Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 18 of 173
Found at i:4818424 original size:52 final size:52
Alignment explanation
Indices: 4818314--4818417 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 52
4818304 TTCATACAAA
* *
4818314 ATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATATT
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAACTACAATATT
* * *
4818366 ATTACAATATTCATACAAAAAATTTATAATATTCATACAAAATTACAATATT
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAACTACAATATT
4818418 CATACAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.35
Consensus pattern (52 bp):
ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAACTACAATATT
Found at i:4818552 original size:83 final size:84
Alignment explanation
Indices: 4818282--4818552 Score: 211
Period size: 83 Copynumber: 3.2 Consensus size: 84
4818272 ATATTACAAC
* * *
4818282 ATTCATACAAAA-AA-ATATAATATTCATACAAAATTACAATATTCATACAAAAAAATTGCAATA
1 ATTCATACAAAATAATTTACAATATTCATACAAAATTACAATATTCATAC-AAAAAATT--ACTA
* *
4818345 TTCATACAAAACTATAATATTATTAC-AAT
63 ---ATCCAAAAC-A-AA-A--AATACAAAT
*
4818374 ATTCATACAAAA-AATTTATAATATTCATACAAAATTACAATATTCATACAAAAAATTACTAATC
1 ATTCATACAAAATAATTTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACTAATC
* *
4818438 CAAAACTATAAATACAAAT
66 CAAAACAAAAAATACAAAT
* * *
4818457 -TTAATTATAAAATAA-TTACAATATTCATACAACATTACAATATTCATA-AAAAAATTA-TAAT
1 ATTCA-TACAAAATAATTTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACT-A-
* *
4818518 ATTC-ATACAAAAAATTTA-AAAT
63 ATCCAAAACAAAAAA--TACAAAT
4818540 ATTCATACAAAAT
1 ATTCATACAAAAT
4818553 TCTAATCTAA
Statistics
Matches: 154, Mismatches: 16, Indels: 27
0.78 0.08 0.14
Matches are distributed among these distances:
81 1 0.01
82 24 0.16
83 54 0.35
84 8 0.05
85 1 0.01
87 8 0.05
90 3 0.02
92 22 0.14
93 33 0.21
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (84 bp):
ATTCATACAAAATAATTTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACTAATC
CAAAACAAAAAATACAAAT
Found at i:4818730 original size:3 final size:3
Alignment explanation
Indices: 4818722--4818799 Score: 140
Period size: 3 Copynumber: 26.3 Consensus size: 3
4818712 TTTATAAACT
4818722 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
4818770 TTC -TC TTC TTC TTC TTC TTC TTC TCC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
4818800 CCTCTTCTCC
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 70 0.97
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:4820553 original size:33 final size:34
Alignment explanation
Indices: 4820485--4820553 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
4820475 CAAGCTTCAA
* *
4820485 ATCAGGATATACATATCATTTCAATCTCTTTAAC
1 ATCAGGATATACATATCATTTCAATCTCATAAAC
*
4820519 ATCATGATATACATATCA-TTCAATCAT-ATAAAC
1 ATCAGGATATACATATCATTTCAATC-TCATAAAC
4820552 AT
1 AT
4820554 TTCATATCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.41, C:0.19, G:0.04, T:0.36
Consensus pattern (34 bp):
ATCAGGATATACATATCATTTCAATCTCATAAAC
Found at i:4824878 original size:25 final size:25
Alignment explanation
Indices: 4824850--4824906 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
4824840 TAAAATATAT
4824850 ATTTTAGA-AATTTTT-ATTTTTAATA
1 ATTTTA-ATAATTTTTAATTTTTAA-A
*
4824875 ATTTTAATAATTTTTAATTTTTTAA
1 ATTTTAATAATTTTTAATTTTTAAA
4824900 ATTTTAA
1 ATTTTAA
4824907 AAAATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 1 0.03
25 21 0.72
26 7 0.24
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
ATTTTAATAATTTTTAATTTTTAAA
Found at i:4824897 original size:9 final size:9
Alignment explanation
Indices: 4824864--4824904 Score: 50
Period size: 8 Copynumber: 4.7 Consensus size: 9
4824854 TAGAAATTTT
4824864 TATTTTTAA
1 TATTTTTAA
*
4824873 TAATTTTAA
1 TATTTTTAA
4824882 TAATTTTTAA
1 T-ATTTTTAA
4824892 T-TTTTTAA
1 TATTTTTAA
4824900 -ATTTT
1 TATTTT
4824905 AAAAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 11 0.39
9 9 0.32
10 8 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TATTTTTAA
Found at i:4830921 original size:29 final size:29
Alignment explanation
Indices: 4830888--4830943 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
4830878 AAAGCCTTTT
*
4830888 TTTTTCAA-AATTTACCGAAATGGGCCACA
1 TTTTT-AATAATTTACCAAAATGGGCCACA
* *
4830917 TTTTTAATTATTTATCAAAATGGGCCA
1 TTTTTAATAATTTACCAAAATGGGCCA
4830944 TTTCCGCGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.09
29 21 0.91
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (29 bp):
TTTTTAATAATTTACCAAAATGGGCCACA
Found at i:4831854 original size:42 final size:42
Alignment explanation
Indices: 4831807--4831906 Score: 182
Period size: 42 Copynumber: 2.4 Consensus size: 42
4831797 GCAAATTGCT
4831807 CTGACGTGGACGCGATGTCCTGACACGTACACTGACATCGCG
1 CTGACGTGGACGCGATGTCCTGACACGTACACTGACATCGCG
*
4831849 CTGACGTGGACGCGATGTCCTGACACGTACCCTGACATCGCG
1 CTGACGTGGACGCGATGTCCTGACACGTACACTGACATCGCG
*
4831891 CTGACATGGACGCGAT
1 CTGACGTGGACGCGAT
4831907 TTCGCGGAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.21, C:0.31, G:0.29, T:0.19
Consensus pattern (42 bp):
CTGACGTGGACGCGATGTCCTGACACGTACACTGACATCGCG
Found at i:4831971 original size:28 final size:28
Alignment explanation
Indices: 4831914--4831973 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
4831904 GATTTCGCGG
*
4831914 AAAATGGCCCATTCCGGTAAATAATCAA
1 AAAATGGCCCATTCCGGTAAATAATAAA
* *
4831942 AAAATCGGCCCATTTCGGTAAAT-TTAAA
1 AAAAT-GGCCCATTCCGGTAAATAATAAA
4831970 AAAA
1 AAAA
4831974 AGGGCTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 12 0.43
29 16 0.57
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.23
Consensus pattern (28 bp):
AAAATGGCCCATTCCGGTAAATAATAAA
Found at i:4855134 original size:2 final size:2
Alignment explanation
Indices: 4855127--4855156 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4855117 CTACATCTAA
4855127 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4855157 ATTAAGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4856060 original size:5 final size:5
Alignment explanation
Indices: 4856050--4856081 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
4856040 AATAAACAAA
4856050 AATTT AATTT AATTT AATTT AATTT AATTT AA
1 AATTT AATTT AATTT AATTT AATTT AATTT AA
4856082 AAATAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
AATTT
Found at i:4859158 original size:6 final size:6
Alignment explanation
Indices: 4859149--4859174 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4859139 AAATTTATTT
4859149 AATATC AATATC AATATC AATATC AA
1 AATATC AATATC AATATC AATATC AA
4859175 ATTTAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (6 bp):
AATATC
Found at i:4862324 original size:18 final size:18
Alignment explanation
Indices: 4862301--4862336 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4862291 TTCAAAAATT
4862301 AGTCATTTCACATCTATA
1 AGTCATTTCACATCTATA
4862319 AGTCATTTCACATCTATA
1 AGTCATTTCACATCTATA
4862337 TATTCATCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (18 bp):
AGTCATTTCACATCTATA
Found at i:4862548 original size:25 final size:25
Alignment explanation
Indices: 4862520--4862572 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
4862510 TAATGTATTC
*
4862520 CATGTAGTTTATAAACCATGTAAAT
1 CATGTAATTTATAAACCATGTAAAT
* *
4862545 CATGTAATTTATAATCCTTGTAAAT
1 CATGTAATTTATAAACCATGTAAAT
4862570 CAT
1 CAT
4862573 ATAGCTCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (25 bp):
CATGTAATTTATAAACCATGTAAAT
Found at i:4862779 original size:23 final size:24
Alignment explanation
Indices: 4862753--4862817 Score: 91
Period size: 23 Copynumber: 2.8 Consensus size: 24
4862743 TCTGGAAAAT
*
4862753 GGTAAGCTCCGT-AGAGCTGAAAC
1 GGTAAGCTCCATAAGAGCTGAAAC
4862776 GGTAAGCT-CATAAGAGCTGAAAC
1 GGTAAGCTCCATAAGAGCTGAAAC
*
4862799 GGTAAGCT-CATACGAGCTG
1 GGTAAGCTCCATAAGAGCTG
4862818 TGGTGAGTCC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
22 2 0.05
23 37 0.95
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.18
Consensus pattern (24 bp):
GGTAAGCTCCATAAGAGCTGAAAC
Found at i:4863975 original size:8 final size:8
Alignment explanation
Indices: 4863961--4864030 Score: 54
Period size: 8 Copynumber: 9.0 Consensus size: 8
4863951 ATAATAAAAT
4863961 AATATATA
1 AATATATA
*
4863969 AAAATATA
1 AATATATA
* *
4863977 CATATATT
1 AATATATA
*
4863985 AATATGTA
1 AATATATA
*
4863993 AAAATATA
1 AATATATA
4864001 AATATATA
1 AATATATA
* *
4864009 AGTATGT-
1 AATATATA
*
4864016 -ACATATA
1 AATATATA
4864023 AATATATA
1 AATATATA
4864031 CTTATAAAAT
Statistics
Matches: 44, Mismatches: 16, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
6 3 0.07
8 41 0.93
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (8 bp):
AATATATA
Found at i:4864014 original size:24 final size:23
Alignment explanation
Indices: 4863959--4864030 Score: 85
Period size: 24 Copynumber: 3.1 Consensus size: 23
4863949 TTATAATAAA
* *
4863959 ATAATATATAAAAATATACATAT
1 ATAATATGTAAAAATATAAATAT
4863982 ATTAATATGTAAAAATATAAATAT
1 A-TAATATGTAAAAATATAAATAT
*
4864006 ATAAGTATGT--ACATATAAATAT
1 ATAA-TATGTAAAAATATAAATAT
4864028 ATA
1 ATA
4864031 CTTATAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
22 14 0.32
23 4 0.09
24 26 0.59
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (23 bp):
ATAATATGTAAAAATATAAATAT
Found at i:4865193 original size:20 final size:20
Alignment explanation
Indices: 4865149--4865194 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
4865139 AAATAGCTTC
* *
4865149 GAAAAAAAATAAAGAGAAAA
1 GAAAATAAATAAACAGAAAA
4865169 G-AAATAAA-AAACAGAAAA
1 GAAAATAAATAAACAGAAAA
4865187 GGAAAATA
1 -GAAAATA
4865195 GATATACCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 9 0.41
19 7 0.32
20 6 0.27
ACGTcount: A:0.76, C:0.02, G:0.15, T:0.07
Consensus pattern (20 bp):
GAAAATAAATAAACAGAAAA
Found at i:4871895 original size:5 final size:5
Alignment explanation
Indices: 4871865--4871913 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
4871855 AAATATATGT
* * *
4871865 TAAAA GTAAAA TAAAA CTTAAG TAAAA TAAAA TAAAA TAAAA CAAAA TA
1 TAAAA -TAAAA TAAAA -TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA
4871914 CTATCATCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
5 28 0.78
6 8 0.22
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:4872308 original size:12 final size:12
Alignment explanation
Indices: 4872291--4872316 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4872281 ACTGTCCTAG
4872291 TTTGTGAATAAA
1 TTTGTGAATAAA
4872303 TTTGTGAATAAA
1 TTTGTGAATAAA
4872315 TT
1 TT
4872317 CGGCTAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (12 bp):
TTTGTGAATAAA
Found at i:4880432 original size:20 final size:20
Alignment explanation
Indices: 4880386--4880433 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
4880376 AAATAACAAA
4880386 AATAAA-AAAATTTAAGAAT
1 AATAAATAAAATTTAAGAAT
4880405 AA-AGAATAAATATTTAA-AAT
1 AATA-AATAAA-ATTTAAGAAT
4880425 AATAAATAA
1 AATAAATAA
4880434 CTAAAGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
18 1 0.04
19 4 0.16
20 13 0.52
21 7 0.28
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (20 bp):
AATAAATAAAATTTAAGAAT
Found at i:4883293 original size:20 final size:20
Alignment explanation
Indices: 4883268--4883307 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4883258 TGTAAAATGA
*
4883268 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
4883288 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
4883308 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:4883296 original size:34 final size:35
Alignment explanation
Indices: 4883253--4883319 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
4883243 CAGTAAAATA
*
4883253 TTTTCTGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCTGTAAAATGATTTACTGAAAAATATTTTAC
*
4883287 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
4883320 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 18 0.60
35 12 0.40
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (35 bp):
TTTTCTGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:4883323 original size:14 final size:15
Alignment explanation
Indices: 4883247--4883323 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
4883237 GATTGCCAGT
*
4883247 AAAAT-ATTTTCTGT
1 AAAATGATTTTCTGG
*
4883261 AAAATGA-TTTCTGA
1 AAAATGATTTTCTGG
*
4883275 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
4883295 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
4883310 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
4883324 TGTTTGATTG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 25 0.49
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.44
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:4883502 original size:22 final size:24
Alignment explanation
Indices: 4883477--4883527 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
4883467 TTATTTATAA
4883477 ATAAATAA-A-TCAA-ATT-AAAT
1 ATAAATAATACTCAATATTAAAAT
4883497 ATATAATAATACTCAATTATTAAAAT
1 ATA-AATAATACTCAA-TATTAAAAT
4883523 ATAAA
1 ATAAA
4883528 AGCATTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 1 0.04
23 4 0.16
25 5 0.20
26 7 0.28
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATAATACTCAATATTAAAAT
Found at i:4885444 original size:20 final size:21
Alignment explanation
Indices: 4885403--4885448 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
4885393 ACAACCCAAG
*
4885403 AAAATAAAATACAACAGGCCC
1 AAAATAAAATACAACAGACCC
4885424 AAAA-AAAATACAA-ATGACCC
1 AAAATAAAATACAACA-GACCC
4885444 AAAAT
1 AAAAT
4885449 TTAAACCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 1 0.05
20 17 0.77
21 4 0.18
ACGTcount: A:0.63, C:0.20, G:0.07, T:0.11
Consensus pattern (21 bp):
AAAATAAAATACAACAGACCC
Found at i:4887551 original size:15 final size:16
Alignment explanation
Indices: 4887520--4887552 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4887510 AATATCTTTT
*
4887520 AAATTTCAAACACATA
1 AAATTTCAAACAAATA
4887536 AAATTTCAAA-AAATA
1 AAATTTCAAACAAATA
4887551 AA
1 AA
4887553 GGCAATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTTCAAACAAATA
Found at i:4892060 original size:16 final size:16
Alignment explanation
Indices: 4892033--4892070 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4892023 TCATTAAAAA
**
4892033 AATATA-AATAAATTT
1 AATATATAATAAAAGT
4892048 AATATATAATAAAAGT
1 AATATATAATAAAAGT
4892064 AATATAT
1 AATATAT
4892071 TACTAAGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (16 bp):
AATATATAATAAAAGT
Found at i:4893750 original size:21 final size:20
Alignment explanation
Indices: 4893726--4893773 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
4893716 TTTAACACAT
4893726 TTTTTTAGATAATTAA-ATTTA
1 TTTTTT-GA-AATTAAGATTTA
*
4893747 TTTTCTTTAAATTAAGATTTA
1 TTTT-TTGAAATTAAGATTTA
4893768 TTTTTT
1 TTTTTT
4893774 TAACAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 8 0.33
21 14 0.58
22 2 0.08
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTTTTGAAATTAAGATTTA
Found at i:4893759 original size:20 final size:20
Alignment explanation
Indices: 4893736--4893776 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
4893726 TTTTTTAGAT
4893736 AATTAA-ATTTATTTTCTTTA
1 AATTAAGATTTATTTT-TTTA
4893756 AATTAAGATTTATTTTTTTA
1 AATTAAGATTTATTTTTTTA
4893776 A
1 A
4893777 CAAATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
AATTAAGATTTATTTTTTTA
Found at i:4895582 original size:6 final size:6
Alignment explanation
Indices: 4895571--4895596 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4895561 TAATTTAATC
4895571 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
4895597 AGATTCTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:4905060 original size:24 final size:24
Alignment explanation
Indices: 4905004--4905074 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 24
4904994 ATCTTAATTA
4905004 ACAGTATTTTTTTCTGCTTTGTAGC
1 ACAGT-TTTTTTTCTGCTTTGTAGC
* *
4905029 ACGGTTTTTTTTCTGTTTTGTAGC
1 ACAGTTTTTTTTCTGCTTTGTAGC
*
4905053 ACATTTTTCCTTTTCT-CTTTGT
1 ACAGTTTT--TTTTCTGCTTTGT
4905075 TCTAGTTTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
24 24 0.62
25 9 0.23
26 6 0.15
ACGTcount: A:0.11, C:0.17, G:0.14, T:0.58
Consensus pattern (24 bp):
ACAGTTTTTTTTCTGCTTTGTAGC
Found at i:4913690 original size:14 final size:14
Alignment explanation
Indices: 4913671--4913702 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
4913661 CACTTGAGCG
4913671 CTAATCACATATGT
1 CTAATCACATATGT
4913685 CTAATCACATATGT
1 CTAATCACATATGT
4913699 CTAA
1 CTAA
4913703 CTGTTCCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (14 bp):
CTAATCACATATGT
Found at i:4919177 original size:18 final size:15
Alignment explanation
Indices: 4919149--4919212 Score: 65
Period size: 15 Copynumber: 4.1 Consensus size: 15
4919139 GTGTTGCATG
4919149 CATCACCATCACCAT
1 CATCACCATCACCAT
*
4919164 CATCACTTCCATCATCAT
1 CATCA---CCATCACCAT
4919182 CATCACCATCACCAT
1 CATCACCATCACCAT
* * *
4919197 CAGCCCCATCATCAT
1 CATCACCATCACCAT
4919212 C
1 C
4919213 TTCATCTTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
15 27 0.66
18 14 0.34
ACGTcount: A:0.30, C:0.45, G:0.02, T:0.23
Consensus pattern (15 bp):
CATCACCATCACCAT
Found at i:4919212 original size:6 final size:6
Alignment explanation
Indices: 4919149--4919226 Score: 50
Period size: 6 Copynumber: 13.0 Consensus size: 6
4919139 GTGTTGCATG
* * * * *
4919149 CATCAC CATCAC CATCAT CA-CTT CCATCAT CATCAT CACCAT CACCAT
1 CATCAT CATCAT CATCAT CATCAT -CATCAT CATCAT CATCAT CATCAT
* ** * *
4919197 CAGCCC CATCAT CATCTT CATCTT CATCAT
1 CATCAT CATCAT CATCAT CATCAT CATCAT
4919227 AAACAATGCC
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
5 2 0.03
6 54 0.93
7 2 0.03
ACGTcount: A:0.28, C:0.42, G:0.01, T:0.28
Consensus pattern (6 bp):
CATCAT
Found at i:4919217 original size:9 final size:9
Alignment explanation
Indices: 4919149--4919226 Score: 50
Period size: 9 Copynumber: 8.7 Consensus size: 9
4919139 GTGTTGCATG
*
4919149 CATCACCAT
1 CATCATCAT
*
4919158 CACCATCAT
1 CATCATCAT
*
4919167 CA-CTTCCAT
1 CATCAT-CAT
4919176 CATCATCAT
1 CATCATCAT
* *
4919185 CACCATCAC
1 CATCATCAT
* **
4919194 CATCAGCCC
1 CATCATCAT
4919203 CATCATCAT
1 CATCATCAT
* *
4919212 CTTCATCTT
1 CATCATCAT
4919221 CATCAT
1 CATCAT
4919227 AAACAATGCC
Statistics
Matches: 52, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
8 2 0.04
9 48 0.92
10 2 0.04
ACGTcount: A:0.28, C:0.42, G:0.01, T:0.28
Consensus pattern (9 bp):
CATCATCAT
Found at i:4923572 original size:72 final size:72
Alignment explanation
Indices: 4923455--4923598 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
4923445 AGAAGTCAGA
4923455 TTTTTGTGGAAACAGTAAGCATTTTACAGATAAACCCAAGAAGTTTCCAAGATTTTAGCAGGGGC
1 TTTTTGTGGAAACAGTAAGCATTTTACAGATAAACCCAAGAAGTTTCCAAGATTTTAGCAGGGGC
4923520 AATTGGT
66 AATTGGT
* *
4923527 TTTTTGTGGAAACAGTAAGCATTTTATAGATAAACCCAAGAAGTTTCCAGGATTTTAGCAGGGGC
1 TTTTTGTGGAAACAGTAAGCATTTTACAGATAAACCCAAGAAGTTTCCAAGATTTTAGCAGGGGC
4923592 AATTGGT
66 AATTGGT
4923599 CCTACTACTC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (72 bp):
TTTTTGTGGAAACAGTAAGCATTTTACAGATAAACCCAAGAAGTTTCCAAGATTTTAGCAGGGGC
AATTGGT
Found at i:4931429 original size:15 final size:16
Alignment explanation
Indices: 4931417--4931450 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4931407 TTTTTAATTA
4931417 AATATTTTATAATAAT
1 AATATTTTATAATAAT
*
4931433 AATATTTTA-AATCAT
1 AATATTTTATAATAAT
4931448 AAT
1 AAT
4931451 TAAAGCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
AATATTTTATAATAAT
Found at i:4934090 original size:44 final size:44
Alignment explanation
Indices: 4934023--4934136 Score: 201
Period size: 44 Copynumber: 2.6 Consensus size: 44
4934013 TTTGAGTACT
*
4934023 TCTAATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTAATCAGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTA
*
4934067 TCTGATCAGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTAATCAGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTA
*
4934111 TCTAATCAGTGACAAGTGACAAGTGA
1 TCTAATCAGTGACAAGTGATAAGTGA
4934137 CAAGTGATAA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (44 bp):
TCTAATCAGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTA
Found at i:4934130 original size:7 final size:7
Alignment explanation
Indices: 4934118--4934143 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4934108 TTATCTAATC
4934118 AGTGACA
1 AGTGACA
4934125 AGTGACA
1 AGTGACA
4934132 AGTGACA
1 AGTGACA
4934139 AGTGA
1 AGTGA
4934144 TAAATTGTAA
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:0.42, C:0.12, G:0.31, T:0.15
Consensus pattern (7 bp):
AGTGACA
Found at i:4934144 original size:58 final size:58
Alignment explanation
Indices: 4934074--4934187 Score: 176
Period size: 58 Copynumber: 2.0 Consensus size: 58
4934064 TTATCTGATC
* *
4934074 AGTGACAAGTGAT-AAGTGATAGCTTTAGCTACACTTATCTAATCAGTGACAAGTGACA
1 AGTGACAAGTGATAAAGTG-TAACTTTAACTACACTTATCTAATCAGTGACAAGTGACA
* *
4934132 AGTGACAAGTGATAAATTGTAACTTTAACTACACTTATCTGATCAGTGACAAGTGA
1 AGTGACAAGTGATAAAGTGTAACTTTAACTACACTTATCTAATCAGTGACAAGTGA
4934188 TGAGTGGTAG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 47 0.92
59 4 0.08
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (58 bp):
AGTGACAAGTGATAAAGTGTAACTTTAACTACACTTATCTAATCAGTGACAAGTGACA
Found at i:4934199 original size:102 final size:102
Alignment explanation
Indices: 4934030--4934238 Score: 337
Period size: 102 Copynumber: 2.0 Consensus size: 102
4934020 ACTTCTAATC
* * *
4934030 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAGTGATA
1 AGTGACAAGTGATAAATGGTAACTTTAACTACACTTATCTGATCAGTGACAAGTGATAAGTGATA
*
4934095 GCTTTAGCTACACTTATCTAATCAGTGACAAGTGACA
66 GCTTTAGCTACACTTATCTAATCAGGGACAAGTGACA
* * *
4934132 AGTGACAAGTGATAAATTGTAACTTTAACTACACTTATCTGATCAGTGACAAGTGATGAGTGGTA
1 AGTGACAAGTGATAAATGGTAACTTTAACTACACTTATCTGATCAGTGACAAGTGATAAGTGATA
* *
4934197 GCTTTAGCTACACTTATCTGATCTGGGACAAGTGACA
66 GCTTTAGCTACACTTATCTAATCAGGGACAAGTGACA
4934234 AGTGA
1 AGTGA
4934239 TAAATGTGAT
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 98 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (102 bp):
AGTGACAAGTGATAAATGGTAACTTTAACTACACTTATCTGATCAGTGACAAGTGATAAGTGATA
GCTTTAGCTACACTTATCTAATCAGGGACAAGTGACA
Found at i:4934202 original size:44 final size:44
Alignment explanation
Indices: 4934132--4934231 Score: 137
Period size: 44 Copynumber: 2.3 Consensus size: 44
4934122 ACAAGTGACA
*
4934132 AGTGACAAGTGATAAATTGTAACTTTAACTACACTTATCTGATC
1 AGTGACAAGTGATAAATGGTAACTTTAACTACACTTATCTGATC
* * * *
4934176 AGTGACAAGTGATGAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGATAAATGGTAACTTTAACTACACTTATCTGATC
* *
4934220 TGGGACAAGTGA
1 AGTGACAAGTGA
4934232 CAAGTGATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (44 bp):
AGTGACAAGTGATAAATGGTAACTTTAACTACACTTATCTGATC
Found at i:4934783 original size:17 final size:17
Alignment explanation
Indices: 4934763--4934825 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
4934753 AATAATGTGA
4934763 AAGTTTTAATTTAGATG
1 AAGTTTTAATTTAGATG
* ** *
4934780 AAGTTTTATAACTCGGTGTG
1 AAG-TTT-TAATTTAG-ATG
4934800 AAAGTTTTAATTTAGATG
1 -AAGTTTTAATTTAGATG
4934818 AAGTTTTA
1 AAGTTTTA
4934826 TAACTCGGTT
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
17 11 0.32
18 5 0.15
19 10 0.29
20 5 0.15
21 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.44
Consensus pattern (17 bp):
AAGTTTTAATTTAGATG
Found at i:4934809 original size:38 final size:38
Alignment explanation
Indices: 4934758--4934834 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
4934748 ATGTTAATAA
4934758 TGTGAAAGTTTTAATTTAGATGAAGTTTTATAACTCGG
1 TGTGAAAGTTTTAATTTAGATGAAGTTTTATAACTCGG
4934796 TGTGAAAGTTTTAATTTAGATGAAGTTTTATAACTCGG
1 TGTGAAAGTTTTAATTTAGATGAAGTTTTATAACTCGG
4934834 T
1 T
4934835 TAAATACGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (38 bp):
TGTGAAAGTTTTAATTTAGATGAAGTTTTATAACTCGG
Found at i:4935517 original size:31 final size:31
Alignment explanation
Indices: 4935480--4935551 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 31
4935470 TATAGAATAT
*
4935480 AATTTAGTCACCCTTATTAGATAAGTTGT-C
1 AATTTAGTCACCCTCATTAGATAAGTTGTCC
*
4935510 AATTTTAGTCA-CCTCGTTAGATAAGTTGTCC
1 AA-TTTAGTCACCCTCATTAGATAAGTTGTCC
4935541 AATTTAGTCAC
1 AATTTAGTCAC
4935552 TCTACTGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
30 26 0.70
31 11 0.30
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (31 bp):
AATTTAGTCACCCTCATTAGATAAGTTGTCC
Found at i:4936376 original size:7 final size:7
Alignment explanation
Indices: 4936364--4936393 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
4936354 GATCCCAATT
4936364 CAATCCA
1 CAATCCA
4936371 CAATCCA
1 CAATCCA
4936378 CAATCCA
1 CAATCCA
*
4936385 CAATTCA
1 CAATCCA
4936392 CA
1 CA
4936394 TTTCATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (7 bp):
CAATCCA
Found at i:4945296 original size:13 final size:13
Alignment explanation
Indices: 4945278--4945302 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4945268 ATTTTTTAAA
4945278 TTTTTAATTAATG
1 TTTTTAATTAATG
4945291 TTTTTAATTAAT
1 TTTTTAATTAAT
4945303 AAATATTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:4959423 original size:24 final size:24
Alignment explanation
Indices: 4959391--4959438 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
4959381 TCGATTCAAA
4959391 TGGTACCAAATAAATCCACTAAGT
1 TGGTACCAAATAAATCCACTAAGT
*
4959415 TGGTACCAAATAAATTCACTAAGT
1 TGGTACCAAATAAATCCACTAAGT
4959439 AAAATGACGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (24 bp):
TGGTACCAAATAAATCCACTAAGT
Found at i:4959944 original size:16 final size:18
Alignment explanation
Indices: 4959917--4959950 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4959907 AAAAGTTAAA
4959917 AGTGGTTAATT-ATTTTT
1 AGTGGTTAATTAATTTTT
4959934 AGTGG-TAATTAATTTTT
1 AGTGGTTAATTAATTTTT
4959951 TATAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (18 bp):
AGTGGTTAATTAATTTTT
Found at i:4977657 original size:13 final size:13
Alignment explanation
Indices: 4977641--4977677 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
4977631 TTTAAACCAA
4977641 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
* *
4977654 ACTTCTCAAAAAT
1 ACTTTTCAAAAAC
4977667 ACTTTTCAAAA
1 ACTTTTCAAAA
4977678 GCATTGTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:4983578 original size:96 final size:96
Alignment explanation
Indices: 4983414--4983609 Score: 392
Period size: 96 Copynumber: 2.0 Consensus size: 96
4983404 ATTCCTATTT
4983414 CAACATGCAGAATTTTCTAACGATGCCTGCACAGTTTCTATTGTTTTAACAATTAGAAACTATGC
1 CAACATGCAGAATTTTCTAACGATGCCTGCACAGTTTCTATTGTTTTAACAATTAGAAACTATGC
4983479 CCACTACTCCAAAAGTGGCCTAAGTAATAGG
66 CCACTACTCCAAAAGTGGCCTAAGTAATAGG
4983510 CAACATGCAGAATTTTCTAACGATGCCTGCACAGTTTCTATTGTTTTAACAATTAGAAACTATGC
1 CAACATGCAGAATTTTCTAACGATGCCTGCACAGTTTCTATTGTTTTAACAATTAGAAACTATGC
4983575 CCACTACTCCAAAAGTGGCCTAAGTAATAGG
66 CCACTACTCCAAAAGTGGCCTAAGTAATAGG
4983606 CAAC
1 CAAC
4983610 CAATTAATTG
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 100 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (96 bp):
CAACATGCAGAATTTTCTAACGATGCCTGCACAGTTTCTATTGTTTTAACAATTAGAAACTATGC
CCACTACTCCAAAAGTGGCCTAAGTAATAGG
Found at i:4989180 original size:22 final size:24
Alignment explanation
Indices: 4989137--4989180 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
4989127 TGATAATATA
4989137 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
*
4989161 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
4989181 TAAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:4989440 original size:97 final size:97
Alignment explanation
Indices: 4989269--4989460 Score: 348
Period size: 97 Copynumber: 2.0 Consensus size: 97
4989259 ATCAACTTTA
*
4989269 AAATAAAGTTAAAATGATTTTAATCAAGTAATAATTATTTCAACTAGTCAAACTGTTTTTAAAAC
1 AAATAAAGTTAAAATGAGTTTAATCAAGTAATAATTATTTCAACTAGTCAAACTGTTTTTAAAAC
*
4989334 AAGTCAGTATAGCTCCAGGCCAAAAAGTATTG
66 AAGTCAGTATAGCTCCAAGCCAAAAAGTATTG
* *
4989366 AAATCAAGTTAAAATGAGTTTAATCAAGTAATAATTCTTTCAACTAGTCAAACTGTTTTTAAAAC
1 AAATAAAGTTAAAATGAGTTTAATCAAGTAATAATTATTTCAACTAGTCAAACTGTTTTTAAAAC
4989431 AAGTCAGTATAGCTCCAAGCCAAAAAGTAT
66 AAGTCAGTATAGCTCCAAGCCAAAAAGTAT
4989461 CGATAGTTTT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 91 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (97 bp):
AAATAAAGTTAAAATGAGTTTAATCAAGTAATAATTATTTCAACTAGTCAAACTGTTTTTAAAAC
AAGTCAGTATAGCTCCAAGCCAAAAAGTATTG
Found at i:4989589 original size:20 final size:20
Alignment explanation
Indices: 4989548--4989591 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4989538 TATCAATACT
*
4989548 GTATCGATACTTTTCATATG
1 GTATCGATAATTTTCATATG
*
4989568 GTATCGATAAATTTT-ATCTG
1 GTATCGAT-AATTTTCATATG
4989588 GTAT
1 GTAT
4989592 TGGCGGTGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.45
Consensus pattern (20 bp):
GTATCGATAATTTTCATATG
Found at i:4991155 original size:27 final size:27
Alignment explanation
Indices: 4991119--4991209 Score: 110
Period size: 27 Copynumber: 3.4 Consensus size: 27
4991109 ATTTGATAGA
* *
4991119 CGCGATTAGTTGAGCCTATCTCAGAGG
1 CGCGACTAGTTGAGCCTATCTCACAGG
* *
4991146 CGTGACTAGTTGAGCCTATCTGACAGG
1 CGCGACTAGTTGAGCCTATCTCACAGG
* * *
4991173 CGCGACTAGTTGAGCCTAACTTAAAGG
1 CGCGACTAGTTGAGCCTATCTCACAGG
*
4991200 CGCGAATAGT
1 CGCGACTAGT
4991210 GGGGCCCACT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (27 bp):
CGCGACTAGTTGAGCCTATCTCACAGG
Found at i:4991543 original size:20 final size:20
Alignment explanation
Indices: 4991508--4991545 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4991498 ATTTTTTTGC
*
4991508 ATTTCGAAACTGTTTTAAGA
1 ATTTCGAAAATGTTTTAAGA
*
4991528 ATTTCGAAAATTTTTTAA
1 ATTTCGAAAATGTTTTAA
4991546 CAGATCTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.45
Consensus pattern (20 bp):
ATTTCGAAAATGTTTTAAGA
Found at i:4996609 original size:61 final size:60
Alignment explanation
Indices: 4996514--4996633 Score: 195
Period size: 61 Copynumber: 2.0 Consensus size: 60
4996504 ATACTAAACT
* * * *
4996514 AAACACAATAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATGATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
4996574 AAACACAAAAATTTATTAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTA-TAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
4996634 TAAAAAGCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
60 14 0.25
61 41 0.75
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.35
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:4996956 original size:27 final size:27
Alignment explanation
Indices: 4996886--4996957 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
4996876 GCACCATTCA
* * * *
4996886 CGCCTACTTGTCAGGCGCGATTAGTAG
1 CGCCTATTTGACAGGCTCAATTAGTAG
* * *
4996913 CGCCTATCTGGCAGGCTCAATTAGTCG
1 CGCCTATTTGACAGGCTCAATTAGTAG
4996940 CGCCTATTTGACAGGCTC
1 CGCCTATTTGACAGGCTC
4996958 GACTCGTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.18, C:0.29, G:0.26, T:0.26
Consensus pattern (27 bp):
CGCCTATTTGACAGGCTCAATTAGTAG
Found at i:4997818 original size:3 final size:3
Alignment explanation
Indices: 4997810--4997858 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
4997800 TTTGTTTAGT
4997810 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
4997858 G
1 G
4997859 TTATTGGTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:5025913 original size:60 final size:59
Alignment explanation
Indices: 5025814--5025956 Score: 196
Period size: 60 Copynumber: 2.4 Consensus size: 59
5025804 AGTAGTTTTA
* * *
5025814 AATCTGATGAAGAAAAAACTTCATCAGATCAGAAAGAAGACATAAATGTTACTAGTAAT
1 AATCTGATGAAGAAAAAACTTCAACAGATCAGAAAGAAGACATAAAAGTCACTAGTAAT
* * *
5025873 CAATCTGATGAAGAAAAAACTTCAACAGATCAGGATGAAGACATAAAAGTCACTAGTTAT
1 -AATCTGATGAAGAAAAAACTTCAACAGATCAGAAAGAAGACATAAAAGTCACTAGTAAT
* *
5025933 AATTTTGATGAAGAAAACACTTCA
1 AA-TCTGATGAAGAAAAAACTTCA
5025957 TCTGAAGATG
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
59 2 0.03
60 72 0.97
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.24
Consensus pattern (59 bp):
AATCTGATGAAGAAAAAACTTCAACAGATCAGAAAGAAGACATAAAAGTCACTAGTAAT
Found at i:5030107 original size:25 final size:24
Alignment explanation
Indices: 5030079--5030127 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
5030069 ATAAAAGAGA
*
5030079 ATATTCTTTGATAATGTATAAGATG
1 ATATTATTTGATAAT-TATAAGATG
*
5030104 ATATTATTTGATAATTCTAAGATG
1 ATATTATTTGATAATTATAAGATG
5030128 TCTGTACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (24 bp):
ATATTATTTGATAATTATAAGATG
Found at i:5038244 original size:6 final size:6
Alignment explanation
Indices: 5038233--5038258 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
5038223 AAAAATATAG
5038233 ATTTAT ATTTAT ATTTAT ATTTAT AT
1 ATTTAT ATTTAT ATTTAT ATTTAT AT
5038259 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTAT
Found at i:5044956 original size:57 final size:56
Alignment explanation
Indices: 5044835--5044964 Score: 142
Period size: 57 Copynumber: 2.3 Consensus size: 56
5044825 TGGTTTTTTT
5044835 TTCTTTTTTAGTCACCAACTACGAAAAAGTATAAAATGGTCACCTAACTATTAGTAAG
1 TTCTTTTTT-GTCACCAACTACGAAAAAGTATAAAATGGTCACCTAACTATTA-TAAG
* * *
5044893 TT-TTTTTTGTCACCTAACTATG-AAAAGTTTCAAAATGGTCA-CTCAACTATT-TAAT
1 TTCTTTTTTGTCACC-AACTACGAAAAAGTAT-AAAATGGTCACCT-AACTATTATAAG
5044948 TATCTTTTTTGATCACC
1 T-TCTTTTTTG-TCACC
5044965 CATCTATCTT
Statistics
Matches: 63, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
55 4 0.06
56 16 0.25
57 36 0.57
58 7 0.11
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (56 bp):
TTCTTTTTTGTCACCAACTACGAAAAAGTATAAAATGGTCACCTAACTATTATAAG
Found at i:5045663 original size:4 final size:4
Alignment explanation
Indices: 5045634--5045676 Score: 50
Period size: 4 Copynumber: 9.8 Consensus size: 4
5045624 TTTTATTTCA
5045634 AAAT AAAT CAACAT AAAAT GAAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT -AA-AT -AAAT -AAAT AAAT AAAT AAAT AAAT AAA
5045677 GAATTAGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 23 0.66
5 8 0.23
6 4 0.11
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:5063900 original size:97 final size:97
Alignment explanation
Indices: 5063730--5063924 Score: 363
Period size: 97 Copynumber: 2.0 Consensus size: 97
5063720 TCACATGACC
5063730 TAATCTAGCATGCCACATGTCAATGGATTCAGCAATATAAGTAGAAGTGATGGCTGTATTATTAT
1 TAATCTAGCATGCCACATGTCAATGGATTCAGCAATATAAGTAGAAGTGATGGCTGTATTATTAT
*
5063795 CATTAAACATGGTCTCAATCACAAATAAACCT
66 CATGAAACATGGTCTCAATCACAAATAAACCT
* *
5063827 TAATCTAGCATGCCACATGTCAATGGATTCAGCAATATAAGTAGAAGTGGTGGCTTTATTATTAT
1 TAATCTAGCATGCCACATGTCAATGGATTCAGCAATATAAGTAGAAGTGATGGCTGTATTATTAT
5063892 CATGAAACATGGTCTCAATCACAAATAAACCT
66 CATGAAACATGGTCTCAATCACAAATAAACCT
5063924 T
1 T
5063925 CACTCAGATA
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.30
Consensus pattern (97 bp):
TAATCTAGCATGCCACATGTCAATGGATTCAGCAATATAAGTAGAAGTGATGGCTGTATTATTAT
CATGAAACATGGTCTCAATCACAAATAAACCT
Found at i:5065630 original size:28 final size:27
Alignment explanation
Indices: 5065520--5065643 Score: 99
Period size: 28 Copynumber: 4.4 Consensus size: 27
5065510 TCGTTCAGAC
* *
5065520 GGACTTCCTCATTTAAGATTGTCTTGGA-
1 GGACTTCCACATTT-AGATAGTCTT-GAT
* *
5065548 CGACTTCCACATTTAAGATCGTCTTGA-
1 GGACTTCCACATTT-AGATAGTCTTGAT
* *
5065575 GGACTTCCTACATTTAGACAGTTTTGAT
1 GGACTTCC-ACATTTAGATAGTCTTGAT
* *
5065603 GGGCTTCGCACATTTAGATAGTCCTGAT
1 GGACTTC-CACATTTAGATAGTCTTGAT
*
5065631 GAACTTCCCACAT
1 GGACTT-CCACAT
5065644 ATCATATATT
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
27 18 0.23
28 59 0.75
29 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (27 bp):
GGACTTCCACATTTAGATAGTCTTGAT
Found at i:5065701 original size:22 final size:22
Alignment explanation
Indices: 5065675--5065739 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 22
5065665 TGTCTTCCAT
*
5065675 ACGTCCCATAAAGGGCTCTCAT
1 ACGTCCCATAAAGGGCTCTCAA
* * *
5065697 GCGTCCTACATAAGGGGATCTCAA
1 ACGTCC--CATAAAGGGCTCTCAA
*
5065721 ACGTCCCTTAAAGGGCTCT
1 ACGTCCCATAAAGGGCTCT
5065740 ATATACTGGT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
22 15 0.45
24 18 0.55
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (22 bp):
ACGTCCCATAAAGGGCTCTCAA
Found at i:5082246 original size:21 final size:21
Alignment explanation
Indices: 5082212--5082253 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5082202 ATTATTCCTA
* *
5082212 TATTGTTCATTGAACGTTATT
1 TATTGATCACTGAACGTTATT
*
5082233 TATTGATCACTGAATGTTATT
1 TATTGATCACTGAACGTTATT
5082254 GGAATATGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (21 bp):
TATTGATCACTGAACGTTATT
Found at i:5085942 original size:15 final size:14
Alignment explanation
Indices: 5085918--5085949 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
5085908 CCACTCTTGG
5085918 TTTCTCTAACCCAA
1 TTTCTCTAACCCAA
5085932 TTTCTTCTAACCCAA
1 TTTC-TCTAACCCAA
5085947 TTT
1 TTT
5085950 TCAGGATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.25, C:0.31, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTCTCTAACCCAA
Found at i:5088668 original size:23 final size:25
Alignment explanation
Indices: 5088637--5088687 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
5088627 ATATTTTGAA
5088637 AAACATATAAAATTTATAA-TATAT
1 AAACATATAAAATTTATAAGTATAT
** *
5088661 AAAC-TATATTATTTATAAGTTTAT
1 AAACATATAAAATTTATAAGTATAT
5088685 AAA
1 AAA
5088688 AAATTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (25 bp):
AAACATATAAAATTTATAAGTATAT
Found at i:5095795 original size:18 final size:19
Alignment explanation
Indices: 5095759--5095796 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
5095749 TCATCACATG
*
5095759 TTTTAAAAAAAATTTAAAT
1 TTTTAAAAAAAATTGAAAT
5095778 TTTTAAAAAAAA-TGAAAT
1 TTTTAAAAAAAATTGAAAT
5095796 T
1 T
5095797 ATAATAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
TTTTAAAAAAAATTGAAAT
Found at i:5102112 original size:2 final size:2
Alignment explanation
Indices: 5102105--5102135 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5102095 GATGATTGTT
5102105 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
5102136 TAAAGTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:5102289 original size:23 final size:23
Alignment explanation
Indices: 5102259--5102309 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
5102249 TTTTCATCCA
*
5102259 TGCAAGTGATTGTGACACTTTAG
1 TGCAAGTGATAGTGACACTTTAG
* *
5102282 TGCAAGTGATAGTGGCACTTTGG
1 TGCAAGTGATAGTGACACTTTAG
5102305 TGCAA
1 TGCAA
5102310 ATTATTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (23 bp):
TGCAAGTGATAGTGACACTTTAG
Found at i:5121527 original size:71 final size:69
Alignment explanation
Indices: 5121413--5121555 Score: 250
Period size: 71 Copynumber: 2.0 Consensus size: 69
5121403 AACTCTTCAA
*
5121413 TTACCAATCTTACCTATGCTATAATGCATTAAAACTTATCATTTTATATACACGTGAGCATTATA
1 TTACCAATCTTACCTATGCTATAATGCATTAAAACTTATCATTTTATATACACGTGAACATTATA
5121478 TACC
66 TACC
*
5121482 TTACCAATCTTACCTATATGCTATAATGCATTAAAACTTATCATTTTATATACATGTGAACATTA
1 TTACCAATCTTACC--TATGCTATAATGCATTAAAACTTATCATTTTATATACACGTGAACATTA
5121547 TATACC
64 TATACC
5121553 TTA
1 TTA
5121556 ATGATTTAAG
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
69 14 0.20
71 56 0.80
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.39
Consensus pattern (69 bp):
TTACCAATCTTACCTATGCTATAATGCATTAAAACTTATCATTTTATATACACGTGAACATTATA
TACC
Found at i:5123083 original size:15 final size:15
Alignment explanation
Indices: 5123058--5123092 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
5123048 GACTCTATTT
*
5123058 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
5123072 TAATTAATATTAAGA
1 TAATTAATATTAAGA
5123087 TAATTA
1 TAATTA
5123093 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:5126285 original size:64 final size:64
Alignment explanation
Indices: 5126201--5126377 Score: 249
Period size: 64 Copynumber: 2.8 Consensus size: 64
5126191 ATATATATTT
*
5126201 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
*
5126265 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
*
5126329 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
5126378 GAATGTTTGT
Statistics
Matches: 105, Mismatches: 3, Indels: 12
0.88 0.03 0.10
Matches are distributed among these distances:
61 1 0.01
62 14 0.13
63 4 0.04
64 75 0.71
65 11 0.10
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:5126556 original size:41 final size:41
Alignment explanation
Indices: 5126496--5126859 Score: 518
Period size: 41 Copynumber: 8.9 Consensus size: 41
5126486 TATATGAGAT
* * *
5126496 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
* *
5126537 TTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGGA-TA
1 TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
* * *
5126577 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
* *
5126618 TTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
* * *
5126659 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
*
5126700 TTT-AGACTTTATGTCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
* * *
5126740 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
*
5126781 TTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
* *
5126822 ATTCCGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAA
1 TTTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTGAA
5126860 ATGAATCGGG
Statistics
Matches: 285, Mismatches: 35, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
40 71 0.25
41 211 0.74
42 3 0.01
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.35
Consensus pattern (41 bp):
TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
Found at i:5126728 original size:122 final size:122
Alignment explanation
Indices: 5126496--5126859 Score: 534
Period size: 122 Copynumber: 3.0 Consensus size: 122
5126486 TATATGAGAT
*
5126496 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
1 TTTCAGACTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
* * * *
5126561 TTGATGCCGGTGGA-TATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
66 TTGATGCCGGTGAATTATTT-AGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
* * * * * * * *
5126618 TTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGC
1 TTTCAGACTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
*
5126683 TTGATGCCGGTGAATTATTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGGATTA
66 TTGATGCCGGTGAATTATTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
*
5126740 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
1 TTTCAGACTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
**
5126805 TTGATGCCGGTGAATTAATTCCGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAA
66 TTGATGCCGGTGAATT-ATTTAGACTTTATGTCTAGCAGGC-TTGATGCCGGTGAA
5126860 ATGAATCGGG
Statistics
Matches: 213, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
122 174 0.82
123 36 0.17
124 3 0.01
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.35
Consensus pattern (122 bp):
TTTCAGACTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
TTGATGCCGGTGAATTATTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
Found at i:5126888 original size:82 final size:82
Alignment explanation
Indices: 5126496--5126859 Score: 644
Period size: 81 Copynumber: 4.5 Consensus size: 82
5126486 TATATGAGAT
5126496 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
5126561 TTGATGCCGGTGGA-TA
66 TTGATGCCGGTGGATTA
5126577 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
5126642 TTGATGCCGGTGGATTA
66 TTGATGCCGGTGGATTA
5126659 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA-TTTAGACTTTATGTCTAGCAGGC
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
5126723 TTGATGCCGGTGGATTA
66 TTGATGCCGGTGGATTA
5126740 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
*
5126805 TTGATGCCGGTGAATTA
66 TTGATGCCGGTGGATTA
* * * * *
5126822 ATTCCGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAA
1 TTTCAGGCTTAATGCCTAGCAGGC-TTGATGCCGGTGAA
5126860 ATGAATCGGG
Statistics
Matches: 274, Mismatches: 6, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
81 160 0.58
82 111 0.41
83 3 0.01
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.35
Consensus pattern (82 bp):
TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
TTGATGCCGGTGGATTA
Found at i:5127588 original size:14 final size:15
Alignment explanation
Indices: 5127564--5127598 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
5127554 TACTTTAATC
5127564 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
5127579 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
5127594 ATGGT
1 ATGGT
5127599 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:5132944 original size:64 final size:64
Alignment explanation
Indices: 5132860--5133036 Score: 249
Period size: 64 Copynumber: 2.8 Consensus size: 64
5132850 ATATATATTT
*
5132860 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
*
5132924 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
*
5132988 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
5133037 GAATGTTTGT
Statistics
Matches: 105, Mismatches: 3, Indels: 12
0.88 0.03 0.10
Matches are distributed among these distances:
61 1 0.01
62 14 0.13
63 4 0.04
64 75 0.71
65 11 0.10
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:5133265 original size:41 final size:41
Alignment explanation
Indices: 5133155--5133556 Score: 508
Period size: 41 Copynumber: 9.9 Consensus size: 41
5133145 TATATGAGAT
* *
5133155 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG-ATTA
1 TTTCAGACTTTATGCCTAGCAGGCTTGATGCCGGTGAATTA
* *
5133195 TTT-AGAC-TTATGTCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGACTTTATGCCTAGCAGGCTTGATGCCGGTGAATTA
* *
5133234 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * *
5133275 TTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGACTTTATGCCTAGCAGGCTTGATGCCGGTGAATTA
* *
5133316 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * *
5133357 TTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGACTTTATGCCTAGCAGGCTTGATGCCGGTGAATTA
* *
5133398 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTATGCCTAGCAGGCTTGATGCCGGTGAATTA
* *
5133439 TTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * *
5133480 ATTCCGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGA
1 TTTCAGACTTTATGCCTAGCAGGC-TTGATGCCGGTG-AATTA
* * * * *
5133522 -ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTTCAGACTTTATGCCTAGCAGGCTTGATGCCGGTG
5133557 TTTTATATAG
Statistics
Matches: 315, Mismatches: 41, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
38 25 0.08
39 10 0.03
40 8 0.03
41 265 0.84
42 7 0.02
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (41 bp):
TTTCAGACTTTATGCCTAGCAGGCTTGATGCCGGTGAATTA
Found at i:5133556 original size:82 final size:82
Alignment explanation
Indices: 5133155--5133517 Score: 635
Period size: 82 Copynumber: 4.5 Consensus size: 82
5133145 TATATGAGAT
5133155 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG-ATTA-TTTAGAC-TTATGTCTAGCAGGC
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
5133217 TTGATGCCGGTGGATTA
66 TTGATGCCGGTGGATTA
5133234 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
5133299 TTGATGCCGGTGGATTA
66 TTGATGCCGGTGGATTA
5133316 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
5133381 TTGATGCCGGTGGATTA
66 TTGATGCCGGTGGATTA
5133398 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
*
5133463 TTGATGCCGGTGAATTA
66 TTGATGCCGGTGGATTA
* * * * *
5133480 ATTCCGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAA
1 TTTCAGGCTTAATGCCTAGCAGGC-TTGATGCCGGTGAA
5133518 ATGAATCGGG
Statistics
Matches: 274, Mismatches: 6, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
79 36 0.13
80 4 0.01
81 7 0.03
82 224 0.82
83 3 0.01
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.35
Consensus pattern (82 bp):
TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGC
TTGATGCCGGTGGATTA
Found at i:5134246 original size:14 final size:15
Alignment explanation
Indices: 5134222--5134256 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
5134212 TACTTTAATC
5134222 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
5134237 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
5134252 ATGGT
1 ATGGT
5134257 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:5134719 original size:27 final size:26
Alignment explanation
Indices: 5134686--5134744 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
5134676 GTACATAATT
5134686 AGGAAGCCCTC-TCTCGAGCTATATAAC
1 AGGAAG-CCTCATCT-GAGCTATATAAC
*
5134713 AGGAAG-CTCATGTGAGCTATATAAC
1 AGGAAGCCTCATCTGAGCTATATAAC
*
5134738 GGGAAGC
1 AGGAAGC
5134745 TTACCCGGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 20 0.71
26 2 0.07
27 6 0.21
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (26 bp):
AGGAAGCCTCATCTGAGCTATATAAC
Found at i:5134953 original size:26 final size:26
Alignment explanation
Indices: 5134881--5134955 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
5134871 AGCAAGCTAC
* *
5134881 ATCGGGAAGCTC-TGGAGAGCCATTA
1 ATCGGGAAGCTCACGAAGAGCCATTA
* * * *
5134906 ATCAGGAAGCTCACAAAAAGCCTTTA
1 ATCGGGAAGCTCACGAAGAGCCATTA
5134932 ATCGGGAAGCTCACGAAGAGCCAT
1 ATCGGGAAGCTCACGAAGAGCCAT
5134956 ATAACAAGAC
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
25 11 0.28
26 28 0.72
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
ATCGGGAAGCTCACGAAGAGCCATTA
Found at i:5136009 original size:16 final size:13
Alignment explanation
Indices: 5135975--5136002 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5135965 TTTTATTTTA
5135975 TTATTTATCATCT
1 TTATTTATCATCT
5135988 TTATTTATCATCT
1 TTATTTATCATCT
5136001 TT
1 TT
5136003 CCAATTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:5149843 original size:35 final size:33
Alignment explanation
Indices: 5149795--5149878 Score: 89
Period size: 34 Copynumber: 2.5 Consensus size: 33
5149785 ATAACTCATA
5149795 TTAAGTAATTAATTTTCAGTA-ATATACTAAAAAAT
1 TTAA-TAATTAATTTT-AGTACATATA-TAAAAAAT
* * *
5149830 TTAATAATATAATTTTGGTACTTATATTAAAAAT
1 TTAATAAT-TAATTTTAGTACATATATAAAAAAT
*
5149864 TTAATACTTAATTTT
1 TTAATAATTAATTTT
5149879 TAAAAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
33 7 0.16
34 21 0.49
35 15 0.35
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (33 bp):
TTAATAATTAATTTTAGTACATATATAAAAAAT
Found at i:5153916 original size:42 final size:42
Alignment explanation
Indices: 5153744--5153937 Score: 192
Period size: 43 Copynumber: 4.5 Consensus size: 42
5153734 CCGGAAAAAG
* * *
5153744 CGCCGCTAAAGACCACAACCTTTAACGGCGCTTCTCCCACAAA
1 CGCCGCTAAA-ACCATAACCTTTAGCGGCGCTTCTACCACAAA
* * * * *
5153787 CGCCACTATAAACCATGACCTTTCGCGGCGCTTTTATCACAAA
1 CGCCGCTA-AAACCATAACCTTTAGCGGCGCTTCTACCACAAA
* * *
5153830 CGCCGCTATAAACCATGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTA-AAACCATAACCTTTAGCGGCGCTTCTACCACAAA
* * * *
5153873 CGCCGCTAAAGAACA-AACCTTTAGTGGCGCTTCTAGCAAAAA
1 CGCCGCTAAA-ACCATAACCTTTAGCGGCGCTTCTACCACAAA
* *
5153915 CGCCGCTAAAAACATAATCTTTA
1 CGCCGCTAAAACCATAACCTTTA
5153938 AAAAAAATTA
Statistics
Matches: 128, Mismatches: 20, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
41 4 0.03
42 40 0.31
43 82 0.64
44 2 0.02
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.22
Consensus pattern (42 bp):
CGCCGCTAAAACCATAACCTTTAGCGGCGCTTCTACCACAAA
Found at i:5155239 original size:3 final size:3
Alignment explanation
Indices: 5155231--5155279 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
5155221 TACATCAATA
5155231 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
5155279 A
1 A
5155280 GAACGATATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ACT
Found at i:5157633 original size:41 final size:40
Alignment explanation
Indices: 5157584--5157680 Score: 140
Period size: 41 Copynumber: 2.4 Consensus size: 40
5157574 AAAACTAATT
*
5157584 AATTTAAACCCTAAACCCTAACCCAACCCTTAAATCCCTA
1 AATTTAAACCCTAAACACTAACCCAACCCTTAAATCCCTA
* * *
5157624 AATTCTAAACCCCAAACACTAACTCGACCCTTAAATCCCTA
1 AATT-TAAACCCTAAACACTAACCCAACCCTTAAATCCCTA
5157665 AATTTTAAACCCTAAA
1 AA-TTTAAACCCTAAA
5157681 TAACTAACTC
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 4 0.08
41 44 0.88
42 2 0.04
ACGTcount: A:0.41, C:0.34, G:0.01, T:0.24
Consensus pattern (40 bp):
AATTTAAACCCTAAACACTAACCCAACCCTTAAATCCCTA
Found at i:5157722 original size:14 final size:14
Alignment explanation
Indices: 5157685--5157711 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5157675 CCTAAATAAC
5157685 TAACTCTTAACCCA
1 TAACTCTTAACCCA
5157699 TAACTCTTAACCC
1 TAACTCTTAACCC
5157712 TTAAACCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (14 bp):
TAACTCTTAACCCA
Found at i:5157731 original size:21 final size:20
Alignment explanation
Indices: 5157707--5157747 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
5157697 CATAACTCTT
*
5157707 AACCCTTAAACCTTAAATCCC
1 AACCCTTAAACCAT-AATCCC
5157728 AACCCTTAAACCATAATCCC
1 AACCCTTAAACCATAATCCC
5157748 TAAATCCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (20 bp):
AACCCTTAAACCATAATCCC
Found at i:5158028 original size:14 final size:14
Alignment explanation
Indices: 5158009--5158136 Score: 91
Period size: 14 Copynumber: 9.1 Consensus size: 14
5157999 ACTAGTTAAT
*
5158009 CTAAACCCTAAACC
1 CTAAACCTTAAACC
*
5158023 CTAAA-CTTAAACT
1 CTAAACCTTAAACC
5158036 CTAAAACCTTAAACC
1 CT-AAACCTTAAACC
* *
5158051 CTTAACACAT-AACC
1 CTAAAC-CTTAAACC
5158065 TCTAAACCTTAAACC
1 -CTAAACCTTAAACC
* *
5158080 C-CAGCCTTTAAACC
1 CTAAACC-TTAAACC
* *
5158094 ATAAACCGTAAACC
1 CTAAACCTTAAACC
* *
5158108 GTAAACCATAAACC
1 CTAAACCTTAAACC
* *
5158122 ATAACCCTTAAACC
1 CTAAACCTTAAACC
5158136 C
1 C
5158137 ATAATCCACA
Statistics
Matches: 88, Mismatches: 19, Indels: 14
0.73 0.16 0.12
Matches are distributed among these distances:
13 11 0.12
14 54 0.61
15 23 0.26
ACGTcount: A:0.43, C:0.34, G:0.02, T:0.20
Consensus pattern (14 bp):
CTAAACCTTAAACC
Found at i:5158072 original size:8 final size:7
Alignment explanation
Indices: 5158010--5158135 Score: 62
Period size: 7 Copynumber: 17.9 Consensus size: 7
5158000 CTAGTTAATC
*
5158010 TAAACCC
1 TAAACCT
*
5158017 TAAACCC
1 TAAACCT
5158024 TAAA-CT
1 TAAACCT
5158030 TAAACTCT
1 TAAAC-CT
*
5158038 AAAACCT
1 TAAACCT
5158045 TAAACCCT
1 TAAA-CCT
*
5158053 T-AACACA
1 TAAAC-CT
5158060 T-AACCT
1 TAAACCT
5158066 CTAAACCT
1 -TAAACCT
5158074 TAAACC-
1 TAAACCT
** *
5158080 CCAGCCTT
1 TAAACC-T
*
5158088 TAAACCA
1 TAAACCT
*
5158095 TAAACCG
1 TAAACCT
*
5158102 TAAACCG
1 TAAACCT
*
5158109 TAAACCA
1 TAAACCT
*
5158116 TAAACCA
1 TAAACCT
*
5158123 TAACCCT
1 TAAACCT
5158130 TAAACC
1 TAAACC
5158136 CATAATCCAC
Statistics
Matches: 94, Mismatches: 17, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
6 10 0.11
7 66 0.70
8 18 0.19
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (7 bp):
TAAACCT
Found at i:5158075 original size:29 final size:27
Alignment explanation
Indices: 5158008--5158080 Score: 92
Period size: 29 Copynumber: 2.6 Consensus size: 27
5157998 CACTAGTTAA
* *
5158008 TCTAAACCCTAAACCCTAAACTTAAAC
1 TCTAAACCTTAAACCCTAAACATAAAC
*
5158035 TCTAAAACCTTAAACCCTTAACACATAACC
1 TCT-AAACCTTAAACCC-TAA-ACATAAAC
5158065 TCTAAACCTTAAACCC
1 TCTAAACCTTAAACCC
5158081 CAGCCTTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
27 3 0.08
28 12 0.30
29 16 0.40
30 9 0.22
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.23
Consensus pattern (27 bp):
TCTAAACCTTAAACCCTAAACATAAAC
Found at i:5158152 original size:22 final size:21
Alignment explanation
Indices: 5158039--5158155 Score: 85
Period size: 21 Copynumber: 5.5 Consensus size: 21
5158029 TTAAACTCTA
* *
5158039 AAACCTTAAACCCTTAA-CAC
1 AAACCTTAAACCATAAACCAC
*
5158059 ATAACCTCTAAACCTTAAACC-C
1 A-AACCT-TAAACCATAAACCAC
* * **
5158081 CAGCCTTTAAACCATAAACCGT
1 AAACC-TTAAACCATAAACCAC
* *
5158103 AAACCGTAAACCATAAACCAT
1 AAACCTTAAACCATAAACCAC
* *
5158124 AACCCTTAAACCCATAATCCAC
1 AAACCTTAAA-CCATAAACCAC
5158146 AAACCTTAAA
1 AAACCTTAAA
5158156 ATGGTAACAC
Statistics
Matches: 76, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
20 1 0.01
21 42 0.55
22 32 0.42
23 1 0.01
ACGTcount: A:0.44, C:0.33, G:0.03, T:0.20
Consensus pattern (21 bp):
AAACCTTAAACCATAAACCAC
Found at i:5158425 original size:40 final size:40
Alignment explanation
Indices: 5158368--5158444 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
5158358 TTAAATCCCT
*
5158368 GAGCATTAGCGGCGCTTTTTAAAAAACACCGCTAAAAATA
1 GAGCATTAGCGGCGCTTTATAAAAAACACCGCTAAAAATA
* * * *
5158408 GAGCATTCGCGGTGCTTTATCAAAAACGCCGCTAAAA
1 GAGCATTAGCGGCGCTTTATAAAAAACACCGCTAAAA
5158445 GCCCTGAGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.22
Consensus pattern (40 bp):
GAGCATTAGCGGCGCTTTATAAAAAACACCGCTAAAAATA
Found at i:5158498 original size:41 final size:41
Alignment explanation
Indices: 5158359--5158617 Score: 297
Period size: 41 Copynumber: 6.3 Consensus size: 41
5158349 TAAAATATTT
* *** *
5158359 TAAATCCCTGAGCATTAGCGGCGCTTTTTAAAAAACACCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
** * * **
5158400 TAAA--AATAGAGCATTCGCGGTGCTTTATCAAAAACGCCGC
1 TAAAGCCCT-GAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
* * *
5158440 TAAAAGCCCTGAGCATTAGCGACGCTATCCCAAAAACGTCGC
1 T-AAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
*
5158482 TAAAGCCCTGAGCATTAGCGGCGCTTCCCCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
*
5158523 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACACCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
* * * * *
5158564 TAAAGCCCTGACCATTAGCGGCACTTTTCCAAAAATGCCAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
5158605 TAAAGCCCTGAGC
1 TAAAGCCCTGAGC
5158618 TTTCTGGGAA
Statistics
Matches: 185, Mismatches: 29, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 28 0.15
41 129 0.70
42 26 0.14
43 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (41 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
Found at i:5158697 original size:40 final size:40
Alignment explanation
Indices: 5158629--5158731 Score: 145
Period size: 40 Copynumber: 2.6 Consensus size: 40
5158619 TTCTGGGAAA
* *
5158629 CGCCACTAATGCTTG-TTTTTAGCTGCGTTTTTCATAAAG
1 CGCCACTAATGCTTGATTTTTAGCAGCGTTTTTCAAAAAG
* * *
5158668 CGCCACTAATACTCGATCTTTAGCAGCGTTTTTCAAAAAG
1 CGCCACTAATGCTTGATTTTTAGCAGCGTTTTTCAAAAAG
*
5158708 CGCCGCTAATGCTTGATTTTTAGC
1 CGCCACTAATGCTTGATTTTTAGC
5158732 GACGTTATTT
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 13 0.24
40 41 0.76
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (40 bp):
CGCCACTAATGCTTGATTTTTAGCAGCGTTTTTCAAAAAG
Found at i:5164897 original size:33 final size:32
Alignment explanation
Indices: 5164855--5165001 Score: 88
Period size: 33 Copynumber: 4.4 Consensus size: 32
5164845 GTGGATTCGG
5164855 CACTTAGCAACCACCAGTGATTCGGGGAATCAA
1 CACTTAGCAACCACCA-TGATTCGGGGAATCAA
* * * *
5164888 CACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAG
1 CACTTAGCAA--CC--AC-CA--T--GATTCGG-GGAATCAA
* *
5164930 CACTTAGCAACCACCAATGAGTCGGGGAATCAG
1 CACTTAGCAACCACC-ATGATTCGGGGAATCAA
*
5164963 CACTTAGCAACC-CC----TTGGGGGAATCAA
1 CACTTAGCAACCACCATGATTCGGGGAATCAA
5164990 CACTTAGCAACC
1 CACTTAGCAACC
5165002 CCCTTCACAT
Statistics
Matches: 92, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
27 22 0.24
32 2 0.02
33 29 0.32
34 5 0.05
35 2 0.02
36 1 0.01
37 2 0.02
38 4 0.04
39 1 0.01
40 2 0.02
41 6 0.07
42 16 0.17
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (32 bp):
CACTTAGCAACCACCATGATTCGGGGAATCAA
Found at i:5165061 original size:102 final size:102
Alignment explanation
Indices: 5164878--5165077 Score: 337
Period size: 102 Copynumber: 2.0 Consensus size: 102
5164868 CCAGTGATTC
* * *
5164878 GGGGAATCAACACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
* *
5164943 CCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAGTCGAGGAATCAGCACTTAGAAACCCCTTG
*
5164980 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGTAACCA
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
5165045 CCAATGATTCGAGGAATCAGCACTTAGAAACCC
66 CCAATGAGTCGAGGAATCAGCACTTAGAAACCC
5165078 TTTTTATATT
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 91 1.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (102 bp):
GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAGTCGAGGAATCAGCACTTAGAAACCCCTTG
Found at i:5166418 original size:28 final size:28
Alignment explanation
Indices: 5166337--5166418 Score: 103
Period size: 28 Copynumber: 2.9 Consensus size: 28
5166327 AAAATAGCCT
*
5166337 TGACGGATTTCCACTTATAATATAGTTC
1 TGACGGATTTCCACTTATAATATAGTCC
* * *
5166365 TGACAGACTTCCA-TATATAAGATAGTCC
1 TGACGGATTTCCACT-TATAATATAGTCC
*
5166393 TGATGGATTTCCACTTATAATATAGT
1 TGACGGATTTCCACTTATAATATAGT
5166419 TCTAACGAAC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
27 1 0.02
28 42 0.95
29 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.37
Consensus pattern (28 bp):
TGACGGATTTCCACTTATAATATAGTCC
Found at i:5166461 original size:56 final size:54
Alignment explanation
Indices: 5166345--5166518 Score: 172
Period size: 56 Copynumber: 3.1 Consensus size: 54
5166335 CTTGACGGAT
* * * *
5166345 TTCCACTTATAATATAGTTCTGACAGAC-TTCCATATATAAGATAGTCCTGATGGAT
1 TTCCACTTATAATATAGTTCTGACA-ACTTTCCAT-T-TAAGATAGTCCTAACGAAC
* *
5166401 TTCCACTTATAATATAGTTCTAACGAACTTTCGCATTTAAGATAGTCTTAACGAAC
1 TTCCACTTATAATATAGTTCTGAC-AACTTTC-CATTTAAGATAGTCCTAACGAAC
* * * *
5166457 TTCCACATATAAAATAG-TCTTGACAAATTTCAACATATAAGATAGTCCTAACGAAC
1 TTCCACTTATAATATAGTTC-TGACAACTTTC--CATTTAAGATAGTCCTAACGAAC
5166513 TTCCAC
1 TTCCAC
5166519 ATTTACAGTA
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
55 8 0.08
56 84 0.84
57 5 0.05
58 3 0.03
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (54 bp):
TTCCACTTATAATATAGTTCTGACAACTTTCCATTTAAGATAGTCCTAACGAAC
Found at i:5166473 original size:28 final size:28
Alignment explanation
Indices: 5166371--5166520 Score: 131
Period size: 28 Copynumber: 5.4 Consensus size: 28
5166361 GTTCTGACAG
* * * * *
5166371 ACTTCCATATATAAGATAGTCCTGATGG
1 ACTTCCACATATAAGATAGTCTTAACGA
* * *
5166399 ATTTCCACTTATAATATAGT-TCTAACGA
1 ACTTCCACATATAAGATAGTCT-TAACGA
* * *
5166427 ACTTTCGCATTTAAGATAGTCTTAACGA
1 ACTTCCACATATAAGATAGTCTTAACGA
* * *
5166455 ACTTCCACATATAAAATAGTCTTGACAA
1 ACTTCCACATATAAGATAGTCTTAACGA
* * *
5166483 ATTTCAACATATAAGATAGTCCTAACGA
1 ACTTCCACATATAAGATAGTCTTAACGA
5166511 ACTTCCACAT
1 ACTTCCACAT
5166521 TTACAGTAAT
Statistics
Matches: 92, Mismatches: 28, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
28 91 0.99
29 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.33
Consensus pattern (28 bp):
ACTTCCACATATAAGATAGTCTTAACGA
Found at i:5171683 original size:13 final size:14
Alignment explanation
Indices: 5171665--5171693 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5171655 ATAATTTAAT
5171665 AATAAAT-AAACAA
1 AATAAATAAAACAA
5171678 AATAAATAAAACAA
1 AATAAATAAAACAA
5171692 AA
1 AA
5171694 ATCACATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (14 bp):
AATAAATAAAACAA
Found at i:5180842 original size:31 final size:32
Alignment explanation
Indices: 5180781--5180842 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
5180771 AATCATTTCA
** **
5180781 ACTCTTTTTCAAAAGGTTGATGGTTTAATTTG
1 ACTCTTTTTCAAAAGGTTGATAATCAAATTTG
5180813 ACTCTTTTT-AAAAGGTTGATAATCAAATTT
1 ACTCTTTTTCAAAAGGTTGATAATCAAATTT
5180843 AACTAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.45
Consensus pattern (32 bp):
ACTCTTTTTCAAAAGGTTGATAATCAAATTTG
Found at i:5182684 original size:305 final size:301
Alignment explanation
Indices: 5182122--5182686 Score: 764
Period size: 305 Copynumber: 1.9 Consensus size: 301
5182112 GTGGAGAAAT
*
5182122 ACACAAATTTTATTTATCTCTGTTATTTTTTAAAGAAATAGAAGATAATTTAAAATTATAAATAC
1 ACACAAATTTTATTTACCTCTGTTATTTTTTAAAGAAATAGAAGATAATTTAAAATTATAAATAC
* * ** *
5182187 ATTATTTAAGATAAATATAAAATATTCAAATGAAAAAAATGTGATCTTAATAAAAATTTTAATTA
66 ATTATTTAAGAGAAATATAAAATATTCAAATAAAAAAAACCTGATCTTAATAAAAATTTAAATTA
* *
5182252 TATTTTGATTTTATATTTAAATTTAGTTAATTTGATTATATAGTTGACGTTTTTAATACTTATTT
131 TATTTTGATTTTATATTTAAATTTAGTTAATTTGATTATATAGTTGACATTTTTAATAATTATTT
* * *
5182317 TTTTAAAAAAATTACAAAATGACTTATTTTTAAACTTTTTTATATCCCAATTTATTTAAATTTCT
196 TTTTAAAAAAATTACAAAATGACTTATTTTTAAACTTTTTTATATACAAATTTATCTAAATTTCT
5182382 TATCATTAGAAAAAAAAATGCGATTAGACGTGCAAAAAGAC
261 TATCATTAGAAAAAAAAATGCGATTAGACGTGCAAAAAGAC
* *
5182423 ACACAAATTTTATTTACCTCTGTTATTACTTTTTAAA-AAATAGGAGATAATTTAAAATTTTAAA
1 ACACAAATTTTATTTACCTCTGTTA-T--TTTTTAAAGAAATAGAAGATAATTTAAAATTATAAA
* ** * *
5182487 TTCATTATTTGGGAGAAATATAAAATATTCAAATAAAAAACAAACCTGATCTCT-GTAAAAGTTT
63 TACATTATTTAAGAGAAATATAAAATATTCAAAT-AAAAA-AAACCTGATCT-TAATAAAAATTT
* * * *
5182551 AAATTATATTTTTATTTTTATTTTTATATTTAGTTAATTTGATTATATAGTT-ATATTTTTAATA
125 AAATTATATTTTGA-TTTTATATTTAAATTTAGTTAATTTGATTATATAGTTGACATTTTTAATA
** * *
5182615 ATTA-TTTTTTAAAAAAAGTATACAAAATGA-TTCATTTTTTTA-TTTTTTATATATAAATTTGT
189 ATTATTTTTTTAAAAAAA-T-TACAAAATGACTT-ATTTTTAAACTTTTTTATATACAAATTTAT
5182677 CTAAATTTCT
251 CTAAATTTCT
5182687 AAATTATATA
Statistics
Matches: 228, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
301 24 0.11
302 1 0.00
303 55 0.24
304 25 0.11
305 70 0.31
306 53 0.23
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (301 bp):
ACACAAATTTTATTTACCTCTGTTATTTTTTAAAGAAATAGAAGATAATTTAAAATTATAAATAC
ATTATTTAAGAGAAATATAAAATATTCAAATAAAAAAAACCTGATCTTAATAAAAATTTAAATTA
TATTTTGATTTTATATTTAAATTTAGTTAATTTGATTATATAGTTGACATTTTTAATAATTATTT
TTTTAAAAAAATTACAAAATGACTTATTTTTAAACTTTTTTATATACAAATTTATCTAAATTTCT
TATCATTAGAAAAAAAAATGCGATTAGACGTGCAAAAAGAC
Found at i:5189146 original size:27 final size:28
Alignment explanation
Indices: 5189092--5189152 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
5189082 ACACAATTTT
* *
5189092 AATTT-TTAATTTTAAAATTTGAATTTA
1 AATTTATTAATTTCAAAATTTGAACTTA
*
5189119 AATTTATTAATTTCAATATTT-AACTTA
1 AATTTATTAATTTCAAAATTTGAACTTA
*
5189146 AAGTTAT
1 AATTTAT
5189153 AAATCTCATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (28 bp):
AATTTATTAATTTCAAAATTTGAACTTA
Found at i:5190047 original size:20 final size:20
Alignment explanation
Indices: 5190024--5190061 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5190014 AAAACTTAAG
5190024 TATATTTTTAAA-ATTGTTCA
1 TATA-TTTTAAATATTGTTCA
5190044 TATATTTTAAATATTGTT
1 TATATTTTAAATATTGTT
5190062 TTATCAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (20 bp):
TATATTTTAAATATTGTTCA
Found at i:5190110 original size:17 final size:17
Alignment explanation
Indices: 5190067--5190110 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
5190057 TTGTTTTATC
* *
5190067 AATAATTTTATTTTACT
1 AATAATTTTATTTAAAT
*
5190084 -ATATTTTTATTTAAAT
1 AATAATTTTATTTAAAT
5190100 AATAATTTTAT
1 AATAATTTTAT
5190111 AAAACACGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
AATAATTTTATTTAAAT
Found at i:5190643 original size:15 final size:17
Alignment explanation
Indices: 5190609--5190645 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
5190599 TATCCTCTTA
5190609 ATTTACCTTAAATAATT
1 ATTTACCTTAAATAATT
*
5190626 ATTTA-CTTATAT-ATT
1 ATTTACCTTAAATAATT
5190641 ATTTA
1 ATTTA
5190646 TATAATTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 6 0.32
17 5 0.26
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTACCTTAAATAATT
Found at i:5190959 original size:20 final size:21
Alignment explanation
Indices: 5190916--5190959 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
5190906 TATGTTATTA
*
5190916 TTATTTGATTTCACTTTTTGG
1 TTATTTGATTTCACTATTTGG
5190937 TTATTT-ATTTCA-TATTTGTG
1 TTATTTGATTTCACTATTTG-G
5190957 TTA
1 TTA
5190960 GGTTAATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 10 0.48
21 6 0.29
ACGTcount: A:0.18, C:0.07, G:0.11, T:0.64
Consensus pattern (21 bp):
TTATTTGATTTCACTATTTGG
Found at i:5198099 original size:11 final size:11
Alignment explanation
Indices: 5198085--5198139 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
5198075 AGATAAATAT
5198085 TATTTTATTAA
1 TATTTTATTAA
*
5198096 TATTTTAATGAGA
1 TATTTT-ATTA-A
*
5198109 TATTTTATTAT
1 TATTTTATTAA
**
5198120 TATTTTATTGT
1 TATTTTATTAA
5198131 TATTTTATT
1 TATTTTATT
5198140 TAGTATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
11 25 0.66
12 6 0.16
13 7 0.18
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:5199805 original size:26 final size:25
Alignment explanation
Indices: 5199768--5199816 Score: 89
Period size: 26 Copynumber: 1.9 Consensus size: 25
5199758 ACATACCACA
5199768 GCTCTTATGAGCTTCCCGATATATG
1 GCTCTTATGAGCTTCCCGATATATG
5199793 GCTCTTCATGAGCTTCCCGATATA
1 GCTCTT-ATGAGCTTCCCGATATA
5199817 GCTCGCTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (25 bp):
GCTCTTATGAGCTTCCCGATATATG
Found at i:5216210 original size:6 final size:6
Alignment explanation
Indices: 5216199--5216249 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
5216189 GATTGGAGGG
* * * *
5216199 AAAGAA AAAGAA AAAAAA AAAGAA AATGAA AGAGAA AGAGGAA AAA-AA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA A-AAGAA AAAGAA
5216247 AAA
1 AAA
5216250 ACAAAGTTCT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
5 5 0.14
6 27 0.75
7 4 0.11
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:5247366 original size:22 final size:22
Alignment explanation
Indices: 5247338--5247381 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
5247328 AAATAAGAAG
5247338 AAGAATAAACATCATATGCAAT
1 AAGAATAAACATCATATGCAAT
5247360 AAGAATAAACATCATATGCAAT
1 AAGAATAAACATCATATGCAAT
5247382 TTTATCTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.14, G:0.09, T:0.23
Consensus pattern (22 bp):
AAGAATAAACATCATATGCAAT
Found at i:5251650 original size:44 final size:43
Alignment explanation
Indices: 5251595--5251735 Score: 165
Period size: 44 Copynumber: 3.2 Consensus size: 43
5251585 AGTTGTTAAA
*
5251595 TGGTAAGAAATGAACATGCATTATAATTGTTTGATTGGTTGTCT
1 TGGTAAGAAATGAACATGCATTATAATTGTTTGATTGATTGT-T
* * * *
5251639 TGGTAATAAATGAACACGCATTATAAATGTTTGGTTGATTGTT
1 TGGTAAGAAATGAACATGCATTATAATTGTTTGATTGATTGTT
* * * * *
5251682 TGGCAAGAAATGGACATGTAATATAATTGTCTTGGTTGATTGTT
1 TGGTAAGAAATGAACATGCATTATAATTGT-TTGATTGATTGTT
5251726 TAGGTAAGAA
1 T-GGTAAGAA
5251736 TTTCAATGGT
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
43 24 0.29
44 51 0.62
45 7 0.09
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (43 bp):
TGGTAAGAAATGAACATGCATTATAATTGTTTGATTGATTGTT
Found at i:5255679 original size:16 final size:16
Alignment explanation
Indices: 5255660--5255694 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
5255650 ATATATTGTT
5255660 ATATTATATTATTATA
1 ATATTATATTATTATA
*
5255676 ATATTATATTATTGTA
1 ATATTATATTATTATA
5255692 ATA
1 ATA
5255695 ATAAAACAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
ATATTATATTATTATA
Done.