAGCATAAGAGTGAGT
37155528 AAAAGGAAGACTT
1 AAAAGGAAGACTT
37155541 GTGAACTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.22
Consensus pattern (40 bp):
AAAAGGAAGACTTATGACTCGGTAAAGCATAAGAGTGAGT
Found at i:37162421 original size:41 final size:41
Alignment explanation
Indices: 37162234--37162420 Score: 277
Period size: 41 Copynumber: 4.6 Consensus size: 41
37162224 GAGAAATTCG
*
37162234 ATATTAAAGGAAGACTCATATCTCGGGACGAGAATAAGATC
1 ATATTAAAGGAAGACTCATGTCTCGGGACGAGAATAAGATC
* * *
37162275 ATACTAAATGAAGACTCATGTCTCGGGACGAGAATGAGATC
1 ATATTAAAGGAAGACTCATGTCTCGGGACGAGAATAAGATC
37162316 ATATTAAAGGAAGACTCATGTCTCGGGACGAGAATAAGATC
1 ATATTAAAGGAAGACTCATGTCTCGGGACGAGAATAAGATC
* * * *
37162357 ATATTAAAGGAAGACTCGTGTCTTGGGATGAGAATGAA-ATT
1 ATATTAAAGGAAGACTCATGTCTCGGGACGAGAAT-AAGATC
*
37162398 ATATTAAAGGGAGACTCATGTCT
1 ATATTAAAGGAAGACTCATGTCT
37162421 TCAAACTGAG
Statistics
Matches: 132, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
41 130 0.98
42 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (41 bp):
ATATTAAAGGAAGACTCATGTCTCGGGACGAGAATAAGATC
Found at i:37162507 original size:40 final size:40
Alignment explanation
Indices: 37162453--37162545 Score: 132
Period size: 40 Copynumber: 2.3 Consensus size: 40
37162443 TTGTTTTAAA
* *
37162453 AAAAAGAAGACTTATGACTCGGTAGAGAATAAGAGTAAGT
1 AAAAGGAAGACTTATGACTCGGTAAAGAATAAGAGTAAGT
* * * *
37162493 AAAAGGACGACTTATGACTCGGTAAAGTATAAGAGTGATT
1 AAAAGGAAGACTTATGACTCGGTAAAGAATAAGAGTAAGT
37162533 AAAAGGAAGACTT
1 AAAAGGAAGACTT
37162546 GTGAACTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.45, C:0.09, G:0.25, T:0.22
Consensus pattern (40 bp):
AAAAGGAAGACTTATGACTCGGTAAAGAATAAGAGTAAGT
Found at i:37162979 original size:21 final size:21
Alignment explanation
Indices: 37162955--37162995 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37162945 TGTGTTATAC
*
37162955 ATTACACTTATATCGGTAGAT
1 ATTACACTTATATCCGTAGAT
*
37162976 ATTACACTTGTATCCGTAGA
1 ATTACACTTATATCCGTAGA
37162996 ACTATCACTA
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:0.32, C:0.17, G:0.15, T:0.37
Consensus pattern (21 bp):
ATTACACTTATATCCGTAGAT
Found at i:37164936 original size:15 final size:15
Alignment explanation
Indices: 37164916--37164945 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37164906 CTAATGTTAC
37164916 AAGAGCCTATAGGGT
1 AAGAGCCTATAGGGT
37164931 AAGAGCCTATAGGGT
1 AAGAGCCTATAGGGT
37164946 CACACCTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (15 bp):
AAGAGCCTATAGGGT
Found at i:37165720 original size:21 final size:21
Alignment explanation
Indices: 37165694--37165733 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
37165684 CTCAAGAACA
*
37165694 ATCTAGAAACCCACAGTAAAT
1 ATCTAGAAACCAACAGTAAAT
*
37165715 ATCTAGCAACCAACAGTAA
1 ATCTAGAAACCAACAGTAA
37165734 TAAAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.25, G:0.10, T:0.17
Consensus pattern (21 bp):
ATCTAGAAACCAACAGTAAAT
Found at i:37170195 original size:30 final size:30
Alignment explanation
Indices: 37170145--37170203 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
37170135 TCCTCTCCTT
*
37170145 AATCGCCACAGAGCCCTTCACCACAACCTC
1 AATCACCACAGAGCCCTTCACCACAACCTC
* *
37170175 AATCACCATAGAGTCCTTCACCACAACCT
1 AATCACCACAGAGCCCTTCACCACAACCT
37170204 TATTCATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.42, G:0.08, T:0.17
Consensus pattern (30 bp):
AATCACCACAGAGCCCTTCACCACAACCTC
Found at i:37183354 original size:129 final size:129
Alignment explanation
Indices: 37183120--37183361 Score: 360
Period size: 129 Copynumber: 1.9 Consensus size: 129
37183110 TGTAGAGTGC
* * **
37183120 TTTAATGGAGGGAAAACTTAAGGATTCAAGCATTCATTGGTCAGATTTAATGGACGGTATACTAA
1 TTTAATGGAGGGAAAACTTAAGGATGCAAGCATTCATTGGGCAGATTTAATGGACGAAATACTAA
* *
37183185 AAGGTTCAAATTCATGCATCTTGAGTGACCATTCGATTAGCCAAAGTCAGCATTCATGGATGAA
66 AAGGTTCAAATTCATGCATCTTAAATGACCATTCGATTAGCCAAAGTCAGCATTCATGGATGAA
* * * *
37183249 TTTAATGGAGGGAAGACTTAAGGATGCAATCATTCATTGGGCATATTTAATGGATGAAATACTAA
1 TTTAATGGAGGGAAAACTTAAGGATGCAAGCATTCATTGGGCAGATTTAATGGACGAAATACTAA
* *
37183314 AAGGTTCACATTCATGCATCTTAAATGACCATTC-AGTTAGCTAAAGTC
66 AAGGTTCAAATTCATGCATCTTAAATGACCATTCGA-TTAGCCAAAGTC
37183362 CCTTTAATTT
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
128 1 0.01
129 99 0.99
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (129 bp):
TTTAATGGAGGGAAAACTTAAGGATGCAAGCATTCATTGGGCAGATTTAATGGACGAAATACTAA
AAGGTTCAAATTCATGCATCTTAAATGACCATTCGATTAGCCAAAGTCAGCATTCATGGATGAA
Found at i:37184168 original size:14 final size:15
Alignment explanation
Indices: 37184145--37184182 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
37184135 TACAAAAAAC
37184145 AAAAAAAAATAG-TG
1 AAAAAAAAATAGTTG
* *
37184159 AAAAATAAATCGTTG
1 AAAAAAAAATAGTTG
37184174 AAAAAAAAA
1 AAAAAAAAA
37184183 AGAAAAGGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.71, C:0.03, G:0.11, T:0.16
Consensus pattern (15 bp):
AAAAAAAAATAGTTG
Found at i:37187751 original size:26 final size:26
Alignment explanation
Indices: 37187718--37187832 Score: 133
Period size: 26 Copynumber: 4.5 Consensus size: 26
37187708 CTGAAGAAAA
* *
37187718 ATACTGAACTAGCTCATAAGAGCAAT
1 ATACTGAACTAGCTCGTAAGAGCGAT
**
37187744 ATACTGAACTAGCTCGTTGGAGCGAT
1 ATACTGAACTAGCTCGTAAGAGCGAT
* * * *
37187770 ATATTGAACTGGCTTGTAAGAGTGAT
1 ATACTGAACTAGCTCGTAAGAGCGAT
*
37187796 ATACTGAACTGGCTCGTAAGAGCGAT
1 ATACTGAACTAGCTCGTAAGAGCGAT
*
37187822 ATCCTG-ACTAG
1 ATACTGAACTAG
37187833 GCTCATATGA
Statistics
Matches: 74, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
25 4 0.05
26 70 0.95
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (26 bp):
ATACTGAACTAGCTCGTAAGAGCGAT
Found at i:37217483 original size:5 final size:6
Alignment explanation
Indices: 37217466--37217490 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
37217456 TAAAAAATAG
37217466 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
37217491 CTTTCAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:37218720 original size:12 final size:13
Alignment explanation
Indices: 37218696--37218727 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
37218686 ATTGCAATTA
37218696 TATTT-TTATTTT
1 TATTTGTTATTTT
37218708 TATTTGTTATTTT
1 TATTTGTTATTTT
37218721 T-TTTGTT
1 TATTTGTT
37218728 TATATGATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.81
Consensus pattern (13 bp):
TATTTGTTATTTT
Found at i:37220696 original size:9 final size:9
Alignment explanation
Indices: 37220684--37220731 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
37220674 AAAAAAAGAG
37220684 AGAAAAAAA
1 AGAAAAAAA
*
37220693 AGAAAGGAAA
1 AGAAA-AAAA
*
37220703 GGAAAAAAA
1 AGAAAAAAA
*
37220712 AGGAAAAAA
1 AGAAAAAAA
*
37220721 AGAAGAAAA
1 AGAAAAAAA
37220730 AG
1 AG
37220732 GAAAGGGCGA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
9 24 0.77
10 7 0.23
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:37220707 original size:10 final size:10
Alignment explanation
Indices: 37220673--37220735 Score: 58
Period size: 10 Copynumber: 6.3 Consensus size: 10
37220663 TATTTCACCC
37220673 AAAAAAAAGAG
1 AAAAAAAAG-G
*
37220684 AGAAAAAAAAG
1 A-AAAAAAAGG
**
37220695 AAAGGAAAGG
1 AAAAAAAAGG
37220705 AAAAAAAAGG
1 AAAAAAAAGG
37220715 -AAAAAAA-G
1 AAAAAAAAGG
*
37220723 AAGAAAAAGG
1 AAAAAAAAGG
37220733 AAA
1 AAA
37220736 GGGCGAGGTG
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
8 1 0.02
9 13 0.32
10 17 0.41
11 3 0.07
12 7 0.17
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGG
Found at i:37220732 original size:33 final size:32
Alignment explanation
Indices: 37220673--37220737 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 32
37220663 TATTTCACCC
37220673 AAAAAAAAGAGAGAAAAAAAAGAAAGGAAAGG
1 AAAAAAAAGAGAGAAAAAAAAGAAAGGAAAGG
37220705 AAAAAAAAG-GA-AAAAAAGAAGAAAAAGGAAAGG
1 AAAAAAAAGAGAGAAAAAA-AAG--AAAGGAAAGG
37220738 GCGAGGTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 6 0.20
31 5 0.17
32 9 0.30
33 10 0.33
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (32 bp):
AAAAAAAAGAGAGAAAAAAAAGAAAGGAAAGG
Found at i:37221834 original size:98 final size:98
Alignment explanation
Indices: 37221659--37223260 Score: 1573
Period size: 98 Copynumber: 16.4 Consensus size: 98
37221649 CAGGTTTGAA
* * * * * *
37221659 GGGAAAGATTGAAGTCGCAACGGCAAATCTAATACCCTAGAGATATGGAGGGAAAGGTTAAAGCC
1 GGGAAAGATTGAAGCCGCAACGACGAATCTTATACCATAGAGATATGGAGGGAAAGGTTGAAGCC
* *
37221724 GCAACGGCAAACCTTGTACCTTAGAGATGTGAA
66 GCAACGGTAAACCTTGTACCTTAGAGATGTGAT
* *** * * **
37221757 GGGAAAGATTAAAGCCGCAACGGTAAATCTAATACTATAGAGATATGGAGGGAAAGGTTGAAGTT
1 GGGAAAGATTGAAGCCGCAACGACGAATCTTATACCATAGAGATATGGAGGGAAAGGTTGAAGCC
* * * **
37221822 ACAATGATAAACCTTGTACCTTAGAGACATGAT
66 GCAACGGTAAACCTTGTACCTTAGAGATGTGAT
* * * * * * *
37221855 GAGAAAGATTGAAGCCGCAACAATGAATCTTGTACCATGGAGATATGGAGGGAAAGGTCGAAGCT
1 GGGAAAGATTGAAGCCGCAACGACGAATCTTATACCATAGAGATATGGAGGGAAAGGTTGAAGCC
* *
37221920 GCAATGGCAAACCTTGTACCTTAGAGATGTGAT
66 GCAACGGTAAACCTTGTACCTTAGAGATGTGAT
* * ** * * *
37221953 GGGAAAGATTAAAACCGCAACGAAAAATCTGATACCCTAGAGATATGGAGGGAAAGGTTAAAGCC
1 GGGAAAGATTGAAGCCGCAACGACGAATCTTATACCATAGAGATATGGAGGGAAAGGTTGAAGCC
* * * * * *
37222018 GCAATGGAAAACCTTGTCCCTTAGAGACGTTAA
66 GCAACGGTAAACCTTGTACCTTAGAGATGTGAT
* * * * * *
37222051 AGGAAAGATTGAAGCTGCAACGACAAATCTAATACCCTAGAGATATGGAGGAAAAGGTTGAAGCC
1 GGGAAAGATTGAAGCCGCAACGACGAATCTTATACCATAGAGATATGGAGGGAAAGGTTGAAGCC
*** *
37222116 GCAATTATAAACCTTGTACCTTAGAGACGTGAT
66 GCAACGGTAAACCTTGTACCTTAGAGATGTGAT
* * * * * *
37222149 GGAAAAGATTGAAACCGTAA-TAGTGAATCTTGTACCATAGAGATAT-GATGGGAAAGGTTGAAG
1 GGGAAAGATTGAAGCCGCAACGA-CGAATCTTATACCATAGAGATATGGA-GGGAAAGGTTGAAG
* * *
37222212 CCGCAATGGTGAACCTTGTACCTT-GAGATATGAT
64 CCGCAACGGTAAACCTTGTACCTTAGAGATGTGAT
* * * * * *
37222246 GAGAAGGATTGAAGCCGCAATGGCGAATCTTATACCATGGAGATATGGAGGGAAGGGTTGAAGCC
1 GGGAAAGATTGAAGCCGCAACGACGAATCTTATACCATAGAGATATGGAGGGAAAGGTTGAAGCC
* **
37222311 GCAATGGCGAACCTTGTACCTTAGAGATGTGAT
66 GCAACGGTAAACCTTGTACCTTAGAGATGTGAT
* * * * *
37222344 GGGAAAGATTGAAGCCGTAACGACGAATATTGTACCATGGAGATATGGAGGGGAAGGTTGAAGCC
1 GGGAAAGATTGAAGCCGCAACGACGAATCTTATACCATAGAGATATGGAGGGAAAGGTTGAAGCC
* *
37222409 ACAAC-GTCGAACCTTGTACCTTAGAGATGTGAT
66 GCAACGGT-AAACCTTGTACCTTAGAGATGTGAT
* * * * * *
37222442 GGAAAAGATTGAAGCCGCAAC-AGTGAATCTTGTACCATGGGGATATGGAGGGAAAGGTTAAAGC
1 GGGAAAGATTGAAGCCGCAACGA-CGAATCTTATACCATAGAGATATGGAGGGAAAGGTTGAAGC
* * * *
37222506 TGTAACGGTGAAA-CTCGTACCTTAGAGACGTGAT
65 CGCAACGGT-AAACCTTGTACCTTAGAGATGTGAT
* * * * *
37222540 AGGAAAGATTGAAGCCGCAATGGA-GAATCTTATACCCTAAAGACATGGAGGGAAAGGTTGAAGC
1 GGGAAAGATTGAAGCCGCAA-CGACGAATCTTATACCATAGAGATATGGAGGGAAAGGTTGAAGC
*** *
37222604 CGCAACAACAAACCTTGTACCTTAGAGATGTGAA
65 CGCAACGGTAAACCTTGTACCTTAGAGATGTGAT
* * * * * * * * **
37222638 AGGAAAGATTGTAGTCACAACGACAAATCTAATACCCTAGAGATATGAAGGGAAAGGTTGAAGAT
1 GGGAAAGATTGAAGCCGCAACGACGAATCTTATACCATAGAGATATGGAGGGAAAGGTTGAAGCC
* * *
37222703 GTAACGGTAAACCTTTTACCTTAGAGACGTGAT
66 GCAACGGTAAACCTTGTACCTTAGAGATGTGAT
* ** * * *
37222736 GGGAAAGATTGAAGCCACAACGGTGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGAAGCT
1 GGGAAAGATTGAAGCCGCAACGACGAATCTTATACCATAGAGATATGGAGGGAAAGGTTGAAGCC
* * * * * **
37222801 GCAATGATGAACTTTTTACCTTAGAGACATGAT
66 GCAACGGTAAACCTTGTACCTTAGAGATGTGAT
* * * * * *
37222834 GGGAAAGATTGAAGCTGCAACAATGAATCTTATACCAT-GAAGATATGAAGGGAAATGTTGAAGG
1 GGGAAAGATTGAAGCCGCAACGACGAATCTTATACCATAG-AGATATGGAGGGAAAGGTTGAAGC
* * **
37222898 CACAATGGCGAACCTTGTACCTTAGAGATGTGAT
65 CGCAACGGTAAACCTTGTACCTTAGAGATGTGAT
* * * * * * *
37222932 GGGAAAAATTGAAGTCACAACGACGAATCTTGTACCATGGGGATATGGAGGGAAAAGTTGAAGCC
1 GGGAAAGATTGAAGCCGCAACGACGAATCTTATACCATAGAGATATGGAGGGAAAGGTTGAAGCC
* * *
37222997 ACAACGGTGAACCTTGTATCTTAGAGATGTGAT
66 GCAACGGTAAACCTTGTACCTTAGAGATGTGAT
* * * * *
37223030 GGGAAAGATTAAAGCCGCAACGGCGAATCTTATTCTATGGAGATATGGAGGGAAAGGTTGAAGCC
1 GGGAAAGATTGAAGCCGCAACGACGAATCTTATACCATAGAGATATGGAGGGAAAGGTTGAAGCC
* * * * * *
37223095 GTAACGGTGAACCTCGTACCTTAAAGACGAGAT
66 GCAACGGTAAACCTTGTACCTTAGAGATGTGAT
* * * * *
37223128 GGGAAAGATTGAAGCCACAACGACGAATCTTATACCCTAAAGATGTGAAGGGAAAGGTTGAAGCC
1 GGGAAAGATTGAAGCCGCAACGACGAATCTTATACCATAGAGATATGGAGGGAAAGGTTGAAGCC
** * *
37223193 GCAACGGCGAACCTTATACCTTAGAGATGTGAA
66 GCAACGGTAAACCTTGTACCTTAGAGATGTGAT
* * * * *
37223226 GGGAAAGGTTGAGGCCACAACGTCAAATCTTATAC
1 GGGAAAGATTGAAGCCGCAACGACGAATCTTATAC
37223261 ACCAAAGATA
Statistics
Matches: 1248, Mismatches: 242, Indels: 28
0.82 0.16 0.02
Matches are distributed among these distances:
97 90 0.07
98 1152 0.92
99 5 0.00
100 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.21
Consensus pattern (98 bp):
GGGAAAGATTGAAGCCGCAACGACGAATCTTATACCATAGAGATATGGAGGGAAAGGTTGAAGCC
GCAACGGTAAACCTTGTACCTTAGAGATGTGAT
Found at i:37223260 original size:49 final size:49
Alignment explanation
Indices: 37221655--37223256 Score: 847
Period size: 49 Copynumber: 32.7 Consensus size: 49
37221645 TCTACAGGTT
* * * * ** *
37221655 TGAAGGGAAAGATTGAAGTCGCAACGGCAAATCTAATACCCTAGAGATA
1 TGAAGGGAAAGGTTGAAGCCGCAACGTCGAATCTTGTACCTTAGAGATA
* * * * * *
37221704 TGGAGGGAAAGGTTAAAGCCGCAACGGCAAACCTTGTACCTTAGAGATG
1 TGAAGGGAAAGGTTGAAGCCGCAACGTCGAATCTTGTACCTTAGAGATA
* * * **
37221753 TGAAGGGAAAGATTAAAGCCGCAACGGT-AAATCTAATA-CTATAGAGATA
1 TGAAGGGAAAGGTTGAAGCCGCAAC-GTCGAATCTTGTACCT-TAGAGATA
* *** * * * *
37221802 TGGAGGGAAAGGTTGAAGTTACAATGAT-AAACCTTGTACCTTAGAGACA
1 TGAAGGGAAAGGTTGAAGCCGCAACG-TCGAATCTTGTACCTTAGAGATA
* * * * * *
37221851 TGATGAGAAAGATTGAAGCCGCAACAAT-GAATCTTGTACCATGGAGATA
1 TGAAGGGAAAGGTTGAAGCCGCAAC-GTCGAATCTTGTACCTTAGAGATA
* * * * * * * *
37221900 TGGAGGGAAAGGTCGAAGCTGCAATGGCAAACCTTGTACCTTAGAGATG
1 TGAAGGGAAAGGTTGAAGCCGCAACGTCGAATCTTGTACCTTAGAGATA
* * * * *** *
37221949 TGATGGGAAAGATTAAAACCGCAACGAAAAATC-TGATACCCTAGAGATA
1 TGAAGGGAAAGGTTGAAGCCGCAACGTCGAATCTTG-TACCTTAGAGATA
* * * *** * * **
37221998 TGGAGGGAAAGGTTAAAGCCGCAATGGAAAACCTTGTCCCTTAGAGACG
1 TGAAGGGAAAGGTTGAAGCCGCAACGTCGAATCTTGTACCTTAGAGATA
* * * * * * ** *
37222047 TTAAAGGAAAGATTGAAGCTGCAACGACAAATCTAATACCCTAGAGATA
1 TGAAGGGAAAGGTTGAAGCCGCAACGTCGAATCTTGTACCTTAGAGATA
* * * ** * **
37222096 TGGAGGAAAAGGTTGAAGCCGCAA-TTATAAACCTTGTACCTTAGAGACG
1 TGAAGGGAAAGGTTGAAGCCGCAACGT-CGAATCTTGTACCTTAGAGATA
* * * * * * *
37222145 TGATGGAAAAGATTGAAACCGTAATAGT-GAATCTTGTACCATAGAGATA
1 TGAAGGGAAAGGTTGAAGCCGCAA-CGTCGAATCTTGTACCTTAGAGATA
* * *
37222194 TGATGGGAAAGGTTGAAGCCGCAATGGT-GAACCTTGTACCTT-GAGATA
1 TGAAGGGAAAGGTTGAAGCCGCAA-CGTCGAATCTTGTACCTTAGAGATA
* * * * * * *
37222242 TGATGAG-AAGGATTGAAGCCGCAATGGCGAATCTTATACCATGGAGATA
1 TGAAGGGAAAGG-TTGAAGCCGCAACGTCGAATCTTGTACCTTAGAGATA
* * * * * *
37222291 TGGAGGGAAGGGTTGAAGCCGCAATGGCGAACCTTGTACCTTAGAGATG
1 TGAAGGGAAAGGTTGAAGCCGCAACGTCGAATCTTGTACCTTAGAGATA
* * * * * * *
37222340 TGATGGGAAAGATTGAAGCCGTAACGACGAATATTGTACCATGGAGATA
1 TGAAGGGAAAGGTTGAAGCCGCAACGTCGAATCTTGTACCTTAGAGATA
* * * * *
37222389 TGGAGGGGAAGGTTGAAGCCACAACGTCGAACCTTGTACCTTAGAGATG
1 TGAAGGGAAAGGTTGAAGCCGCAACGTCGAATCTTGTACCTTAGAGATA
* * * * * *
37222438 TGATGGAAAAGATTGAAGCCGCAACAGT-GAATCTTGTACCATGGGGATA
1 TGAAGGGAAAGGTTGAAGCCGCAAC-GTCGAATCTTGTACCTTAGAGATA
* * * * * * **
37222487 TGGAGGGAAAGGTTAAAGCTGTAACGGT-GAAACTCGTACCTTAGAGACG
1 TGAAGGGAAAGGTTGAAGCCGCAAC-GTCGAATCTTGTACCTTAGAGATA
* * ** * * * *
37222536 TGATA-GGAAAGATTGAAGCCGCAATGGAGAATCTTATACCCTAAAGACA
1 TGA-AGGGAAAGGTTGAAGCCGCAACGTCGAATCTTGTACCTTAGAGATA
* ** * * *
37222585 TGGAGGGAAAGGTTGAAGCCGCAACAACAAACCTTGTACCTTAGAGATG
1 TGAAGGGAAAGGTTGAAGCCGCAACGTCGAATCTTGTACCTTAGAGATA
* * * * * * * ** *
37222634 TGAAAGGAAAGATTGTAGTCACAACGACAAATCTAATACCCTAGAGATA
1 TGAAGGGAAAGGTTGAAGCCGCAACGTCGAATCTTGTACCTTAGAGATA
** * * * * **
37222683 TGAAGGGAAAGGTTGAAGATGTAACGGT-AAACCTTTTACCTTAGAGACG
1 TGAAGGGAAAGGTTGAAGCCGCAAC-GTCGAATCTTGTACCTTAGAGATA
* * * * *
37222732 TGATGGGAAAGATTGAAGCCACAACGGT-GAATCTTGTACCATGGAGATA
1 TGAAGGGAAAGGTTGAAGCCGCAAC-GTCGAATCTTGTACCTTAGAGATA
* * * * *
37222781 TGGAGGGAAAGGTTGAAGCTGCAATGAT-GAA-CTTTTTACCTTAGAGACA
1 TGAAGGGAAAGGTTGAAGCCGCAACG-TCGAATC-TTGTACCTTAGAGATA
* * * * * *
37222830 TGATGGGAAAGATTGAAGCTGCAACAAT-GAATCTTATACCAT-GAAGATA
1 TGAAGGGAAAGGTTGAAGCCGCAAC-GTCGAATCTTGTACCTTAG-AGATA
* * * * * * *
37222879 TGAAGGGAAATGTTGAAGGCACAATGGCGAACCTTGTACCTTAGAGATG
1 TGAAGGGAAAGGTTGAAGCCGCAACGTCGAATCTTGTACCTTAGAGATA
* ** * * * * * *
37222928 TGATGGGAAAAATTGAAGTCACAACGACGAATCTTGTACCATGGGGATA
1 TGAAGGGAAAGGTTGAAGCCGCAACGTCGAATCTTGTACCTTAGAGATA
* * * * * *
37222977 TGGAGGGAAAAGTTGAAGCCACAACGGT-GAACCTTGTATCTTAGAGATG
1 TGAAGGGAAAGGTTGAAGCCGCAAC-GTCGAATCTTGTACCTTAGAGATA
* * * * * * *
37223026 TGATGGGAAAGATTAAAGCCGCAACGGCGAATCTTAT-TCTATGGAGATA
1 TGAAGGGAAAGGTTGAAGCCGCAACGTCGAATCTTGTACCT-TAGAGATA
* * * * * *
37223075 TGGAGGGAAAGGTTGAAGCCGTAACGGT-GAACCTCGTACCTTAAAGACGA
1 TGAAGGGAAAGGTTGAAGCCGCAAC-GTCGAATCTTGTACCTTAGAGA-TA
* * * * * * * *
37223125 -GATGGGAAAGATTGAAGCCACAACGACGAATCTTATACCCTAAAGATG
1 TGAAGGGAAAGGTTGAAGCCGCAACGTCGAATCTTGTACCTTAGAGATA
* * * *
37223173 TGAAGGGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTAGAGATG
1 TGAAGGGAAAGGTTGAAGCCGCAACGTCGAATCTTGTACCTTAGAGATA
* * *
37223222 TGAAGGGAAAGGTTGAGGCCACAACGTCAAATCTT
1 TGAAGGGAAAGGTTGAAGCCGCAACGTCGAATCTT
37223257 ATACACCAAA
Statistics
Matches: 1159, Mismatches: 359, Indels: 70
0.73 0.23 0.04
Matches are distributed among these distances:
47 5 0.00
48 50 0.04
49 1084 0.94
50 19 0.02
51 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.21
Consensus pattern (49 bp):
TGAAGGGAAAGGTTGAAGCCGCAACGTCGAATCTTGTACCTTAGAGATA
Found at i:37223562 original size:42 final size:40
Alignment explanation
Indices: 37223524--37224180 Score: 482
Period size: 42 Copynumber: 16.2 Consensus size: 40
37223514 GCGAAGCTAC
* *
37223524 CATCCAATCTCATACCCTGATCATAGGGCAGATTGAAG--
1 CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGCA
* * ** * *
37223562 CATCCAATCTTTTTCCCTAATCAGAGGGCAGATTGAAGATA
1 CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAG-CA
* **
37223603 CA-CCAATCTCTTATCCCGATCAT-GATACAGATTGAAG--
1 CATCCAATCTCTTACCCCGATCATAG-GGCAGATTGAAGCA
* * ** * *
37223640 CATTCAATCTTTTACCCTAATTAAAGGGCAGATTGAAGACA
1 CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAG-CA
* * *
37223681 CA-CTAAACTCTTACCCCGATCATAGGGCAAATTGAAG--
1 CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGCA
* * * ** * * *
37223718 TATCCGATCTTTTACCCTAATCAAAAGGTAGATTGAAGGCA
1 CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAA-GCA
* * *
37223759 CA-CCAATCTCTTACCCCGATCATGGGGCAAATTGAAGATA
1 CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAG-CA
*
37223799 TCATCCAATCTCTTACCCCGACCAT-GGGCTTA-ATTGAAGC-
1 -CATCCAATCTCTTACCCCGATCATAGGGC--AGATTGAAGCA
* * *
37223839 TATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAGACA
1 CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAG-CA
* *
37223880 TCATCCAATCTCTTACCCCGACCATAGGGCAGATTGAAG-T
1 -CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGCA
* * ** *
37223920 CATCCAATCTCTGAGCTTGATCATGGGGCAGATTGAAGACA
1 CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAG-CA
* * *
37223961 TCATCCAATCTCTTACACCGACCATGGGGCAGATTGAAGC-
1 -CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGCA
* *** *
37224001 CATCCAATCACTTACCATAATAATAGGGCAGATTGAAGACA
1 CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAG-CA
37224042 TCATCCAATCTCTTACCCCGATCAT-GAGGCAGATTGAAGACA
1 -CATCCAATCTCTTACCCCGATCATAG-GGCAGATTGAAG-CA
* *
37224084 TCATCCAATCTCTTACCCCGATCATGGGGCAAATTGAAGCCA
1 -CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAG-CA
* * *
37224126 CCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCCA
1 -CATCCAATCTCTTACCCC-GA-TC-ATA-GGGCAGATTGAAG-CA
37224172 CTATCCAAT
1 C-ATCCAAT
37224181 TGAAACTACA
Statistics
Matches: 486, Mismatches: 97, Indels: 64
0.75 0.15 0.10
Matches are distributed among these distances:
37 3 0.01
38 82 0.17
39 94 0.19
40 83 0.17
41 13 0.03
42 182 0.37
43 3 0.01
44 2 0.00
45 2 0.00
46 22 0.05
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (40 bp):
CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGCA
Found at i:37223859 original size:81 final size:82
Alignment explanation
Indices: 37223524--37224144 Score: 537
Period size: 81 Copynumber: 7.7 Consensus size: 82
37223514 GCGAAGCTAC
* * * * * ** *
37223524 CATCCAATCTCATACCCTGATCATAGGGCAGATTGAAG----CATCCAATCTTTTTCCCTAATCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
* *
37223585 GAGGGCAGATTGAAGAT
66 TAGGGCAGATTGAAGCT
* *** * ** **
37223602 ACA-CCAATCTCTTATCCCGATCATGATACAGATTGAAG-CAT--T-CAATCTTTTACCCTAATT
1 -CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACC
* *
37223662 AAAGGGCAGATTGAAGACA
65 ATAGGGCAGATTGAAG-CT
* * * * * * ** *
37223681 CA-CTAAACTCTTACCCCGATCATAGGGCAAATTGAAG---T-ATCCGATCTTTTACCCTAATCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
* * * *
37223741 AAAGGTAGATTGAAGGCA
66 TAGGGCAGATTGAA-GCT
* *
37223759 CA-CCAATCTCTTACCCCGATCATGGGGCAAATTGAAGATATCATCCAATCTCTTACCCCGACCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
37223823 T-GGGCTTA-ATTGAAGCT
66 TAGGGC--AGATTGAAGCT
*
37223840 -ATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAGACATCATCCAATCTCTTACCCCGACCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
37223904 TAGGGCAGATTGAAG-T
66 TAGGGCAGATTGAAGCT
* * ** *
37223920 CATCCAATCTCTGAGCTTGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACACCGACCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
*
37223985 TGGGGCAGATTGAAGC-
66 TAGGGCAGATTGAAGCT
* *** * * *
37224001 CATCCAATCACTTACCATAATAATAGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
37224066 T-GAGGCAGATTGAAGACAT
66 TAG-GGCAGATTGAAG-C-T
* * * *
37224085 CATCCAATCTCTTACCCCGATCATGGGGCAAATTGAAGCCACCATCCAATCTTTTACCCC
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCC
37224145 TAAGTCAAGA
Statistics
Matches: 455, Mismatches: 65, Indels: 39
0.81 0.12 0.07
Matches are distributed among these distances:
76 1 0.00
77 1 0.00
78 153 0.34
79 4 0.01
80 4 0.01
81 213 0.47
82 28 0.06
83 1 0.00
84 50 0.11
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (82 bp):
CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
TAGGGCAGATTGAAGCT
Found at i:37223910 original size:123 final size:123
Alignment explanation
Indices: 37223524--37224144 Score: 550
Period size: 123 Copynumber: 5.1 Consensus size: 123
37223514 GCGAAGCTAC
* * * * ** *
37223524 CATCCAATCTCATACCCTGATCATAGGGCAGATTGAAG---CATCCAATCTTTTTCCCTAATCAG
1 CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGAATCATCCAATCTCTTACCCCGATCAT
* * ***
37223586 AGGGCAGATTGAAGATA-CA-CCAATCTCTTATCCCGATCATGATACAGATTGAAG--
66 AGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCA
* * ** * * * *
37223640 CATTCAATCTTTTACCCTAATTAAAGGGCAGATTGAAGACA-CA-CTAAACTCTTACCCCGATCA
1 CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGA-ATCATCCAATCTCTTACCCCGATCA
* * * ** *** *
37223703 TAGGGCAAATTGAAG---T-ATCCGATCTTTTACCCTAATCAAAAGGTAGATTGAAGGCA
65 TAGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA-GCA
* * *
37223759 CA-CCAATCTCTTACCCCGATCATGGGGCAAATTGAAGATATCATCCAATCTCTTACCCCGACCA
1 CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGA-ATCATCCAATCTCTTACCCCGATCA
*
37223823 T-GGGCTTA-ATTGAAG-C-T-ATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAGACA
65 TAGGGC--AGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG-CA
* * * **
37223880 TCATCCAATCTCTTACCCCGACCATAGGGCAGATTGAAG--TCATCCAATCTCTGAGCTTGATCA
1 -CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGAATCATCCAATCTCTTACCCCGATCA
* * *
37223943 TGGGGCAGATTGAAGACATCATCCAATCTCTTACACCGACCATGGGGCAGATTGAAGC-
65 TAGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCA
* *** *
37224001 CATCCAATCACTTACCATAATAATAGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
1 CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGA-ATCATCCAATCTCTTACCCCGATCA
*
37224066 T-GAGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAAATTGAAGCCA
65 TAG-GGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG-CA
*
37224126 CCATCCAATCTTTTACCCC
1 -CATCCAATCTCTTACCCC
37224145 TAAGTCAAGA
Statistics
Matches: 404, Mismatches: 73, Indels: 46
0.77 0.14 0.09
Matches are distributed among these distances:
115 1 0.00
116 56 0.14
117 1 0.00
118 56 0.14
119 11 0.03
120 85 0.21
121 36 0.09
122 5 0.01
123 138 0.34
124 1 0.00
126 14 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (123 bp):
CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGAATCATCCAATCTCTTACCCCGATCAT
AGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCA
Found at i:37233134 original size:9 final size:9
Alignment explanation
Indices: 37233100--37233245 Score: 57
Period size: 10 Copynumber: 15.4 Consensus size: 9
37233090 ATGTGACAAG
37233100 AAATTATAA
1 AAATTATAA
37233109 AAA--ATAA
1 AAATTATAA
*
37233116 AAATCAATAA
1 AAAT-TATAA
37233126 AAATTATAA
1 AAATTATAA
* **
37233135 AAATGATTT
1 AAATTATAA
*
37233144 AACTT-TAATA
1 AAATTAT-A-A
37233154 AAATTATAAAA
1 AAATTAT--AA
*
37233165 AAATATTTAA
1 AAAT-TATAA
**
37233175 ACTTTACTAA
1 AAATTA-TAA
*
37233185 AAATTAAAAA
1 AAATT-ATAA
37233195 AATATATATAA
1 AA-AT-TATAA
37233206 AAATTATAA
1 AAATTATAA
*
37233215 AATTTTATAA
1 AA-ATTATAA
*
37233225 AAATCATAA
1 AAATTATAA
*
37233234 AAAATA-AA
1 AAATTATAA
37233242 AAAT
1 AAAT
37233246 GAATAAAAAG
Statistics
Matches: 101, Mismatches: 23, Indels: 27
0.67 0.15 0.18
Matches are distributed among these distances:
7 7 0.07
8 6 0.06
9 33 0.33
10 36 0.36
11 14 0.14
12 5 0.05
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (9 bp):
AAATTATAA
Found at i:37233165 original size:29 final size:30
Alignment explanation
Indices: 37233121--37233199 Score: 103
Period size: 29 Copynumber: 2.7 Consensus size: 30
37233111 AATAAAAATC
37233121 AATAAAAATTAT-AAAAATGATTT-AACTTT
1 AATAAAAATTATAAAAAAT-ATTTAAACTTT
37233150 AAT-AAAATTATAAAAAAATATTTAAACTTT
1 AATAAAAATTAT-AAAAAATATTTAAACTTT
*
37233180 ACTAAAAATTA-AAAAAATAT
1 AATAAAAATTATAAAAAATAT
37233200 ATATAAAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
28 8 0.18
29 16 0.36
30 14 0.31
31 7 0.16
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (30 bp):
AATAAAAATTATAAAAAATATTTAAACTTT
Found at i:37233178 original size:30 final size:29
Alignment explanation
Indices: 37233125--37233199 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 29
37233115 AAAATCAATA
37233125 AAAATTAT--AAAAATGATTTAACTTTAAT
1 AAAATTATAAAAAAAT-ATTTAACTTTAAT
*
37233153 AAAATTATAAAAAAATATTTAAACTTTACT
1 AAAATTATAAAAAAATATTT-AACTTTAAT
*
37233183 AAAAAT-TAAAAAAATAT
1 AAAATTATAAAAAAATAT
37233200 ATATAAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
28 8 0.19
29 15 0.36
30 19 0.45
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (29 bp):
AAAATTATAAAAAAATATTTAACTTTAAT
Found at i:37233196 original size:31 final size:30
Alignment explanation
Indices: 37233133--37233206 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
37233123 TAAAAATTAT
*
37233133 AAAAATGATTT-AACTTTAATAAAATTATAA
1 AAAAAT-ATTTAAACTTTAATAAAATTAAAA
*
37233163 AAAAATATTTAAACTTTACTAAAAATTAAAA
1 AAAAATATTTAAACTTTAAT-AAAATTAAAA
* *
37233194 AAATATATATAAA
1 AAAAATATTTAAA
37233207 AATTATAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 4 0.11
30 14 0.37
31 20 0.53
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (30 bp):
AAAAATATTTAAACTTTAATAAAATTAAAA
Found at i:37233206 original size:21 final size:21
Alignment explanation
Indices: 37233182--37233239 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
37233172 TAAACTTTAC
37233182 TAAAAATTAAAAAAATATATA
1 TAAAAATTAAAAAAATATATA
* *
37233203 TAAAAATT-ATAAAAT-TTTA
1 TAAAAATTAAAAAAATATATA
*
37233222 TAAAAATCATAAAAAATA
1 TAAAAATTA-AAAAAATA
37233240 AAAAATGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 10 0.33
20 6 0.20
21 14 0.47
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAAAATTAAAAAAATATATA
Found at i:37233216 original size:29 final size:29
Alignment explanation
Indices: 37233151--37233238 Score: 81
Period size: 31 Copynumber: 3.0 Consensus size: 29
37233141 TTTAACTTTA
* **
37233151 ATAAAATTATAAAAAAATATTTAAACTTT
1 ATAAAATTATAAAAAAATATATAAAAATT
37233180 ACTAAAAATTA-AAAAAATATATATAAAAATT
1 A-T-AAAATTATAAAAAA-ATATATAAAAATT
* *
37233211 ATAAAATTTTATAAAAATCATA-AAAAAT
1 ATAAAATTATAAAAAAAT-ATATAAAAAT
37233239 AAAAAATGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
29 15 0.31
30 16 0.33
31 18 0.37
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (29 bp):
ATAAAATTATAAAAAAATATATAAAAATT
Found at i:37233225 original size:19 final size:20
Alignment explanation
Indices: 37233177--37233235 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 20
37233167 ATATTTAAAC
*
37233177 TTTACTAAAAATTAAAAAAATA
1 TTTA-TAAAAATT-ATAAAATA
*
37233199 TATATAAAAATTATAAAAT-
1 TTTATAAAAATTATAAAATA
*
37233218 TTTATAAAAATCATAAAA
1 TTTATAAAAATTATAAAA
37233236 AATAAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 16 0.48
20 6 0.18
21 8 0.24
22 3 0.09
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
TTTATAAAAATTATAAAATA
Found at i:37233228 original size:31 final size:31
Alignment explanation
Indices: 37233112--37233228 Score: 82
Period size: 31 Copynumber: 3.9 Consensus size: 31
37233102 ATTATAAAAA
* *
37233112 ATAAAAATCAATAAAAATTATAAAAATGAT-T
1 ATAAAAATTACTAAAAATTATAAAAAT-ATAT
** * *
37233143 -T-AACTTTAAT-AAAATTATAAAAAAATAT
1 ATAAAAATTACTAAAAATTATAAAAATATAT
* ** *
37233171 TTAAACTTTACTAAAAATTAAAAAAATATAT
1 ATAAAAATTACTAAAAATTATAAAAATATAT
*
37233202 ATAAAAATTA-TAAAATTTTATAAAAAT
1 ATAAAAATTACTAAAA-ATTATAAAAAT
37233229 CATAAAAAAT
Statistics
Matches: 69, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
27 2 0.03
28 14 0.20
29 7 0.10
30 14 0.20
31 32 0.46
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (31 bp):
ATAAAAATTACTAAAAATTATAAAAATATAT
Found at i:37234124 original size:5 final size:5
Alignment explanation
Indices: 37234114--37234154 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
37234104 TAACCCCAAA
* * *
37234114 TTTCT TTTCT TTTCT TTTCT TTTCC TTTCC TTTCC TTTCT T
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT T
37234155 CTCATTCCCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (5 bp):
TTTCT
Found at i:37234748 original size:2 final size:2
Alignment explanation
Indices: 37234741--37234777 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
37234731 TTCCTTAAAA
*
37234741 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TA TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
37234778 TTAAGGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.03, C:0.46, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:37237725 original size:20 final size:20
Alignment explanation
Indices: 37237686--37237726 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
37237676 ATATATGAAA
*
37237686 TTAAAAAAATAAAATTTAAT
1 TTAAAAAAATAAAATGTAAT
37237706 TTAAAGAAAATAAAA-GTAAT
1 TTAAA-AAAATAAAATGTAAT
37237726 T
1 T
37237727 ATCTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
TTAAAAAAATAAAATGTAAT
Found at i:37242035 original size:23 final size:23
Alignment explanation
Indices: 37241957--37242127 Score: 125
Period size: 23 Copynumber: 7.3 Consensus size: 23
37241947 ATATACGGAA
* * *
37241957 TAAACAAAGAGTAC-CAAAGTAC
1 TAAACAGAGAGCACACAAAGTGC
*
37241979 T-AACAGAAAGCACA-AAAGTGC
1 TAAACAGAGAGCACACAAAGTGC
* * *
37242000 TGGGCAACAGAGAGCACACACAGTGT
1 T---AAACAGAGAGCACACAAAGTGC
* *
37242026 TAAACAGAGAGTACACAAAGTAC
1 TAAACAGAGAGCACACAAAGTGC
*
37242049 TAATCAGAGAGCACACAAAGTGC
1 TAAACAGAGAGCACACAAAGTGC
* * *
37242072 TAATCAGAGAGCAAACACAGTGC
1 TAAACAGAGAGCACACAAAGTGC
* *
37242095 TAATAACAGAGAGCACGA-GATGTGC
1 T-A-AACAGAGAGCAC-ACAAAGTGC
37242120 TAAACAGA
1 TAAACAGA
37242128 AAGCGCGCTA
Statistics
Matches: 118, Mismatches: 22, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
21 16 0.14
22 1 0.01
23 65 0.55
24 2 0.02
25 27 0.23
26 7 0.06
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (23 bp):
TAAACAGAGAGCACACAAAGTGC
Done.