Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006981.1 Hibiscus syriacus cultivar Beakdansim tig00017984_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 188633
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:5998 original size:25 final size:25
Alignment explanation
Indices: 5969--6018 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
5959 GGTTGGGTCG
5969 ACTGGGTTGATGTTATACTTGGGCT
1 ACTGGGTTGATGTTATACTTGGGCT
* *
5994 ACTGGGTTGATGTTGTAGTTGGGCT
1 ACTGGGTTGATGTTATACTTGGGCT
6019 CCATTCGAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.14, C:0.10, G:0.36, T:0.40
Consensus pattern (25 bp):
ACTGGGTTGATGTTATACTTGGGCT
Found at i:6072 original size:3 final size:3
Alignment explanation
Indices: 6051--6089 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
6041 TAATTAAATG
6051 ATA AT- ATA ATA CA-A ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6090 ATACTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 3 0.09
3 29 0.88
4 1 0.03
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6622 original size:130 final size:129
Alignment explanation
Indices: 6277--6634 Score: 382
Period size: 130 Copynumber: 2.8 Consensus size: 129
6267 GTTATGGTCG
* * *
6277 TCTAAGGGTGACATGGCTTCTACATGATGAGGA-GTTCTGGTCGGTGGATGACAC-GATTCTTAC
1 TCTAAGGGTGACATGGCTCCTACGTGATGAGGAGGTT-TGGTCGGTGGATGACACAG-TTCCTAC
* ** * * *
6340 GCGATGAGGATGGCT-GGCCATCTTTAGCAGGGTGATAATGGTTCCTACGTGATGAGGACGGCTG
64 ACGATGAGGATGG-TAGGCCATCTTTAG--GGGTGATAACAGTTCCTACGTGATGACGACGACAG
6404 GTTA
126 GTTA
* * * * * *
6408 TATAGGGGTGACACGGCTCCTATGTGATGAGGAGGTATGGTCGGTGGATGACACAGTTCCTACAT
1 TCTAAGGGTGACATGGCTCCTACGTGATGAGGAGGTTTGGTCGGTGGATGACACAGTTCCTACAC
* * ** * *
6473 GATAAGGATAGTATACCATCTTTAGGGATGATAACACAGTT-CTACGTGATGCCGACGACAGGTT
66 GATGAGGATGGTAGGCCATCTTTAGGGGTGAT-A-ACAGTTCCTACGTGATGACGACGACAGGTT
6537 A
129 A
* * * * *
6538 TCTAAGGTTGGCATGGCTCCTACGTGATGAGGAGGTTTGGTTGGGGGATGACACAGTTCCTATAC
1 TCTAAGGGTGACATGGCTCCTACGTGATGAGGAGGTTTGGTCGGTGGATGACACAGTTCCTACAC
*
6603 AATGAGGATGGTAGGCCATCTTTAGGGGTGAT
66 GATGAGGATGGTAGGCCATCTTTAGGGGTGAT
6635 GTTTCAAGAG
Statistics
Matches: 184, Mismatches: 38, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
129 6 0.03
130 102 0.55
131 73 0.40
132 3 0.02
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (129 bp):
TCTAAGGGTGACATGGCTCCTACGTGATGAGGAGGTTTGGTCGGTGGATGACACAGTTCCTACAC
GATGAGGATGGTAGGCCATCTTTAGGGGTGATAACAGTTCCTACGTGATGACGACGACAGGTTA
Found at i:6770 original size:66 final size:65
Alignment explanation
Indices: 6634--6873 Score: 302
Period size: 66 Copynumber: 3.6 Consensus size: 65
6624 TTAGGGGTGA
* * * * *
6634 TGTTTCAAGAGAAACTGTCTTAAGGGAGACAAAACATTGTTTCAATGGAAACAAACTGAAAGATG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAA-GGAAACAGACTAAAAGATG
6699 GG
64 GG
* ** *
6701 TGTTTCAAGAGTAACTGTCTCAAGAGAGACAATTTTTTTTTCAAGGGAAACAGACTAAAAGATGG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAA-GGAAACAGACTAAAAGATGG
6766 G
65 G
* * * *
6767 TGTTTCAAGAGCAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAA-ATGATCTCAAACATA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAACA-GA-CTAAAAGATG
*
6831 AG
64 GG
6833 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTT
6874 TGAGAGAAAC
Statistics
Matches: 152, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
64 1 0.01
65 7 0.05
66 115 0.76
67 29 0.19
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAACAGACTAAAAGATGGG
Found at i:6824 original size:36 final size:36
Alignment explanation
Indices: 6767--7045 Score: 185
Period size: 36 Copynumber: 8.3 Consensus size: 36
6757 AAAAGATGGG
*
6767 TGTTTCAAGAGCAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
6803 TGTTTCAAG-GAAAATGATCTC---A-A-ACATAA-G
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
6833 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** *
6869 TGTTTTGAGAGAAACTGTCTCAAGAGAGATAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
6905 TGTTTCAAGAGAAAC-GACTC-A-A-AG----ATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
6933 GTGTTTCAAGAGAAACTGTCTCAAG-G-GACAAGAAACT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGAC-A-AAATT
* * * * * *
6970 TGTTGCAAGGGAATCAGACTC-A-A-AG---ATA-T
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
6999 T-TTTCAAGAGAAACTGTCTCAAGAGAGGCAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
7034 TTTTTCAAGAGA
1 TGTTTCAAGAGA
7046 GACAGACTCA
Statistics
Matches: 185, Mismatches: 29, Indels: 58
0.68 0.11 0.21
Matches are distributed among these distances:
28 17 0.09
29 18 0.10
30 20 0.11
31 15 0.08
32 3 0.02
33 3 0.02
34 4 0.02
35 18 0.10
36 85 0.46
37 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:6888 original size:102 final size:101
Alignment explanation
Indices: 6774--6957 Score: 289
Period size: 102 Copynumber: 1.8 Consensus size: 101
6764 GGGTGTTTCA
* *
6774 AGAGCAACTGTCTCAAGAGAGACAAAATTTGTTTCAAG-GAAAATGATCTCAAACATAAGTGTTT
1 AGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAG-AAACGA-CTCAAACATAAGTGTTT
6838 CAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTG
64 CAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTG
* * **
6876 AGAGAAACTGTCTCAAGAGAGATAAAATTTGTTTCAAGAGAAACGACTCAAAGATTTGTGTTTCA
1 AGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACGACTCAAACATAAGTGTTTCA
6941 AGAGAAACTGTCTCAAG
66 AGAGAAACTGTCTCAAG
6958 GGACAAGAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 33 0.44
102 41 0.55
103 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (101 bp):
AGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACGACTCAAACATAAGTGTTTCA
AGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTG
Found at i:6957 original size:167 final size:164
Alignment explanation
Indices: 6708--7038 Score: 418
Period size: 167 Copynumber: 2.0 Consensus size: 164
6698 GGGTGTTTCA
* ** * *
6708 AGAGTAACTGTCTCAAGAGAGACAATTTTTTTTTCAAGGGAAACAGACTAAAAGATGGGTGTTTC
1 AGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAGACTAAAAGATGGGTGTTTC
* * *
6773 AAGAGCAACTGTCTCAAGAGAGAC-A-AAATTTGTTTCAAGGAAA-ATGATCTCAAACATAAGTG
66 AAGAGAAACTGTCTCAAG-G-GACAAGAAACTTGTTGCAAGGAAATA-GA-CTCAAACAT-A-TG
6835 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTG
125 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT-TTTTG
* * **
6876 AGAGAAACTGTCTCAAGAGAGATAAAATTTGTTTCAAGAGAAAC-GACTCAAAGATTTGTGTTTC
1 AGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAGACTAAAAGATGGGTGTTTC
* * *
6940 AAGAGAAACTGTCTCAAGGGACAAGAAACTTGTTGCAAGGGAATCAGACTCAAAGATATTTTTCA
66 AAGAGAAACTGTCTCAAGGGACAAGAAACTTGTTGCAAGGAAAT-AGACTCAAACATATGTTTCA
*
7005 AGAGAAACTGTCTCAAGAGAGGCAAAATTTTTTT
130 AGAGAAACTGTCTCAAGAGAGACAAAATTTTTTT
7039 CAAGAGAGAC
Statistics
Matches: 143, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
164 4 0.03
165 38 0.27
166 3 0.02
167 57 0.40
168 40 0.28
169 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (164 bp):
AGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAGACTAAAAGATGGGTGTTTC
AAGAGAAACTGTCTCAAGGGACAAGAAACTTGTTGCAAGGAAATAGACTCAAACATATGTTTCAA
GAGAAACTGTCTCAAGAGAGACAAAATTTTTTTG
Found at i:6992 original size:101 final size:102
Alignment explanation
Indices: 6767--6992 Score: 244
Period size: 101 Copynumber: 2.2 Consensus size: 102
6757 AAAAGATGGG
* * * * *
6767 TGTTTCAAGAGCAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAATGATCTCAAACATAA
1 TGTTGCAAGAGAAACAGACTCAAGAGAGACAAAATTTGTTTCAAGGAAAACGATCTCAAACATAA
*
6832 GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
66 GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACT
*** * * * * *
6869 TGTTTTGAGAGAAACTGTCTCAAGAGAGATAAAATTTGTTTCAA-GAGAAACGA-CTCAAAGATT
1 TGTTGCAAGAGAAACAGACTCAAGAGAGACAAAATTTGTTTCAAGGA-AAACGATCTCAAACATA
*
6932 TGTGTTTCAAGAGAAACTGTCTCAAG-G-GACAAGAAACT
65 AGTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-A-AAACT
* *
6970 TGTTGCAAGGGAATCAGACTCAA
1 TGTTGCAAGAGAAACAGACTCAA
6993 AGATATTTTT
Statistics
Matches: 105, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
99 3 0.03
100 2 0.02
101 55 0.52
102 45 0.43
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (102 bp):
TGTTGCAAGAGAAACAGACTCAAGAGAGACAAAATTTGTTTCAAGGAAAACGATCTCAAACATAA
GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACT
Found at i:7021 original size:64 final size:65
Alignment explanation
Indices: 6876--7024 Score: 196
Period size: 65 Copynumber: 2.3 Consensus size: 65
6866 ATTTGTTTTG
* * * *
6876 AGAGAAACTGTCTCAAGAGAGATAAAATTTGTTTCAAGAGAAACGACTCAAAGATTTGTGTTTCA
1 AGAGAAACTGTCTCAAGAGACATAAAACTTGTTGCAAGAGAAACGACTCAAAGATATGTGTTTCA
* * *
6941 AGAGAAACTGTCTCAAGGGACA-AGAAACTTGTTGCAAGGGAATCAGACTCAAAGATAT-T-TTT
1 AGAGAAACTGTCTCAAGAGACATA-AAACTTGTTGCAAGAGAAAC-GACTCAAAGATATGTGTTT
7003 CA
64 CA
7005 AGAGAAACTGTCTCAAGAGA
1 AGAGAAACTGTCTCAAGAGA
7025 GGCAAAATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
64 25 0.34
65 37 0.50
66 12 0.16
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.24
Consensus pattern (65 bp):
AGAGAAACTGTCTCAAGAGACATAAAACTTGTTGCAAGAGAAACGACTCAAAGATATGTGTTTCA
Found at i:7052 original size:64 final size:65
Alignment explanation
Indices: 6876--7059 Score: 225
Period size: 64 Copynumber: 2.8 Consensus size: 65
6866 ATTTGTTTTG
* *
6876 AGAGAAACTGTCTCAAGAGAGATAAAATTTGTTTCAAGAGAA-ACGACTCAAAGATTTGTGTTTC
1 AGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAACA-GACTCAAAGATATGTGTTTC
6940 A
65 A
* * *
6941 AGAGAAACTGTCTCAAG-G-GACAAGAAACTTGTTGCAAGGGAATCAGACTCAAAGATAT-T-TT
1 AGAGAAACTGTCTCAAGAGAGAC-A-AAATTTGTTTCAAGAGAA-CAGACTCAAAGATATGTGTT
7002 TCA
63 TCA
* *
7005 AGAGAAACTGTCTCAAGAGAGGCAAAATTTTTTTCAAGAGAGACAGACTCAAAGA
1 AGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGA-ACAGACTCAAAGA
7060 CTTTTCTCTC
Statistics
Matches: 102, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
63 2 0.02
64 49 0.48
65 36 0.35
66 14 0.14
67 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (65 bp):
AGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAACAGACTCAAAGATATGTGTTTCA
Found at i:7235 original size:35 final size:35
Alignment explanation
Indices: 7196--7268 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
7186 TGTTTTGAAG
***
7196 AAATTATCTCAAACGAGACAAAATTTGTTTTTAGA
1 AAATTATCTCAAACGAGACAAAAAAAGTTTTTAGA
* *
7231 AAATTGTCTCAAGCGAGACAAAAAAAGTTTTTAGA
1 AAATTATCTCAAACGAGACAAAAAAAGTTTTTAGA
7266 AAA
1 AAA
7269 AATTGTCTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.29
Consensus pattern (35 bp):
AAATTATCTCAAACGAGACAAAAAAAGTTTTTAGA
Found at i:8519 original size:13 final size:13
Alignment explanation
Indices: 8503--8544 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
8493 TCTTATCTTC
8503 TTTTCTTTTGCTT
1 TTTTCTTTTGCTT
*
8516 TTTT-TCTTTGTTT
1 TTTTCT-TTTGCTT
8529 TTTTC-TTTGCTT
1 TTTTCTTTTGCTT
8541 TTTT
1 TTTT
8545 TTTCTTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.81
Consensus pattern (13 bp):
TTTTCTTTTGCTT
Found at i:8523 original size:22 final size:23
Alignment explanation
Indices: 8489--8559 Score: 74
Period size: 22 Copynumber: 3.1 Consensus size: 23
8479 TTTTTGCATG
* *
8489 TGCTTCTTATCTTCTTTTCT-TT
1 TGCTTTTTTTCTTCTTTTCTCTT
* *
8511 TGCTTTTTTTCTTTGTTTTTTTCTT
1 TGCTTTTTTTC-TT-CTTTTCTCTT
8536 TGCTTTTTTT-TTCTTTTCTCTT
1 TGCTTTTTTTCTTCTTTTCTCTT
8558 TG
1 TG
8560 TATTGATAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
22 19 0.47
23 4 0.10
24 5 0.12
25 12 0.30
ACGTcount: A:0.01, C:0.17, G:0.07, T:0.75
Consensus pattern (23 bp):
TGCTTTTTTTCTTCTTTTCTCTT
Found at i:8545 original size:13 final size:13
Alignment explanation
Indices: 8503--8545 Score: 70
Period size: 12 Copynumber: 3.3 Consensus size: 13
8493 TCTTATCTTC
8503 TTTTCTTTTGCTTT
1 TTTTC-TTTGCTTT
8517 TTTTCTTTG-TTT
1 TTTTCTTTGCTTT
8529 TTTTCTTTGCTTT
1 TTTTCTTTGCTTT
8542 TTTT
1 TTTT
8546 TTCTTTTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.43
13 11 0.39
14 5 0.18
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.81
Consensus pattern (13 bp):
TTTTCTTTGCTTT
Found at i:11714 original size:25 final size:25
Alignment explanation
Indices: 11686--11733 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
11676 TTAGGTCGGT
11686 TGGGTTGATGTTATAGTTGGGTTGA
1 TGGGTTGATGTTATAGTTGGGTTGA
*
11711 TGGGTTGATGTTGTAGTTGGGTT
1 TGGGTTGATGTTATAGTTGGGTT
11734 CCATTTGAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.00, G:0.42, T:0.46
Consensus pattern (25 bp):
TGGGTTGATGTTATAGTTGGGTTGA
Found at i:11779 original size:3 final size:3
Alignment explanation
Indices: 11762--11804 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
11752 AATGTAATTA
* *
11762 AAT ATT AAT -AT AAT AAT AAT AAC AAT AAT AAT GAAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT A
11805 CTTTTTTAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15102 original size:27 final size:27
Alignment explanation
Indices: 15071--15132 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
15061 ATTCTTTCCC
*
15071 GATGGCTTTCCTTGGCTATTAACAGTA
1 GATGGCTCTCCTTGGCTATTAACAGTA
* *
15098 GATGGCTCTCCTTGGCTATTAATAGTC
1 GATGGCTCTCCTTGGCTATTAACAGTA
15125 GATGGCTC
1 GATGGCTC
15133 ATATTGGCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.35
Consensus pattern (27 bp):
GATGGCTCTCCTTGGCTATTAACAGTA
Found at i:15139 original size:27 final size:27
Alignment explanation
Indices: 15071--15140 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
15061 ATTCTTTCCC
* *
15071 GATGGCTTTCCTTGGCTATTAACAGTA
1 GATGGCTCTCATTGGCTATTAACAGTA
* * *
15098 GATGGCTCTCCTTGGCTATTAATAGTC
1 GATGGCTCTCATTGGCTATTAACAGTA
15125 GATGGCTCAT-ATTGGC
1 GATGGCTC-TCATTGGC
15141 CATTCGAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (27 bp):
GATGGCTCTCATTGGCTATTAACAGTA
Found at i:17923 original size:30 final size:29
Alignment explanation
Indices: 17869--18001 Score: 95
Period size: 30 Copynumber: 4.4 Consensus size: 29
17859 CTTAGTAAAA
* * *
17869 TAAAGGACTAAATAGAAAAAAAATAGAAATT
1 TAAAGGACTAAA-A-AATAAAAATAAAAACT
*
17900 TATAGGACTAAAACAATAAAAATAAAAACT
1 TAAAGGACTAAAA-AATAAAAATAAAAACT
* * * * *
17930 TAAAGGATTAAAATAGTAAAAACATAAAGT
1 TAAAGGACTAAAA-AATAAAAATAAAAACT
* * * *
17960 TCAAGGACTAAAATATAAAAAATAGAAAGT
1 TAAAGGACTAAAAAAT-AAAAATAAAAACT
*
17990 TAAAGGGCTAAA
1 TAAAGGACTAAA
18002 TAGTAATTTT
Statistics
Matches: 81, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.01
30 69 0.85
31 11 0.14
ACGTcount: A:0.61, C:0.06, G:0.13, T:0.20
Consensus pattern (29 bp):
TAAAGGACTAAAAAATAAAAATAAAAACT
Found at i:20278 original size:66 final size:63
Alignment explanation
Indices: 20141--20364 Score: 184
Period size: 65 Copynumber: 3.5 Consensus size: 63
20131 AAGGTTAATG
* * * * * *
20141 GTTTCAAGAGAAATCGACTCAAAGATGATTTTTTTCAAGAGAAATTGCCTCAATAAAGAAAAAAT
1 GTTTCAAGGGAAA-CGACTCAAAGATGA-TATTTTCAAGAGAAACTG-TTTAA-AAAGACAAAAT
20206 TC
62 TC
* *
20208 GTTTCAAGGGAAACGACTCAAAGATGATATTTTCAAGAGAAACTATTTGAAAATATACAAAATTT
1 GTTTCAAGGGAAACGACTCAAAGATGATATTTTCAAGAGAAACTGTTT-AAAA-AGACAAAA-TT
*
20273 T
63 C
* * ** * * * *
20274 GTTTCGA-GAAAAATACTCAAATATTG-TGTTTT-AAGAGAAACTGTTTCAAGAGACAAAATTC
1 GTTTCAAGGGAAACGACTCAAAGA-TGATATTTTCAAGAGAAACTGTTTAAAAAGACAAAATTC
*
20335 GTTTCGAGGGAAACGATCTCAAAGATGATA
1 GTTTCAAGGGAAACGA-CTCAAAGATGATA
20365 AATTTTGTTT
Statistics
Matches: 125, Mismatches: 25, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
61 9 0.07
62 14 0.11
63 10 0.08
64 16 0.13
65 40 0.32
66 24 0.19
67 12 0.10
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (63 bp):
GTTTCAAGGGAAACGACTCAAAGATGATATTTTCAAGAGAAACTGTTTAAAAAGACAAAATTC
Found at i:20729 original size:36 final size:36
Alignment explanation
Indices: 20686--20808 Score: 149
Period size: 36 Copynumber: 3.4 Consensus size: 36
20676 AAAGGAAAAA
*
20686 TGTCTCAAGCGAGACGAAATTTGTTTTGAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTGAGAGAAAT
* * *
20722 TGTCTCAAGCGAGACAAAATTCGTTTTTAGATAAAGT
1 TGTCTCAAGCGAGACAAAATTTGTTTTGAGAGAAA-T
* * *
20759 TGTCTCAAGCAAGACAAAATTTGCTTTCA-AGAAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTGAGAG-AAAT
*
20795 TGTCTCTAGCGAGA
1 TGTCTCAAGCGAGA
20809 TGACACTTTG
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
36 45 0.61
37 29 0.39
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTGAGAGAAAT
Found at i:26343 original size:30 final size:30
Alignment explanation
Indices: 26309--26394 Score: 109
Period size: 30 Copynumber: 2.9 Consensus size: 30
26299 ACGAAAACAA
* * * *
26309 TAAAAATATAAACTTAAAGGATTAAAATAG
1 TAAAAATAGAAAGTTAAAGGACTAAAATAC
*
26339 TAAAAAAAGAAAGTTAAAGGACTAAAATAC
1 TAAAAATAGAAAGTTAAAGGACTAAAATAC
* *
26369 CAAAAATAGAAAGTTAAAGGGCTAAA
1 TAAAAATAGAAAGTTAAAGGACTAAA
26395 CAGTAATTTC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.60, C:0.06, G:0.14, T:0.20
Consensus pattern (30 bp):
TAAAAATAGAAAGTTAAAGGACTAAAATAC
Found at i:26374 original size:60 final size:59
Alignment explanation
Indices: 26274--26388 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 59
26264 ATAAAAGACT
* * * *
26274 AAATAGCAAAAAAAAAATTTATAGGACGAAAACAATAAAAATATAAACTTAAAGGATTA
1 AAATAGCAAAAAAAAAAGTTAAAGGACGAAAACAACAAAAATAGAAACTTAAAGGATTA
* * * * *
26333 AAATAGTAAAAAAAGAAAGTTAAAGGACTAAAATACCAAAAATAGAAAGTTAAAGG
1 AAATAGCAAAAAAA-AAAGTTAAAGGACGAAAACAACAAAAATAGAAACTTAAAGG
26389 GCTAAACAGT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
59 13 0.28
60 33 0.72
ACGTcount: A:0.63, C:0.06, G:0.13, T:0.18
Consensus pattern (59 bp):
AAATAGCAAAAAAAAAAGTTAAAGGACGAAAACAACAAAAATAGAAACTTAAAGGATTA
Found at i:28433 original size:25 final size:25
Alignment explanation
Indices: 28382--28430 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
28372 AAAAAATACT
*
28382 TTAGGTTTAATAATTTAGATTATAA
1 TTAGGTTTAATAATTTAGATCATAA
* *
28407 TTAGGTTTTATTATTTAG-TCATAA
1 TTAGGTTTAATAATTTAGATCATAA
28431 ATTTTAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (25 bp):
TTAGGTTTAATAATTTAGATCATAA
Found at i:34318 original size:14 final size:14
Alignment explanation
Indices: 34301--34330 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
34291 GACAAGATGG
34301 AGTGTTTCAGATCA
1 AGTGTTTCAGATCA
34315 AGTGTTTCAGATCA
1 AGTGTTTCAGATCA
34329 AG
1 AG
34331 CTTTTGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.33
Consensus pattern (14 bp):
AGTGTTTCAGATCA
Found at i:34834 original size:10 final size:10
Alignment explanation
Indices: 34808--34867 Score: 86
Period size: 10 Copynumber: 6.0 Consensus size: 10
34798 AATAAAAGAT
34808 ATAGAAAAAA
1 ATAGAAAAAA
*
34818 TAGAGAAAAAA
1 -ATAGAAAAAA
34829 ATAG-AAAAA
1 ATAGAAAAAA
34838 ATAGAAAAAA
1 ATAGAAAAAA
34848 ATAGAAAAAA
1 ATAGAAAAAA
*
34858 AAAGAAAAAA
1 ATAGAAAAAA
34868 TAAAAGAAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
9 9 0.20
10 27 0.60
11 9 0.20
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (10 bp):
ATAGAAAAAA
Found at i:34834 original size:21 final size:20
Alignment explanation
Indices: 34808--34867 Score: 95
Period size: 19 Copynumber: 3.0 Consensus size: 20
34798 AATAAAAGAT
34808 ATAGAAAAAATAGAGAAAAAA
1 ATAGAAAAAATA-AGAAAAAA
34829 ATAGAAAAAAT-AGAAAAAA
1 ATAGAAAAAATAAGAAAAAA
*
34848 ATAGAAAAAAAAAGAAAAAA
1 ATAGAAAAAATAAGAAAAAA
34868 TAAAAGAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
19 18 0.49
20 8 0.22
21 11 0.30
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (20 bp):
ATAGAAAAAATAAGAAAAAA
Found at i:34868 original size:19 final size:21
Alignment explanation
Indices: 34790--34885 Score: 85
Period size: 19 Copynumber: 4.6 Consensus size: 21
34780 GACGACACAT
34790 AAAGAAAGAATAAAAGATATAGAAA
1 AAAGAAAG-A-AAAA-A-ATAGAAA
* *
34815 AAATAGAGAAAAAAATAG-AA
1 AAAGAAAGAAAAAAATAGAAA
*
34835 AAA-ATAGAAAAAAATAGAAA
1 AAAGAAAGAAAAAAATAGAAA
34855 AAA-AAAG-AAAAAATA-AAA
1 AAAGAAAGAAAAAAATAGAAA
34873 GAAAGAAAGAAAA
1 -AAAGAAAGAAAA
34886 CCAATCAAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
18 3 0.05
19 24 0.38
20 17 0.27
21 7 0.11
22 1 0.02
23 4 0.06
24 1 0.02
25 6 0.10
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (21 bp):
AAAGAAAGAAAAAAATAGAAA
Found at i:34885 original size:29 final size:29
Alignment explanation
Indices: 34808--34885 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 29
34798 AATAAAAGAT
*
34808 ATAGAAAAAATAGAGAAAAAAATAGAAAAA
1 ATAGAAAAAA-AAAGAAAAAAATAGAAAAA
* *
34838 ATAGAAAAAAATAGAAAAAAAAAGAAAAA
1 ATAGAAAAAAAAAGAAAAAAATAGAAAAA
34867 ATA-AAAGAAAGAAAGAAAA
1 ATAGAAA-AAA-AAAGAAAA
34886 CCAATCAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 3 0.07
29 23 0.53
30 17 0.40
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (29 bp):
ATAGAAAAAAAAAGAAAAAAATAGAAAAA
Found at i:35561 original size:28 final size:28
Alignment explanation
Indices: 35516--35572 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
35506 AGCCAACCAG
* * *
35516 AAACACATTATCTCCCCAAATTAACCTA
1 AAACACATAACCTCCCCAAATCAACCTA
* *
35544 AAACACATAACCTTCCCAAGTCAACCTA
1 AAACACATAACCTCCCCAAATCAACCTA
35572 A
1 A
35573 GCCAAAAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (28 bp):
AAACACATAACCTCCCCAAATCAACCTA
Found at i:37239 original size:26 final size:26
Alignment explanation
Indices: 37203--37261 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
37193 AAGGTCGTCA
*
37203 GAGCGTGAGAAAGTCTAAGCTCTTTG
1 GAGCGTTAGAAAGTCTAAGCTCTTTG
37229 GAGCGTTAGAAAGTCTAAGCTCTTTG
1 GAGCGTTAGAAAGTCTAAGCTCTTTG
37255 GAGCGTT
1 GAGCGTT
37262 TAGGGGTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (26 bp):
GAGCGTTAGAAAGTCTAAGCTCTTTG
Found at i:42490 original size:6 final size:6
Alignment explanation
Indices: 42474--42508 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
42464 ATTTTCGCAC
*
42474 ATTTTT GTTTTT A-TTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
42509 GTACAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:42494 original size:17 final size:17
Alignment explanation
Indices: 42474--42507 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
42464 ATTTTCGCAC
*
42474 ATTTTTGTTTTTATTTT
1 ATTTTTATTTTTATTTT
42491 ATTTTTATTTTTATTTT
1 ATTTTTATTTTTATTTT
42508 TGTACAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
ATTTTTATTTTTATTTT
Found at i:42778 original size:3 final size:3
Alignment explanation
Indices: 42772--42838 Score: 93
Period size: 3 Copynumber: 22.3 Consensus size: 3
42762 AATAATAATA
42772 ATT ATT ATT ATT A-T ATAT ATT A-T ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
42816 ATT ATT ATT ATT AAT ATTT ATT A
1 ATT ATT ATT ATT ATT A-TT ATT A
42839 CAACTATTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
2 4 0.07
3 49 0.84
4 5 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:44577 original size:22 final size:22
Alignment explanation
Indices: 44549--44594 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
44539 TATATATATG
*
44549 TTTTAGTCCATCATAGTTTAAC
1 TTTTAGTCCATCATAATTTAAC
*
44571 TTTTAGTCCATTATAATTTAAC
1 TTTTAGTCCATCATAATTTAAC
44593 TT
1 TT
44595 AATGTATACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.50
Consensus pattern (22 bp):
TTTTAGTCCATCATAATTTAAC
Found at i:51406 original size:18 final size:17
Alignment explanation
Indices: 51383--51506 Score: 91
Period size: 16 Copynumber: 7.4 Consensus size: 17
51373 GCTTAAAGAT
51383 AAAAAAAATGAAAAAT-
1 AAAAAAAATGAAAAATA
*
51399 TAAAAAAATGAAAAAT-
1 AAAAAAAATGAAAAATA
*
51415 GAAAAAAATGAAAAA-A
1 AAAAAAAATGAAAAATA
51431 ATGAAAAAAATGAAAAA-A
1 A--AAAAAAATGAAAAATA
** *
51449 ATGAAATA-GAAAAATA
1 AAAAAAAATGAAAAATA
*
51465 GAAAAAATAA-AAAAAAT-
1 -AAAAAA-AATGAAAAATA
*
51482 AAAAAAAATAAAAAAATA
1 AAAAAAAAT-GAAAAATA
51500 AAAAAAA
1 AAAAAAA
51507 GAAGAAAAAA
Statistics
Matches: 89, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
15 8 0.09
16 40 0.45
17 11 0.12
18 30 0.34
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (17 bp):
AAAAAAAATGAAAAATA
Found at i:51470 original size:1 final size:1
Alignment explanation
Indices: 51466--51537 Score: 63
Period size: 1 Copynumber: 72.0 Consensus size: 1
51456 AGAAAAATAG
* * * * * * * * *
51466 AAAAAATAAAAAAAATAAAAAAAATAAAAAAATAAAAAAAAGAAGAAAAAAAGAAGAAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
51531 AAAAAAA
1 AAAAAAA
51538 TTAAAAGGGG
Statistics
Matches: 53, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.88, C:0.01, G:0.06, T:0.06
Consensus pattern (1 bp):
A
Found at i:51505 original size:8 final size:8
Alignment explanation
Indices: 51384--51536 Score: 111
Period size: 9 Copynumber: 18.9 Consensus size: 8
51374 CTTAAAGATA
51384 AAAAAAAT
1 AAAAAAAT
* *
51392 GAAAAATT
1 AAAAAAAT
51400 AAAAAAAT
1 AAAAAAAT
*
51408 -GAAAAAT
1 AAAAAAAT
51415 GAAAAAAAT
1 -AAAAAAAT
51424 GAAAAAAAT
1 -AAAAAAAT
51433 GAAAAAAAT
1 -AAAAAAAT
51442 GAAAAAAAT
1 -AAAAAAAT
*
51451 ---GAAAT
1 AAAAAAAT
*
51456 AGAAAAAT
1 AAAAAAAT
51464 AGAAAAAAT
1 A-AAAAAAT
51473 AAAAAAAAT
1 -AAAAAAAT
51482 AAAAAAAAT
1 -AAAAAAAT
51491 AAAAAAAT
1 AAAAAAAT
51499 AAAAAAA-
1 AAAAAAAT
*
51506 AGAAGAAA-
1 A-AAAAAAT
* *
51514 AAAAGAAG
1 AAAAAAAT
*
51522 AAAAAAAC
1 AAAAAAAT
51530 AAAAAAA
1 AAAAAAA
51537 ATTAAAAGGG
Statistics
Matches: 122, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
5 4 0.03
7 11 0.09
8 51 0.42
9 55 0.45
10 1 0.01
ACGTcount: A:0.81, C:0.01, G:0.08, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:51514 original size:18 final size:17
Alignment explanation
Indices: 51381--51537 Score: 107
Period size: 17 Copynumber: 9.6 Consensus size: 17
51371 TTGCTTAAAG
51381 ATAAAAAAAATG-AAAAA
1 ATAAAAAAAA-GAAAAAA
* *
51398 TTAAAAAAATG--AAAA
1 ATAAAAAAAAGAAAAAA
*
51413 ATGAAAAAAATGAAAAAA
1 AT-AAAAAAAAGAAAAAA
*
51431 ATGAAAAAAATGAAAAAA
1 AT-AAAAAAAAGAAAAAA
* * *
51449 AT--GAAATAGAAAAAT
1 ATAAAAAAAAGAAAAAA
* *
51464 AGAAAAAATA-AAAAAA
1 ATAAAAAAAAGAAAAAA
*
51480 ATAAAAAAAATAAAAAA
1 ATAAAAAAAAGAAAAAA
*
51497 ATAAAAAAAAG--AAGA
1 ATAAAAAAAAGAAAAAA
*
51512 A-AAAAAGAAGAAAAAA
1 ATAAAAAAAAGAAAAAA
*
51528 ACAAAAAAAA
1 ATAAAAAAAA
51538 TTAAAAGGGG
Statistics
Matches: 114, Mismatches: 17, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
14 8 0.07
15 19 0.17
16 27 0.24
17 36 0.32
18 24 0.21
ACGTcount: A:0.81, C:0.01, G:0.08, T:0.10
Consensus pattern (17 bp):
ATAAAAAAAAGAAAAAA
Found at i:51525 original size:9 final size:8
Alignment explanation
Indices: 51400--51526 Score: 79
Period size: 8 Copynumber: 15.9 Consensus size: 8
51390 ATGAAAAATT
51400 AAAAAAATG
1 AAAAAAA-G
*
51409 -AAAAATG
1 AAAAAAAG
51416 AAAAAAATG
1 AAAAAAA-G
51425 AAAAAAATG
1 AAAAAAA-G
51434 AAAAAAATG
1 AAAAAAA-G
51443 AAAAAAATG
1 AAAAAAA-G
*
51452 --AAATAG
1 AAAAAAAG
*
51458 AAAAATAG
1 AAAAAAAG
51466 AAAAAATA-
1 AAAAAA-AG
*
51474 AAAAAAAT
1 AAAAAAAG
51482 AAAAAAA-
1 AAAAAAAG
*
51489 ATAAAAA-
1 AAAAAAAG
*
51496 AATAAAA-
1 AAAAAAAG
*
51503 AAAAGAAG
1 AAAAAAAG
51511 AAAAAAAG
1 AAAAAAAG
51519 AAGAAAAA
1 AA-AAAAA
51527 AACAAAAAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
6 1 0.01
7 22 0.22
8 43 0.43
9 34 0.34
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (8 bp):
AAAAAAAG
Found at i:51536 original size:11 final size:11
Alignment explanation
Indices: 51443--51537 Score: 70
Period size: 11 Copynumber: 8.5 Consensus size: 11
51433 GAAAAAAATG
*
51443 AAAAAAATGAA
1 AAAAAAAAGAA
51454 ATAGAAAAATAGAA
1 A-A-AAAAA-AGAA
51468 AAAATAAAA-AA
1 AAAA-AAAAGAA
*
51479 AATAAAAA-AA
1 AAAAAAAAGAA
* *
51489 ATAAAAAA-AT
1 AAAAAAAAGAA
51499 AAAAAAAAGAA
1 AAAAAAAAGAA
*
51510 GAAAAAAAGAA
1 AAAAAAAAGAA
* *
51521 GAAAAAAACAA
1 AAAAAAAAGAA
51532 AAAAAA
1 AAAAAA
51538 TTAAAAGGGG
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
10 20 0.29
11 32 0.46
12 4 0.06
13 9 0.13
14 4 0.06
ACGTcount: A:0.84, C:0.01, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:51537 original size:9 final size:9
Alignment explanation
Indices: 51381--51516 Score: 112
Period size: 9 Copynumber: 14.1 Consensus size: 9
51371 TTGCTTAAAG
51381 ATAAAAAAA
1 ATAAAAAAA
51390 ATGAAAAATTAA
1 AT-AAAAA--AA
*
51402 AAAAATGAAAA
1 ATAAA--AAAA
*
51413 ATGAAAAAA
1 ATAAAAAAA
*
51422 ATGAAAAAA
1 ATAAAAAAA
*
51431 ATGAAAAAA
1 ATAAAAAAA
*
51440 ATGAAAAAA
1 ATAAAAAAA
51449 ATGAAATAGAAAA
1 AT--AA-A-AAAA
*
51462 ATAGAAAAA
1 ATAAAAAAA
51471 ATAAAAAAA
1 ATAAAAAAA
51480 ATAAAAAAA
1 ATAAAAAAA
51489 AT-AAAAAA
1 ATAAAAAAA
51497 ATAAAAAAA
1 ATAAAAAAA
*
51506 AGAAGAAAAA
1 ATAA-AAAAA
51516 A
1 A
51517 AGAAGAAAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 21
0.80 0.05 0.15
Matches are distributed among these distances:
8 8 0.07
9 67 0.61
10 12 0.11
11 10 0.09
12 4 0.04
13 8 0.07
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:51543 original size:18 final size:18
Alignment explanation
Indices: 51381--51543 Score: 129
Period size: 18 Copynumber: 8.9 Consensus size: 18
51371 TTGCTTAAAG
51381 ATAAAAAAAATG--AAAA
1 ATAAAAAAAATGAAAAAA
*
51397 ATTAAAAAAATG--AAAA
1 ATAAAAAAAATGAAAAAA
*
51413 ATGAAAAAAATGAAAAAA
1 ATAAAAAAAATGAAAAAA
*
51431 ATGAAAAAAATGAAAAAA
1 ATAAAAAAAATGAAAAAA
51449 ATGAAATAGAAAAAT-AGAAAAA
1 AT--AA-A-AAAAATGA-AAAAA
*
51471 ATAAAAAAAATAAAAAAA
1 ATAAAAAAAATGAAAAAA
**
51489 ATAAAAAAATAAAAAAAAGA
1 ATAAAAAAA-ATGAAAAA-A
* *
51509 AGAAAAAAAGAAGAAAAAA
1 ATAAAAAAA-ATGAAAAAA
* *
51528 ACAAAAAAAATTAAAA
1 ATAAAAAAAATGAAAA
51544 GGGGGGTTCA
Statistics
Matches: 127, Mismatches: 10, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
16 26 0.20
18 49 0.39
19 18 0.14
20 19 0.15
21 2 0.02
22 13 0.10
ACGTcount: A:0.80, C:0.01, G:0.08, T:0.11
Consensus pattern (18 bp):
ATAAAAAAAATGAAAAAA
Found at i:52907 original size:55 final size:55
Alignment explanation
Indices: 52823--53102 Score: 465
Period size: 55 Copynumber: 5.1 Consensus size: 55
52813 TGAAGCAAAA
* *
52823 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATTGGGGGCAGACGCAATCGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* * *
52878 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
*
52933 GAAGATTG-TGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* *
52986 GAAGATTGTTCGAGTCTTATACTCTCTGAATAAATAGGGGGCAGACGCGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
53041 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
*
53096 GGAGATT
1 GAAGATT
53103 ATTGTTCGAG
Statistics
Matches: 208, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
53 47 0.23
54 6 0.03
55 155 0.75
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
Found at i:53026 original size:108 final size:110
Alignment explanation
Indices: 52823--53105 Score: 489
Period size: 108 Copynumber: 2.6 Consensus size: 110
52813 TGAAGCAAAA
* *
52823 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATTGGGGGCAGACGCAATCGTTGAAGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
52888 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
66 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
* *
52933 GAAGATTG-TGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
* *
52996 CGAGTCTTATACTCTCTGAATAAATAGGGGGCAGACGCGATTGTT
66 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
*
53041 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGGAGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
53106 GTTCGAGTTC
Statistics
Matches: 162, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
108 99 0.61
109 6 0.04
110 57 0.35
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (110 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
Found at i:53158 original size:52 final size:52
Alignment explanation
Indices: 53098--53546 Score: 754
Period size: 52 Copynumber: 8.6 Consensus size: 52
53088 CGATCGTTGG
53098 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* *
53150 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
53202 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* *
53254 AGATTATTGTTCGAGTTCTAGTCCTTGAAAAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* * * *
53306 AGATTATTTTTCGAGTTCTAGTCCCTGAAGAAAATTGGACAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* *
53358 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
*
53410 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGACAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* * *
53462 AGATTATTGTTCGAGTTCCAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* *
53514 AGATTATCGTTCGAGTTCTACTCCCTGAAGAAA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAA
53547 TAGAGAGCGA
Statistics
Matches: 373, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 373 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (52 bp):
AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
Found at i:53828 original size:3 final size:3
Alignment explanation
Indices: 53804--53881 Score: 104
Period size: 3 Copynumber: 25.7 Consensus size: 3
53794 GGGATATAAA
* * *
53804 TAT TA- TAT TAT AAT AAT AAT TAT TAT TAT TAT ATAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
53849 TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA
53882 CAACTATTTG
Statistics
Matches: 70, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
2 2 0.03
3 62 0.89
4 6 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:57545 original size:6 final size:6
Alignment explanation
Indices: 57529--57563 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
57519 ATTTTCGCAC
*
57529 ATTTTT GTTTTT A-TTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
57564 GTACAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:57549 original size:17 final size:17
Alignment explanation
Indices: 57529--57562 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
57519 ATTTTCGCAC
*
57529 ATTTTTGTTTTTATTTT
1 ATTTTTATTTTTATTTT
57546 ATTTTTATTTTTATTTT
1 ATTTTTATTTTTATTTT
57563 TGTACAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
ATTTTTATTTTTATTTT
Found at i:57834 original size:3 final size:3
Alignment explanation
Indices: 57828--57893 Score: 91
Period size: 3 Copynumber: 22.3 Consensus size: 3
57818 AATAATAATA
*
57828 ATT ATT ATT ATT A-T ATT A-T ATG ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
57874 ATT ATT ATT AAT ATTT ATT A
1 ATT ATT ATT ATT A-TT ATT A
57894 CAACTATTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
2 4 0.07
3 50 0.89
4 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:59630 original size:22 final size:22
Alignment explanation
Indices: 59602--59647 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
59592 GATATATATG
*
59602 TTTTAGTCCATCATAGTTTAAC
1 TTTTAGTCCATCATAATTTAAC
*
59624 TTTTAGTCCATTATAATTTAAC
1 TTTTAGTCCATCATAATTTAAC
59646 TT
1 TT
59648 AATGTATACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.50
Consensus pattern (22 bp):
TTTTAGTCCATCATAATTTAAC
Found at i:64666 original size:13 final size:13
Alignment explanation
Indices: 64648--64680 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
64638 AATTCTATGC
64648 ATTGTCAGAAGTA
1 ATTGTCAGAAGTA
64661 ATTGTCAGAAGTA
1 ATTGTCAGAAGTA
64674 ATTGTCA
1 ATTGTCA
64681 ATTTTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.33
Consensus pattern (13 bp):
ATTGTCAGAAGTA
Found at i:64777 original size:6 final size:6
Alignment explanation
Indices: 64761--64795 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
64751 ATTTTCGCAC
*
64761 ATTTTT GTTTTT A-TTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
64796 GTACAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:64781 original size:17 final size:17
Alignment explanation
Indices: 64761--64794 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
64751 ATTTTCGCAC
*
64761 ATTTTTGTTTTTATTTT
1 ATTTTTATTTTTATTTT
64778 ATTTTTATTTTTATTTT
1 ATTTTTATTTTTATTTT
64795 TGTACAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
ATTTTTATTTTTATTTT
Found at i:65807 original size:6 final size:6
Alignment explanation
Indices: 65796--65928 Score: 266
Period size: 6 Copynumber: 22.2 Consensus size: 6
65786 CAAATGATAC
65796 ACATAG ACATAG ACATAG ACATAG ACATAG ACATAG ACATAG ACATAG
1 ACATAG ACATAG ACATAG ACATAG ACATAG ACATAG ACATAG ACATAG
65844 ACATAG ACATAG ACATAG ACATAG ACATAG ACATAG ACATAG ACATAG
1 ACATAG ACATAG ACATAG ACATAG ACATAG ACATAG ACATAG ACATAG
65892 ACATAG ACATAG ACATAG ACATAG ACATAG ACATAG A
1 ACATAG ACATAG ACATAG ACATAG ACATAG ACATAG A
65929 TATAAAACAT
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 127 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
ACATAG
Found at i:67047 original size:31 final size:31
Alignment explanation
Indices: 67009--67078 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
66999 CTTTTAAAAC
* * * *
67009 TTGCAATACAATCCCCCAATATTTAGTTCGT
1 TTGCAATACAATCACCCAACATTTAGTACAT
*
67040 TTGCAATACAATCACCTAACATTTAGTACAT
1 TTGCAATACAATCACCCAACATTTAGTACAT
67071 TTGCAATA
1 TTGCAATA
67079 TGGTCCCCGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (31 bp):
TTGCAATACAATCACCCAACATTTAGTACAT
Found at i:69099 original size:31 final size:31
Alignment explanation
Indices: 69064--69161 Score: 117
Period size: 31 Copynumber: 3.2 Consensus size: 31
69054 CGGTTACGTC
*
69064 GGGGATCATATTGTAAACGGACTAAATGTTA
1 GGGGATCATATTGTAAACGGACTAAATGTTG
*
69095 GGGGA-CTATATTGTAAACGGATTAAATGTTG
1 GGGGATC-ATATTGTAAACGGACTAAATGTTG
** * * *
69126 GGGGATTGTATTGCAACCGAACTAAATGTTG
1 GGGGATCATATTGTAAACGGACTAAATGTTG
69157 GGGGA
1 GGGGA
69162 CTGTATTACA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
30 1 0.02
31 56 0.98
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (31 bp):
GGGGATCATATTGTAAACGGACTAAATGTTG
Found at i:71412 original size:31 final size:30
Alignment explanation
Indices: 71377--71465 Score: 124
Period size: 31 Copynumber: 2.9 Consensus size: 30
71367 TCGGGGACCA
* *
71377 TATTGCAAACGGACTAAATGTTAGGGGATTG
1 TATTGCAAACGAACTAAATGTT-GGGGAATG
*
71408 TATTGCAAACGAATTAAATGTTGGGGGAATG
1 TATTGCAAACGAACTAAATGTT-GGGGAATG
*
71439 TATTGCAAACGAACTAATTGTTGGGGA
1 TATTGCAAACGAACTAAATGTTGGGGA
71466 CTATATTATA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (30 bp):
TATTGCAAACGAACTAAATGTTGGGGAATG
Found at i:88500 original size:85 final size:90
Alignment explanation
Indices: 88398--88604 Score: 244
Period size: 95 Copynumber: 2.3 Consensus size: 90
88388 GCCATTTGAG
*
88398 GCTCAACTTCACAACGAA-GG-GGC-TTCCCAATT-TT-AGAGCCAATTTCAACTTCACAACGAA
1 GCTCAACTTCACAACGAAGGGCGGCTTTCCAAATTATTCAGAGCCAATTTCAACTTCACAACGAA
*
88458 GGATATTGGACTCAAGACAACACAA
66 GGATATTAGACTCAAGACAACACAA
* * * *
88483 GCTCAACTTCACGACGAAGGGGCGGCTGATTTTCAAATTCATTCAGAGTCAATTTCAACTTCACG
1 GCTCAACTTCACAACGAA-GGGCGGC---TTTCCAAATT-ATTCAGAGCCAATTTCAACTTCACA
* *
88548 ACGAATGATATTAGACTCAAGACAGCACAA
61 ACGAAGGATATTAGACTCAAGACAACACAA
*
88578 GCTCAACTTCACAGCGAATGGGCGGCT
1 GCTCAACTTCACAACGAA-GGGCGGCT
88605 GACTGTCAAC
Statistics
Matches: 101, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
85 17 0.17
87 2 0.02
88 3 0.03
92 8 0.08
94 2 0.02
95 69 0.68
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.22
Consensus pattern (90 bp):
GCTCAACTTCACAACGAAGGGCGGCTTTCCAAATTATTCAGAGCCAATTTCAACTTCACAACGAA
GGATATTAGACTCAAGACAACACAA
Found at i:88601 original size:95 final size:95
Alignment explanation
Indices: 88432--88606 Score: 280
Period size: 95 Copynumber: 1.8 Consensus size: 95
88422 TCCCAATTTT
*
88432 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACGA
88497 CGAAGGGGCGGCTGATTTTCAAATTCATTC
66 CGAAGGGGCGGCTGATTTTCAAATTCATTC
* * * *
88527 AGAGTCAATTTCAACTTCACGACGAATGATATTAGACTCAAGACAGCACAAGCTCAACTTCAC-A
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACGA
*
88591 GCGAATGGGCGGCTGA
66 -CGAAGGGGCGGCTGA
88607 CTGTCAACAA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
94 1 0.01
95 72 0.99
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (95 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACGA
CGAAGGGGCGGCTGATTTTCAAATTCATTC
Found at i:90508 original size:2 final size:2
Alignment explanation
Indices: 90501--90539 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
90491 TCTGTAATTC
90501 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
90540 TGTCTTCATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:92259 original size:3 final size:3
Alignment explanation
Indices: 92251--92281 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
92241 TGTCCCATTT
92251 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
92282 AAAAAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:92351 original size:21 final size:20
Alignment explanation
Indices: 92310--92383 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
92300 TTAATTTTAT
*
92310 AGGCCCATATCATGAACCCGG
1 AGGCCCAGATCA-GAACCCGG
*
92331 AGGCCCAGATCTAGAATCCGG
1 AGGCCCAGATC-AGAACCCGG
* * *
92352 AGACCTAGATCCAAAACCCGG
1 AGGCCCAGAT-CAGAACCCGG
*
92373 AAGCCCAGATC
1 AGGCCCAGATC
92384 CAGACCCGAC
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
20 1 0.02
21 39 0.93
22 2 0.05
ACGTcount: A:0.32, C:0.32, G:0.23, T:0.12
Consensus pattern (20 bp):
AGGCCCAGATCAGAACCCGG
Found at i:95530 original size:21 final size:21
Alignment explanation
Indices: 95506--95572 Score: 125
Period size: 21 Copynumber: 3.2 Consensus size: 21
95496 TTTTATGTTT
95506 GTTGCTTATGTATAACTTAAG
1 GTTGCTTATGTATAACTTAAG
*
95527 GTTGCTTATATATAACTTAAG
1 GTTGCTTATGTATAACTTAAG
95548 GTTGCTTATGTATAACTTAAG
1 GTTGCTTATGTATAACTTAAG
95569 GTTG
1 GTTG
95573 ATGTCAGACA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.43
Consensus pattern (21 bp):
GTTGCTTATGTATAACTTAAG
Found at i:96466 original size:30 final size:30
Alignment explanation
Indices: 96453--96511 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
96443 AATTTAGAGG
96453 TTAAATTAATATTTTATCTAAAGTTCAAGA
1 TTAAATTAATATTTTATCTAAAGTTCAAGA
* *
96483 TTAAATTAATATTTCATCTAAAATTCAAG
1 TTAAATTAATATTTTATCTAAAGTTCAAG
96512 GGTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.42
Consensus pattern (30 bp):
TTAAATTAATATTTTATCTAAAGTTCAAGA
Found at i:96630 original size:3 final size:3
Alignment explanation
Indices: 96622--96652 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
96612 ATATTATAAA
96622 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
96653 TAATTAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:99357 original size:3 final size:3
Alignment explanation
Indices: 99349--99385 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
99339 ATATTAATTA
99349 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
99386 TTTATAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:112485 original size:9 final size:9
Alignment explanation
Indices: 112473--112509 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
112463 ATAAAAGATG
112473 AAAAATGAA
1 AAAAATGAA
112482 AAAAATGAA
1 AAAAATGAA
112491 AAAGAA--AA
1 AAA-AATGAA
112499 AAAAATGAA
1 AAAAATGAA
112508 AA
1 AA
112510 TGAAAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
7 2 0.08
8 5 0.20
9 16 0.64
10 2 0.08
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (9 bp):
AAAAATGAA
Found at i:112485 original size:17 final size:17
Alignment explanation
Indices: 112465--112519 Score: 71
Period size: 16 Copynumber: 3.4 Consensus size: 17
112455 GGGAACAAAT
112465 AAAAGATGAAAAATGAA
1 AAAAGATGAAAAATGAA
112482 AAAA-ATGAAAAA-GAAA
1 AAAAGATGAAAAATG-AA
*
112498 AAAAAATG-AAAATGAA
1 AAAAGATGAAAAATGAA
112514 AAAAGA
1 AAAAGA
112520 AATGAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
15 1 0.03
16 25 0.74
17 8 0.24
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (17 bp):
AAAAGATGAAAAATGAA
Found at i:112534 original size:17 final size:17
Alignment explanation
Indices: 112461--112536 Score: 65
Period size: 17 Copynumber: 4.6 Consensus size: 17
112451 AAAAGGGAAC
112461 AAATAAAAG--ATG-AA
1 AAATAAAAGAAATGAAA
112475 AAATGAAAA-AAATGAAA
1 AAAT-AAAAGAAATGAAA
*
112492 AAGA-AAAAAAAATGAAA
1 AA-ATAAAAGAAATGAAA
112509 ATGAA-AAAAGAAATGAAA
1 A--AATAAAAGAAATGAAA
112527 AAATAAAAGA
1 AAATAAAAGA
112537 GAAAAGGAGG
Statistics
Matches: 52, Mismatches: 1, Indels: 15
0.76 0.01 0.22
Matches are distributed among these distances:
14 4 0.08
15 4 0.08
16 9 0.17
17 19 0.37
18 15 0.29
19 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (17 bp):
AAATAAAAGAAATGAAA
Found at i:112541 original size:24 final size:24
Alignment explanation
Indices: 112483--112542 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
112473 AAAAATGAAA
112483 AAAATG-AAAAAGAAAAAAAAATG
1 AAAATGAAAAAAGAAAAAAAAATG
112506 AAAATGAAAAAAGAAATGAAAAAAT-
1 AAAATGAAAAAAGAAA--AAAAAATG
*
112531 AAAA-GAGAAAAG
1 AAAATGAAAAAAG
112543 GAGGGTTTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
23 6 0.18
24 16 0.48
25 4 0.12
26 7 0.21
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (24 bp):
AAAATGAAAAAAGAAAAAAAAATG
Found at i:113660 original size:136 final size:136
Alignment explanation
Indices: 113414--113764 Score: 594
Period size: 136 Copynumber: 2.6 Consensus size: 136
113404 GGTGAACCAG
113414 CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
1 CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
* * *
113479 AGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTTGAATCAGTGACACCTTGCTTGAAG
66 AGAAGAGCTTGTTCGACCTATCACTCGATTCACAACATTTCGAATCAGTGACACCTCGCTTGAAG
*
113544 GATCAG
131 GATCAA
*
113550 TATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
1 CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
* *
113615 AGAAGAGCTTGTTCGACCTATCACTCGATTCATAACATTTCGAATCAGTGACACCTCGCTTGAGG
66 AGAAGAGCTTGTTCGACCTATCACTCGATTCACAACATTTCGAATCAGTGACACCTCGCTTGAAG
113680 GATCAA
131 GATCAA
* * * *
113686 CATTTCCAGTGAAGAGCTCATAATGAGAAGAACTCATCCGACAGAGGAAGAAGAAGTTCATAATG
1 CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
*
113751 AGAAGAACTTGTTC
66 AGAAGAGCTTGTTC
113765 AACTTCACAT
Statistics
Matches: 202, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
136 202 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.24
Consensus pattern (136 bp):
CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
AGAAGAGCTTGTTCGACCTATCACTCGATTCACAACATTTCGAATCAGTGACACCTCGCTTGAAG
GATCAA
Found at i:113805 original size:92 final size:92
Alignment explanation
Indices: 113681--113856 Score: 273
Period size: 92 Copynumber: 1.9 Consensus size: 92
113671 CGCTTGAGGG
* *
113681 ATCAACATTTCCAGTGAAGAGCTCATAATGAGAAGAACTCATCCGACAGAG-GAAGAAGAAGTTC
1 ATCAACATTTCCAATGAAGAGCTCATAATGAGAAGAACTCATCCGAAAGAGAG-AGAAGAAGTTC
113745 ATAATGAGAAGAACTTGTTCAACTTCAC
65 ATAATGAGAAGAACTTGTTCAACTTCAC
* * * *
113773 ATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGAGAGAATAAGTTCA
1 ATCAACATTTCCAATGAAGAGCTCATAATGAGAAGAACTCATCCGAAAGAGAGAGAAGAAGTTCA
*
113838 TAATGAGAAGAGCTTGTTC
66 TAATGAGAAGAACTTGTTC
113857 GATCTATCAC
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
92 75 0.99
93 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.23
Consensus pattern (92 bp):
ATCAACATTTCCAATGAAGAGCTCATAATGAGAAGAACTCATCCGAAAGAGAGAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACTTCAC
Found at i:114241 original size:3 final size:3
Alignment explanation
Indices: 114233--114257 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
114223 ATATTATAAA
114233 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
114258 TAATTAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:118138 original size:2 final size:2
Alignment explanation
Indices: 118131--118162 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
118121 AAAAATAAAG
118131 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
118163 TTTCTTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120071 original size:30 final size:30
Alignment explanation
Indices: 120037--120094 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
120027 ATTTAGAGGT
*
120037 TAAATTAATATTTTATCTAAAATTCAAGAC
1 TAAATTAATATTTCATCTAAAATTCAAGAC
120067 TAAATTAATATTTCATCTAAAATTCAAG
1 TAAATTAATATTTCATCTAAAATTCAAG
120095 GGTCAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (30 bp):
TAAATTAATATTTCATCTAAAATTCAAGAC
Found at i:123028 original size:20 final size:20
Alignment explanation
Indices: 123005--123047 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
122995 TTAAACCTTA
123005 TTCTTTATCATTTCTTATAC
1 TTCTTTATCATTTCTTATAC
123025 TTCTTTATCATTTCTTATAC
1 TTCTTTATCATTTCTTATAC
123045 TTC
1 TTC
123048 AATTTTCTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.21, G:0.00, T:0.60
Consensus pattern (20 bp):
TTCTTTATCATTTCTTATAC
Found at i:124295 original size:16 final size:16
Alignment explanation
Indices: 124274--124307 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
124264 CTCCCTGAGG
124274 TGCCTGCTCTTCACCT
1 TGCCTGCTCTTCACCT
*
124290 TGCCTGCTTTTCACCT
1 TGCCTGCTCTTCACCT
124306 TG
1 TG
124308 ACTGGCCAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.38, G:0.15, T:0.41
Consensus pattern (16 bp):
TGCCTGCTCTTCACCT
Found at i:128326 original size:24 final size:24
Alignment explanation
Indices: 128284--128349 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
128274 AAATTAAATA
* *
128284 AAAAATAAAGAAACGAAAAGAAAAG
1 AAAAATAAATAAA-TAAAAGAAAAG
*
128309 AAAAATAAATAAATAAAATAAAAG
1 AAAAATAAATAAATAAAAGAAAAG
*
128333 ACATAA-AAATAAATAAA
1 A-AAAATAAATAAATAAA
128350 GTCCATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 21 0.58
25 15 0.42
ACGTcount: A:0.77, C:0.03, G:0.08, T:0.12
Consensus pattern (24 bp):
AAAAATAAATAAATAAAAGAAAAG
Found at i:128357 original size:28 final size:26
Alignment explanation
Indices: 128283--128377 Score: 70
Period size: 28 Copynumber: 3.5 Consensus size: 26
128273 TAAATTAAAT
* * *
128283 AAAAAATAAAGAAACGAAAAGAAAAG-
1 AAAAAATAAATAAA-TAAAATAAAAGC
128309 -AAAAATAAATAAATAAAATAAAAGAC
1 AAAAAATAAATAAATAAAATAAAAG-C
**
128335 ATAAAAATAAATAAAGT-CCATAAAAGC
1 A-AAAAATAAATAAA-TAAAATAAAAGC
128362 AAATGAAATAAATAAA
1 AAA--AAATAAATAAA
128378 ATACTAGAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
24 9 0.16
25 12 0.21
26 2 0.04
27 2 0.04
28 31 0.54
29 1 0.02
ACGTcount: A:0.73, C:0.05, G:0.08, T:0.14
Consensus pattern (26 bp):
AAAAAATAAATAAATAAAATAAAAGC
Found at i:129798 original size:34 final size:35
Alignment explanation
Indices: 129760--129843 Score: 136
Period size: 34 Copynumber: 2.5 Consensus size: 35
129750 TGAGGGTTTG
*
129760 GTGTTTCAAGAGAAACATTTTCAAA-GTTTTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTT
*
129794 GTGTTTCAAGAGAAAAAATTTCAAAGGTTTTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTT
129829 -TGTTTCAAGAGAAAC
1 GTGTTTCAAGAGAAAC
129844 TGTATTCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
34 37 0.80
35 9 0.20
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (35 bp):
GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTT
Found at i:129852 original size:35 final size:34
Alignment explanation
Indices: 129760--129854 Score: 122
Period size: 34 Copynumber: 2.7 Consensus size: 34
129750 TGAGGGTTTG
129760 GTGTTTCAAGAGAAACATTTTCAAA-GTTTTTTTT
1 GTGTTTCAAGAGAAAC-TTTTCAAAGGTTTTTTTT
**
129794 GTGTTTCAAGAGAAAAAATTTCAAAGGTTTTTTTT
1 GTGTTTCAAGAG-AAACTTTTCAAAGGTTTTTTTT
129829 -TGTTTCAAGAGAAACTGTATTCAAAG
1 GTGTTTCAAGAGAAACT-T-TTCAAAG
129855 ATTGAAGTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
33 3 0.06
34 31 0.58
35 19 0.36
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (34 bp):
GTGTTTCAAGAGAAACTTTTCAAAGGTTTTTTTT
Found at i:129911 original size:36 final size:36
Alignment explanation
Indices: 129861--129929 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
129851 AAAGATTGAA
129861 GTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATTT
1 GTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATTT
129897 GTTTCAA-GAGAAACTGTCTCAAGAGAGACAAAA
1 GTTTCAAGGA-AAACTGTCTCAAGAGAGACAAAA
129930 ACATCCAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 2 0.06
36 30 0.94
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.22
Consensus pattern (36 bp):
GTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATTT
Found at i:129943 original size:34 final size:35
Alignment explanation
Indices: 129871--129952 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 35
129861 GTTTCAAGGA
*** * *
129871 AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAG
1 AAACTGTCTCAAGAGAGACAAAA-TACATCCAAAAG
129907 AAACTGTCTCAAGAGAGACAAAA-ACATCCAAAAG
1 AAACTGTCTCAAGAGAGACAAAATACATCCAAAAG
129941 AAACTGTCTCAA
1 AAACTGTCTCAA
129953 TGGAGACGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
34 18 0.44
36 23 0.56
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.20
Consensus pattern (35 bp):
AAACTGTCTCAAGAGAGACAAAATACATCCAAAAG
Found at i:130083 original size:37 final size:36
Alignment explanation
Indices: 130028--130111 Score: 105
Period size: 37 Copynumber: 2.3 Consensus size: 36
130018 AAGTTTATGC
* * * **
130028 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTCAT
*
130065 TTCAAGGGAACCTATCTCAAGAGAGACAAAATTCAT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
130101 TTCAAGGGAAA
1 TTCAAGGGAAA
130112 TGTTTTTAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 13 0.32
37 27 0.68
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.24
Consensus pattern (36 bp):
TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
Found at i:130142 original size:102 final size:100
Alignment explanation
Indices: 130004--130278 Score: 313
Period size: 102 Copynumber: 2.7 Consensus size: 100
129994 TTGTTGCAAA
* * * *
130004 GGAAATTGTTTTCAAAGTTTATGCTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCA
1 GGAAA-TGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TTAGTTTCA
*
130069 AGGGAACCTATCTCAAGAGAGACAAAATTCATTTCAAG
64 AGGGAAAC-ATCTCAAGAGAGACAAAATTCATTTCAAG
* * *
130107 GGAAATGTTTTTAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAA
1 GGAAATGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TTAGTTTC-A
* * * * * **
130172 AAGAAAACGTCTCAAGGGAGACGAAATTTGTTTCAAG
64 AGGGAAACATCTCAAGAGAGACAAAATTCATTTCAAG
*
130209 GGAAATAG-ATTCAAAGATTT-TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCA-TTTC
1 GGAAAT-GTTTTCAAAG-TTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT-AGTTTC
130271 AAGGGAAA
63 AAGGGAAA
130279 TATTTTCAAT
Statistics
Matches: 146, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
100 6 0.04
101 5 0.03
102 120 0.82
103 15 0.10
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (100 bp):
GGAAATGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTAGTTTCAAG
GGAAACATCTCAAGAGAGACAAAATTCATTTCAAG
Found at i:130249 original size:167 final size:167
Alignment explanation
Indices: 130054--130424 Score: 487
Period size: 167 Copynumber: 2.2 Consensus size: 167
130044 TCAAGGGAGA
* * *
130054 CAAA-ATTTTGTTTCAAGGGAACCTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTT
1 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTT
* *
130118 TAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAAC-GT
66 CAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCC-AAAGAAAACTAT
* * **
130182 CTCAAGGGAGACGAAATTTGTTTCAAGGGAAATAGATT
130 CTCAAGAGAGACAAAATTCATTTCAAGGGAAATAGATT
130220 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTT
1 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTT
* * * * * * * *
130285 CAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGTAACCTATC
66 CAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAGAAAACTATC
* * ***
130350 TCAAGAGAGATAAAATTCATTTCAAGGGAACTTTTTT
131 TCAAGAGAGACAAAATTCATTTCAAGGGAAATAGATT
* *
130387 CAATG-TTTATGTTTCAAGAGAAACTGTCTCAAGAGAGA
1 CAAAGATTT-TGTTTCAAGAGAAACTATCTCAAGAGAGA
130425 TGAAACTTAG
Statistics
Matches: 178, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
166 13 0.07
167 165 0.93
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (167 bp):
CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTT
CAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAGAAAACTATC
TCAAGAGAGACAAAATTCATTTCAAGGGAAATAGATT
Found at i:130277 original size:65 final size:65
Alignment explanation
Indices: 130181--130329 Score: 210
Period size: 65 Copynumber: 2.3 Consensus size: 65
130171 AAAGAAAACG
* **
130181 TCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATAGATTCAAAGATTT-TGTTTCAAGAGAAACT
1 TCTCAAGGGAGACAAAATTCATTTCAAGGGAAATAGATTCAAAG-TTTATGTTTCAAGAGAAACT
130245 A
65 A
* ** * *
130246 TCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTTCAATGTTTATGTTTCAAGAGAAACTG
1 TCTCAAGGGAGACAAAATTCATTTCAAGGGAAATAGATTCAAAGTTTATGTTTCAAGAGAAACTA
130311 TCTCAAGGGAGACAAAATT
1 TCTCAAGGGAGACAAAATT
130330 TTGTTTCAAG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
64 3 0.04
65 71 0.96
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (65 bp):
TCTCAAGGGAGACAAAATTCATTTCAAGGGAAATAGATTCAAAGTTTATGTTTCAAGAGAAACTA
Found at i:130310 original size:269 final size:261
Alignment explanation
Indices: 130012--130522 Score: 826
Period size: 269 Copynumber: 1.9 Consensus size: 261
130002 AAGGAAATTG
130012 TTTTCAAAGTTTATGCTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAACC
1 TTTTCAAAGTTTATGCTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAACC
130077 TATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTT-AATGTTTATGTTTCAAGAGAAA
66 TATCTCAAGAGAGACAAAATTCATTTCAAGGGAAAT-TTTTTCAATGTTTATGTTTCAAGAGAAA
130141 CTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAACGTCTCAAGGGAGACGAAATTTGTTTC
130 CTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAACGTCTCAAGGGAGACGAAATTTGTTTC
*
130206 AAGGGAAATAGATTCAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTC
195 AA--G--AGAGA--CAAA-ATTTT-TTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTC
130271 AAGGGAAATA
252 AAGGGAAATA
* * *
130281 TTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGTAACC
1 TTTTCAAAGTTTATGCTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAACC
* *
130346 TATCTCAAGAGAGATAAAATTCATTTCAAGGGAACTTTTTTCAATGTTTATGTTTCAAGAGAAAC
66 TATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATTTTTTCAATGTTTATGTTTCAAGAGAAAC
* ** * *
130411 TGTCTCAAGAGAGATGAAACTTAGTTCTAAAAGAAAATGTCTCAAGGGAGACGAAATTTGTTTCA
131 TATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAACGTCTCAAGGGAGACGAAATTTGTTTCA
*
130476 AGAGAGACAAAATTTTTTTCAAGAGAAATTATCTCAAGAGAGACAAA
196 AGAGAGACAAAATTTTTTTCAAGAGAAACTATCTCAAGAGAGACAAA
130523 TCTTCTTTAA
Statistics
Matches: 229, Mismatches: 12, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
261 30 0.13
262 5 0.02
263 4 0.02
265 4 0.02
267 1 0.00
268 5 0.02
269 180 0.79
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (261 bp):
TTTTCAAAGTTTATGCTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAACC
TATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATTTTTTCAATGTTTATGTTTCAAGAGAAAC
TATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAACGTCTCAAGGGAGACGAAATTTGTTTCA
AGAGAGACAAAATTTTTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAAT
A
Found at i:130331 original size:102 final size:103
Alignment explanation
Indices: 130220--130424 Score: 342
Period size: 102 Copynumber: 2.0 Consensus size: 103
130210 GAAATAGATT
130220 CAAAGATTTTGTTTCAAGAG-AAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTT
1 CAAAGATTTTGTTTCAAG-GTAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTT
*
130284 TCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGA
65 TCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGAGAGA
* * * *
130323 CAAA-ATTTTGTTTCAAGGTAACCTATCTCAAGAGAGATAAAATTCATTTCAAGGGAACTTTTTT
1 CAAAGATTTTGTTTCAAGGTAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTT
130387 CAATGTTTATGTTTCAAGAGAAACTGTCTCAAGAGAGA
66 CAATGTTTATGTTTCAAGAGAAACTGTCTCAAGAGAGA
130425 TGAAACTTAG
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
101 1 0.01
102 91 0.95
103 4 0.04
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.32
Consensus pattern (103 bp):
CAAAGATTTTGTTTCAAGGTAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTT
CAATGTTTATGTTTCAAGAGAAACTGTCTCAAGAGAGA
Found at i:130352 original size:37 final size:37
Alignment explanation
Indices: 130294--130366 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
130284 TCAATGTTTA
* *
130294 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* *
130331 TGTTTCAAG-GTAACCTATCTCAAGAGAGATAAAATT
1 TGTTTCAAGAG-AAACTATCTCAAGAGAGACAAAATT
130367 CATTTCAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.03
37 30 0.97
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
Found at i:130454 original size:102 final size:102
Alignment explanation
Indices: 130244--130477 Score: 299
Period size: 102 Copynumber: 2.3 Consensus size: 102
130234 CAAGAGAAAC
130244 TATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTTCAATGTTTATGTTTCAAGAGAAAC
1 TATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTTCAATGTTTATGTTTCAAGAGAAAC
* * * * * **
130309 TGTCTCAAGGGAGACAAAATTTTGTTTCAAGGTAACC
66 TGTCTCAAGAGAGACAAAACTTAGTTTAAAAGTAAAA
* * *
130346 TATCTCAAGAGAGATAAAATTCATTTCAAGGGAACTTTTTTCAATGTTTATGTTTCAAGAGAAAC
1 TATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTTCAATGTTTATGTTTCAAGAGAAAC
**
130411 TGTCTCAAGAGAGATGAAACTTAGTTCTAAAAG-AAAA
66 TGTCTCAAGAGAGACAAAACTTAGTT-TAAAAGTAAAA
* * * **
130448 TGTCTCAAGGGAGACGAAATTTGTTTCAAG
1 TATCTCAAGAGAGACAAAATTCATTTCAAG
130478 AGAGACAAAA
Statistics
Matches: 113, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
102 109 0.96
103 4 0.04
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (102 bp):
TATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTTCAATGTTTATGTTTCAAGAGAAAC
TGTCTCAAGAGAGACAAAACTTAGTTTAAAAGTAAAA
Found at i:130480 original size:19 final size:21
Alignment explanation
Indices: 130452--130501 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
130442 AGAAAATGTC
* *
130452 TCAAGGGAGACGAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
*
130473 TCAAGAGAGACAAAATTTTTT
1 TCAAGAGAGACAAAATTTGTT
130494 TCAAGAGA
1 TCAAGAGA
130502 AATTATCTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:130681 original size:72 final size:71
Alignment explanation
Indices: 130516--130763 Score: 261
Period size: 72 Copynumber: 3.4 Consensus size: 71
130506 ATCTCAAGAG
*
130516 AGACAAATCT-TCTTTAA-AAAAACAGTCTTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAAC
1 AGACAAATCTGT-TTTAAGAAAAACAATCTTGAGTGAAAT-AAAT--CTTCTTTCGAGT-AAAAC
* * *
130579 GGTCCCAA-GA
61 AGTCTCAATTA
*
130589 GAGACAAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAATAAATCTTCTTCCGAGTAAAACAGT
1 -AGACAAATC-TGTTTTAAGAAAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAGT
130654 CTCAATTA
64 CTCAATTA
* * * * *
130662 AGACAAAGTCTATTTTAAGAAAAGCAAACTTGAGTCAAATAAATCTTCTTTCGAGTAAAATAGTC
1 AGACAAA-TCTGTTTTAAGAAAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAGTC
*
130727 TC-ATGTG
65 TCAAT-TA
* *
130734 AGACAAAGTATGCTTTAAGAAAAACAATCT
1 AGACAAA-TCTGTTTTAAGAAAAACAATCT
130764 CAAATGAGAT
Statistics
Matches: 151, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
71 2 0.01
72 95 0.63
73 14 0.09
74 9 0.06
75 10 0.07
76 21 0.14
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (71 bp):
AGACAAATCTGTTTTAAGAAAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAGTCT
CAATTA
Found at i:132240 original size:3 final size:3
Alignment explanation
Indices: 132232--132299 Score: 95
Period size: 3 Copynumber: 23.0 Consensus size: 3
132222 TATATTATAT
* *
132232 TTA TTA TTA TATA CTA -TA ATA TTA -TA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
132276 TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
132300 CTAATATCAT
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 4 0.07
3 54 0.90
4 2 0.03
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:141331 original size:33 final size:32
Alignment explanation
Indices: 141233--141367 Score: 191
Period size: 32 Copynumber: 4.2 Consensus size: 32
141223 AAGCAATAGA
*
141233 GGGCATCTTTGAAGATTCAACATCAAA-GTTTG
1 GGGCATCTTTGGAGATTCAACATCAAATG-TTG
141265 GGGCATCTTTGGAGATTCAACATCAAATGTTG
1 GGGCATCTTTGGAGATTCAACATCAAATGTTG
141297 GGGCATCTTTGGAGATTCAACATCAAAATGTTG
1 GGGCATCTTTGGAGATTCAACATC-AAATGTTG
** * * *
141330 GGGCATCTTTGCTGATTCAATATCGAATATTG
1 GGGCATCTTTGGAGATTCAACATCAAATGTTG
141362 GGGCAT
1 GGGCAT
141368 TCAATATCCT
Statistics
Matches: 95, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
32 65 0.68
33 30 0.32
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (32 bp):
GGGCATCTTTGGAGATTCAACATCAAATGTTG
Found at i:141363 original size:65 final size:64
Alignment explanation
Indices: 141233--141367 Score: 198
Period size: 65 Copynumber: 2.1 Consensus size: 64
141223 AAGCAATAGA
* * *
141233 GGGCATCTTTGAAGATTCAACATCAAAGTTTGGGGCATCTTTGGAGATTCAACATCAAATGTTG
1 GGGCATCTTTGAAGATTCAACATCAAAATTTGGGGCATCTTTGCAGATTCAACATCAAATATTG
* * * *
141297 GGGCATCTTTGGAGATTCAACATCAAAATGTTGGGGCATCTTTGCTGATTCAATATCGAATATTG
1 GGGCATCTTTGAAGATTCAACATCAAAAT-TTGGGGCATCTTTGCAGATTCAACATCAAATATTG
141362 GGGCAT
1 GGGCAT
141368 TCAATATCCT
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
64 27 0.43
65 36 0.57
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (64 bp):
GGGCATCTTTGAAGATTCAACATCAAAATTTGGGGCATCTTTGCAGATTCAACATCAAATATTG
Found at i:141494 original size:34 final size:33
Alignment explanation
Indices: 141464--141560 Score: 108
Period size: 34 Copynumber: 2.9 Consensus size: 33
141454 TGTTTCTCTT
*
141464 AAAA-AAAATTGTCTCACTTGAGATAATTTCTC
1 AAAACAAAATTGTCTCACTTGAGACAATTTCTC
**
141496 AAAACCAATTTTGTCTCACTTGAGACAATTTCTC
1 AAAA-CAAAATTGTCTCACTTGAGACAATTTCTC
**
141530 AAAAC-AAATTCCGTCTTGCTTGAGACAATTT
1 AAAACAAAATT--GTCTCACTTGAGACAATTT
141561 TTCTCTGAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
32 7 0.13
33 1 0.02
34 46 0.85
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (33 bp):
AAAACAAAATTGTCTCACTTGAGACAATTTCTC
Found at i:141911 original size:15 final size:15
Alignment explanation
Indices: 141891--141931 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
141881 GAAAAATTTT
141891 GTCTCCCTTGAGACA
1 GTCTCCCTTGAGACA
141906 GTCTCCCTTGAGACA
1 GTCTCCCTTGAGACA
*
141921 GTTTCCCTTGA
1 GTCTCCCTTGA
141932 AACAAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.17, C:0.32, G:0.20, T:0.32
Consensus pattern (15 bp):
GTCTCCCTTGAGACA
Found at i:141946 original size:36 final size:36
Alignment explanation
Indices: 141906--142060 Score: 231
Period size: 36 Copynumber: 4.3 Consensus size: 36
141896 CCTTGAGACA
* *
141906 GTCTCCCTTGAGACAGTTTCCCTTGAAACAAATATT
1 GTCTCCCTTGAGACAGTTTCCCTCGAAACAAATTTT
*
141942 GTCTCCCTTGAGA-AGGTTTCCCTCGAAATAAATTTT
1 GTCTCCCTTGAGACA-GTTTCCCTCGAAACAAATTTT
* *
141978 GTCTCCCTTGAGACAATTTCCCTTGAAACAAATTTT
1 GTCTCCCTTGAGACAGTTTCCCTCGAAACAAATTTT
* *
142014 GTCTCCCTTGAGACAGTTTCTCTCGAAACAAGTTTT
1 GTCTCCCTTGAGACAGTTTCCCTCGAAACAAATTTT
142050 GTCTCCCTTGA
1 GTCTCCCTTGA
142061 AACACATTTT
Statistics
Matches: 107, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
35 1 0.01
36 105 0.98
37 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (36 bp):
GTCTCCCTTGAGACAGTTTCCCTCGAAACAAATTTT
Found at i:142022 original size:21 final size:21
Alignment explanation
Indices: 141960--142081 Score: 88
Period size: 21 Copynumber: 6.4 Consensus size: 21
141950 TGAGAAGGTT
* *
141960 TCCCTCGAAATAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
*
141981 TCCCTTGAGAC-AA---T-T-
1 TCCCTTGAAACAAATTTTGTC
141996 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
* *
142017 TCCCTTGAGAC--A-GTT-TC
1 TCCCTTGAAACAAATTTTGTC
* *
142034 T--CTCGAAACAAGTTTTGTC
1 TCCCTTGAAACAAATTTTGTC
*
142053 TCCCTTGAAACACATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
142074 TCCCTTGA
1 TCCCTTGA
142082 GACAGTTTCC
Statistics
Matches: 76, Mismatches: 13, Indels: 24
0.67 0.12 0.21
Matches are distributed among these distances:
15 16 0.21
16 3 0.04
17 4 0.05
18 4 0.05
19 5 0.07
20 3 0.04
21 41 0.54
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (21 bp):
TCCCTTGAAACAAATTTTGTC
Found at i:142070 original size:57 final size:57
Alignment explanation
Indices: 141996--142117 Score: 192
Period size: 57 Copynumber: 2.1 Consensus size: 57
141986 TGAGACAATT
*
141996 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTC-TCGAAACAAGTTTTGTC
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTC-CATCGAAACAAATTTTGTC
* *
142053 TCCCTTGAAACACATTTTGTCTCCCTTGAGACAGTTTCCATTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCATCGAAACAAATTTTGTC
*
142110 TCTCTTGA
1 TCCCTTGA
142118 GACGGTTTCC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
56 1 0.02
57 59 0.98
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.38
Consensus pattern (57 bp):
TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCATCGAAACAAATTTTGTC
Found at i:142083 original size:93 final size:91
Alignment explanation
Indices: 141973--142226 Score: 318
Period size: 93 Copynumber: 2.8 Consensus size: 91
141963 CTCGAAATAA
*
141973 ATTTTGTCTCCCTTGAGACAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTC
1 ATTTTGTCTCCCTTGAGACAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTC
*
142038 GAAACAAGTTTTGTCTCCCTTGAAACAC
66 GAAACAAATTTTGTCTCCCTTG--ACAC
* * * * *
142066 ATTTTGTCTCCCTTGAGACAGTTTCCATTGAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTT
1 ATTTTGTCTCCCTTGAGACAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTC
*
142131 GAAACAAATTTTGTCTCCCTTGAGAC
66 GAAACAAATTTTGTCTCCCTTGACAC
* * * * *
142157 A----GTCTCCCTTGAGACAATTTCACTTGAAACAAAAGATTTTATCTCGCTTGAGATAGTTTCG
1 ATTTTGTCTCCCTTGAGACAATTTCCCTTGAAAC--AA-ATTTTGTCTCCCTTGAGACAGTTTCC
142218 CTCGAAACA
63 CTCGAAACA
142227 CAATATTTTT
Statistics
Matches: 141, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
87 26 0.18
89 2 0.01
90 29 0.21
91 4 0.03
93 80 0.57
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.36
Consensus pattern (91 bp):
ATTTTGTCTCCCTTGAGACAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTC
GAAACAAATTTTGTCTCCCTTGACAC
Found at i:142106 original size:36 final size:36
Alignment explanation
Indices: 142053--142173 Score: 188
Period size: 36 Copynumber: 3.4 Consensus size: 36
142043 AAGTTTTGTC
*
142053 TCCCTTGAAACACATTTTGTCTCCCTTGAGACAGTT
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTT
* * *
142089 TCCATTGAAACAAATTTTGTCTCTCTTGAGACGGTT
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTT
*
142125 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTC
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTT
*
142161 TCCCTTGAGACAA
1 TCCCTTGAAACAA
142174 TTTCACTTGA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 76 1.00
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.35
Consensus pattern (36 bp):
TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTT
Found at i:142163 original size:15 final size:15
Alignment explanation
Indices: 142143--142172 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
142133 AACAAATTTT
142143 GTCTCCCTTGAGACA
1 GTCTCCCTTGAGACA
142158 GTCTCCCTTGAGACA
1 GTCTCCCTTGAGACA
142173 ATTTCACTTG
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:0.20, C:0.33, G:0.20, T:0.27
Consensus pattern (15 bp):
GTCTCCCTTGAGACA
Found at i:142225 original size:39 final size:39
Alignment explanation
Indices: 142159--142235 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 39
142149 CTTGAGACAG
*
142159 TCTCCCTTGAGACAATTTCACTTGAAACAAAAGATTTTA
1 TCTCCCTTGAGACAATTTCACTCGAAACAAAAGATTTTA
* * * * * *
142198 TCTCGCTTGAGATAGTTTCGCTCGAAACACAATATTTT
1 TCTCCCTTGAGACAATTTCACTCGAAACAAAAGATTTT
142236 TAGAAACTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (39 bp):
TCTCCCTTGAGACAATTTCACTCGAAACAAAAGATTTTA
Found at i:142235 original size:129 final size:121
Alignment explanation
Indices: 141884--142226 Score: 416
Period size: 129 Copynumber: 2.7 Consensus size: 121
141874 CGAAACAGAA
* *
141884 AAATTTTGTCTCCCTTGAGACAGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATATTGTCTCCC
1 AAATTTTGTCTCCCTTGAGACAGTCTCCCTTGAGACAATTTCCCTTGAAACAAATTTTGTCTCCC
*
141949 TTGAGAAGGTTTCCCTCGAAATAAATTTTGTCTCCCTTGAGACAATTTCCCTTGAAAC
66 TTGAGAA-GTTT-CCTCGAAACAAATTTTGTCTCCCTTGAGACAATTTCCCTTGAAAC
* * * * *
142007 AAATTTTGTCTCCCTTGAGACAGTTTCTCTCGAAACAAGTTTTGTCTCCCTTGAAACACATTTTG
1 AAATTTTGTCTCCCTTGAGACAGTCTCCCTTGAGACAA----T-T-TCCCTTGAAACAAATTTTG
* * **
142072 TCTCCCTTGAGACAGTTTCCATTGAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAAC
60 TCTCCCTTGAGA-AGTTTCC-TCGAAACAAATTTTGTCTCCCTTGAGACAATTTCCCTTGAAAC
* *
142136 AAATTTTGTCTCCCTTGAGACAGTCTCCCTTGAGACAATTTCACTTGAAACAAAAGATTTTATCT
1 AAATTTTGTCTCCCTTGAGACAGTCTCCCTTGAGACAATTTCCCTTGAAAC--AA-ATTTTGTCT
*
142201 CGCTTGAGATAGTTTCGCTCGAAACA
63 CCCTTGAGA-AGTTTC-CTCGAAACA
142227 CAATATTTTT
Statistics
Matches: 186, Mismatches: 22, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
123 43 0.23
124 1 0.01
125 2 0.01
126 29 0.16
127 2 0.01
128 3 0.02
129 105 0.56
130 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (121 bp):
AAATTTTGTCTCCCTTGAGACAGTCTCCCTTGAGACAATTTCCCTTGAAACAAATTTTGTCTCCC
TTGAGAAGTTTCCTCGAAACAAATTTTGTCTCCCTTGAGACAATTTCCCTTGAAAC
Found at i:142305 original size:43 final size:43
Alignment explanation
Indices: 142257--142683 Score: 369
Period size: 43 Copynumber: 9.4 Consensus size: 43
142247 CCTGATTTTC
*
142257 AGGGGTTTCTTGAAGAAAAGCTTGAGAAACCATCGTGATATGT
1 AGGGGTTTCTTGAAGAAAAGCTTGAGAGACCATCGTGATATGT
* *
142300 AGGGGTTTCTTGATGAAAAGCTTGATG-GACCGTCGTGATATGT
1 AGGGGTTTCTTGAAGAAAAGCTTGA-GAGACCATCGTGATATGT
*
142343 AGGGGTTCCTTGATGACAAATTTGATGACAAGCTTGA-AGGACCATCGTGATATGT
1 AGGGGTTTC-T--TG---AA---GA--A-AAGCTTGAGA-GACCATCGTGATATGT
* * *
142398 AGGGG-TTCTTTGAGGAAAAGCTTGAGAAACCATCGCGATATGT
1 AGGGGTTTC-TTGAAGAAAAGCTTGAGAGACCATCGTGATATGT
* * *
142441 AGGGGTTTCTTGATGAAAAGCTTGAGGGACCGTCGTGATATGT
1 AGGGGTTTCTTGAAGAAAAGCTTGAGAGACCATCGTGATATGT
*
142484 AGGGGTTCCTTGAAGACAAATTTGATGACAAGCTTGA-AGGACCATCGTGATATGT
1 AGGGGTTTCTT---G---AA---GA--A-AAGCTTGAGA-GACCATCGTGATATGT
*
142539 AGGGGTTTCTTGATA-AAAAGCTTGAGGGACCATCGTGATATGT
1 AGGGGTTTCTTGA-AGAAAAGCTTGAGAGACCATCGTGATATGT
* * * * *
142582 AGGGGTTCCTTGATGACAAGCTTGAGAAACCATCATGATATGT
1 AGGGGTTTCTTGAAGAAAAGCTTGAGAGACCATCGTGATATGT
* * *
142625 AGGGGTTTCTTGATGAAAAGTTTGAGGGACCATCGTGATATGT
1 AGGGGTTTCTTGAAGAAAAGCTTGAGAGACCATCGTGATATGT
*
142668 AGGAGTTTCTTGAAGA
1 AGGGGTTTCTTGAAGA
142684 CAAATTTGAT
Statistics
Matches: 316, Mismatches: 35, Indels: 66
0.76 0.08 0.16
Matches are distributed among these distances:
43 223 0.71
44 8 0.03
46 6 0.02
49 4 0.01
50 1 0.00
52 7 0.02
54 6 0.02
55 61 0.19
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (43 bp):
AGGGGTTTCTTGAAGAAAAGCTTGAGAGACCATCGTGATATGT
Found at i:142376 original size:55 final size:55
Alignment explanation
Indices: 142309--142552 Score: 196
Period size: 55 Copynumber: 4.9 Consensus size: 55
142299 TAGGGGTTTC
*
142309 TTGATGAAAAGCTTGATGGACCGTCGTGATATGTAGGGGTTCCTTGATGACAAAT
1 TTGATGAAAAGCTTGAAGGACCGTCGTGATATGTAGGGGTTCCTTGATGACAAAT
* *
142364 TTGATGACAAGCTTGAAGGACCATCGTGATATGTAGGGGTT-CTT--TG----A-
1 TTGATGAAAAGCTTGAAGGACCGTCGTGATATGTAGGGGTTCCTTGATGACAAAT
* * * *
142411 --G--GAAAAGCTTGAGA-AACCATCGCGATATGTAGGGGTT-T-------C----
1 TTGATGAAAAGCTTGA-AGGACCGTCGTGATATGTAGGGGTTCCTTGATGACAAAT
* *
142450 TTGATGAAAAGCTTGAGGGACCGTCGTGATATGTAGGGGTTCCTTGAAGACAAAT
1 TTGATGAAAAGCTTGAAGGACCGTCGTGATATGTAGGGGTTCCTTGATGACAAAT
* * *
142505 TTGATGACAAGCTTGAAGGACCATCGTGATATGTAGGGGTTTCTTGAT
1 TTGATGAAAAGCTTGAAGGACCGTCGTGATATGTAGGGGTTCCTTGAT
142553 AAAAAGCTTG
Statistics
Matches: 153, Mismatches: 17, Indels: 38
0.74 0.08 0.18
Matches are distributed among these distances:
41 1 0.01
43 62 0.41
44 1 0.01
45 1 0.01
48 1 0.01
51 1 0.01
52 2 0.01
54 3 0.02
55 81 0.53
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (55 bp):
TTGATGAAAAGCTTGAAGGACCGTCGTGATATGTAGGGGTTCCTTGATGACAAAT
Found at i:142444 original size:141 final size:140
Alignment explanation
Indices: 142257--142649 Score: 612
Period size: 141 Copynumber: 2.8 Consensus size: 140
142247 CCTGATTTTC
142257 AGGGGTTTCTTGAAGAAAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAGCT
1 AGGGGTTTCTTGAAGAAAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAGCT
142322 TGATGGACCGTCGTGATATGTAGGGGTTCCTTGATGACAAATTTGATGACAAGCTTGAAGGACCA
66 TGA-GGACCGTCGTGATATGTAGGGGTTCCTTGATGACAAATTTGATGACAAGCTTGAAGGACCA
142387 TCGTGATATGT
130 TCGTGATATGT
* *
142398 AGGGG-TTCTTTGAGGAAAAGCTTGAGAAACCATCGCGATATGTAGGGGTTTCTTGATGAAAAGC
1 AGGGGTTTC-TTGAAGAAAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAGC
*
142462 TTGAGGGACCGTCGTGATATGTAGGGGTTCCTTGAAGACAAATTTGATGACAAGCTTGAAGGACC
65 TTGA-GGACCGTCGTGATATGTAGGGGTTCCTTGATGACAAATTTGATGACAAGCTTGAAGGACC
142527 ATCGTGATATGT
129 ATCGTGATATGT
** * *
142539 AGGGGTTTCTTGATA-AAAAGCTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAGC
1 AGGGGTTTCTTGA-AGAAAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAGC
* * * *
142603 TTGAGAAACCATCATGATATGTAGGGGTTTCTTGATGA-AAAGTTTGA
65 TTGAG-GACCGTCGTGATATGTAGGGGTTCCTTGATGACAAA-TTTGA
142650 GGGACCATCG
Statistics
Matches: 232, Mismatches: 15, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
140 7 0.03
141 222 0.96
142 3 0.01
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (140 bp):
AGGGGTTTCTTGAAGAAAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAGCT
TGAGGACCGTCGTGATATGTAGGGGTTCCTTGATGACAAATTTGATGACAAGCTTGAAGGACCAT
CGTGATATGT
Found at i:142571 original size:184 final size:183
Alignment explanation
Indices: 142372--142733 Score: 582
Period size: 184 Copynumber: 2.0 Consensus size: 183
142362 ATTTGATGAC
* *
142372 AAGCTTGAAGGACCATCGTGATATGTAGGGGTTCTTTGAGGAAAAGCTTGAGAAACCATCGCGAT
1 AAGCTTGAAGGACCATCGTGATATGTAGGGGTTCCTTGAGGAAAAGCTTGAGAAACCATCACGAT
* *
142437 ATGTAGGGGTTTCTTGATGAAAAGCTTGAGGGACCGTCGTGATATGTAGGGGTTCCTTGAAGACA
66 ATGTAGGGGTTTCTTGATGAAAAGCTTGAGGGACCATCGTGATATGTAGGAGTTCCTTGAAGACA
* *
142502 AATTTGATGA-CAAGCTTGAAGGACCATCGTGATATGTAGGGGTTTCTTGATAAA
131 AATTTGATGAGC-A-CTTGAAGGACCAACGTGATATGTAGGGGTTCCTTGATAAA
* * * *
142556 AAGCTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAGCTTGAGAAACCATCATGAT
1 AAGCTTGAAGGACCATCGTGATATGTAGGGGTTCCTTGAGGAAAAGCTTGAGAAACCATCACGAT
* *
142621 ATGTAGGGGTTTCTTGATGAAAAGTTTGAGGGACCATCGTGATATGTAGGAGTTTCTTGAAGACA
66 ATGTAGGGGTTTCTTGATGAAAAGCTTGAGGGACCATCGTGATATGTAGGAGTTCCTTGAAGACA
*
142686 AATTTGATGAGCACTTGAGGGACCAACGTGATATGTAGGGGTTCCTTG
131 AATTTGATGAGCACTTGAAGGACCAACGTGATATGTAGGGGTTCCTTG
142734 GTGACAATTT
Statistics
Matches: 164, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
183 32 0.20
184 131 0.80
185 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (183 bp):
AAGCTTGAAGGACCATCGTGATATGTAGGGGTTCCTTGAGGAAAAGCTTGAGAAACCATCACGAT
ATGTAGGGGTTTCTTGATGAAAAGCTTGAGGGACCATCGTGATATGTAGGAGTTCCTTGAAGACA
AATTTGATGAGCACTTGAAGGACCAACGTGATATGTAGGGGTTCCTTGATAAA
Found at i:142981 original size:91 final size:89
Alignment explanation
Indices: 142769--143164 Score: 601
Period size: 87 Copynumber: 4.5 Consensus size: 89
142759 ATTTTCAAGA
* *
142769 GTTTCTTGA-TTTTTAAGTCCTTCGGCCATCCATAAGACCTTCAGTGCAAGATG-TTTCAAATGA
1 GTTTCTTGATTTTTTAAGTCCTTCGGCCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
*
142832 GATCTAA-AAACTGAGCCTTCGGG
66 GATTTAAGAAACTGAGCCTTCGGG
*
142855 GTTTCTTGA-TTTTTAAGTCCTTCGGACCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATA
1 GTTTCTTGATTTTTTAAGTCCTTCGG-CCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATG
142919 AGATTTAAGAAACTGAGCCTTCGGGG
65 AGATTTAAGAAACTGAGCCTTC-GGG
*
142945 GTTTCTTGATTTTTTAAGTCCTTCGAGCTATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATG
1 GTTTCTTGATTTTTTAAGTCCTTCG-GCCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATG
143010 AGATTTAAGAAACTGAGCCTTCGGG
65 AGATTTAAGAAACTGAGCCTTCGGG
*
143035 GTTTCTTGATTTTTTAAGTCCTTTGGCCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAAT--
1 GTTTCTTGATTTTTTAAGTCCTTCGGCCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
* *
143098 GATTTAAGAAACT-AACCTTCAGTG
66 GATTTAAGAAACTGAGCCTTC-GGG
* *
143122 GTTTCTTGATTTTTTAAGTCCTTCAGG-CAACCATAAGACCTTC
1 GTTTCTTGATTTTTTAAGTCCTTC-GGCCATCCGTAAGACCTTC
143165 GGGCAAAATG
Statistics
Matches: 289, Mismatches: 13, Indels: 15
0.91 0.04 0.05
Matches are distributed among these distances:
86 31 0.11
87 78 0.27
88 17 0.06
89 50 0.17
90 39 0.13
91 73 0.25
92 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (89 bp):
GTTTCTTGATTTTTTAAGTCCTTCGGCCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
GATTTAAGAAACTGAGCCTTCGGG
Found at i:143041 original size:180 final size:174
Alignment explanation
Indices: 142769--143181 Score: 618
Period size: 180 Copynumber: 2.3 Consensus size: 174
142759 ATTTTCAAGA
142769 GTTTCTTGA-TTTTTAAGTCCTTCGGCCATCCATAAGACCTTCAGTGCAAGATGTTTCAAATGAG
1 GTTTCTTGATTTTTTAAGTCCTTCGGCCATCCATAAGACCTTCAGTGCAAGATGTTTCAAATGAG
142833 ATCTAAAAACTGAGCCTTCGGGGTTTCTTGA-TTTTTAAGTCCTTCGGACCATCCGTAAGACCTT
66 ATCTAAAAACTGAGCCTTCGGGGTTTCTTGATTTTTTAAGTCCTTCGG-CCATCCGTAAGACCTT
* *
142897 CAGTGCAGGATGTTTTCAAATAAGATTTAAGAAACTGAGCCTTCGGGG
130 CAGTGCAGGATGTTTTCAAAT--GATTTAAGAAACT-AACCTTCAGGG
* * *
142945 GTTTCTTGATTTTTTAAGTCCTTCGAGCTATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATG
1 GTTTCTTGATTTTTTAAGTCCTTCG-GCCATCCATAAGACCTTCAGTGCAAGATG-TTTCAAATG
* *
143010 AGATTTAAGAAACTGAGCCTTCGGGGTTTCTTGATTTTTTAAGTCCTTTGGCCATCCGTAAGACC
64 AGATCTAA-AAACTGAGCCTTCGGGGTTTCTTGATTTTTTAAGTCCTTCGGCCATCCGTAAGACC
*
143075 TTCAGTGCAGGATGTTTTCAAATGATTTAAGAAACTAACCTTCAGTG
128 TTCAGTGCAGGATGTTTTCAAATGATTTAAGAAACTAACCTTCAGGG
* * *
143122 GTTTCTTGATTTTTTAAGTCCTTCAGG-CAACCATAAGACCTTC-GGGCAAAATGCTTTCAA
1 GTTTCTTGATTTTTTAAGTCCTTC-GGCCATCCATAAGACCTTCAGTGCAAGATG-TTTCAA
143182 CATTTTCATT
Statistics
Matches: 216, Mismatches: 15, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
175 13 0.06
176 22 0.10
177 48 0.22
178 40 0.19
179 16 0.07
180 62 0.29
181 15 0.07
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (174 bp):
GTTTCTTGATTTTTTAAGTCCTTCGGCCATCCATAAGACCTTCAGTGCAAGATGTTTCAAATGAG
ATCTAAAAACTGAGCCTTCGGGGTTTCTTGATTTTTTAAGTCCTTCGGCCATCCGTAAGACCTTC
AGTGCAGGATGTTTTCAAATGATTTAAGAAACTAACCTTCAGGG
Found at i:143359 original size:12 final size:11
Alignment explanation
Indices: 143344--143412 Score: 77
Period size: 12 Copynumber: 5.9 Consensus size: 11
143334 TTAAAATATA
143344 TATTATATTTAT
1 TATTAT-TTTAT
143356 TATTATATTCTA-
1 TATTAT-TT-TAT
143368 TATTATTATTAT
1 TATTATT-TTAT
*
143380 TATTATATTAT
1 TATTATTTTAT
143391 TATTATTATTAT
1 TATTATT-TTAT
143403 TATTATTTTA
1 TATTATTTTA
143413 CAATATTTGC
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
11 16 0.31
12 33 0.65
13 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:143360 original size:3 final size:3
Alignment explanation
Indices: 143352--143409 Score: 84
Period size: 3 Copynumber: 19.7 Consensus size: 3
143342 TATATTATAT
*
143352 TTA TTA TTA -TA TTC TATA TTA TTA TTA TTA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
143396 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
143410 TTACAATATT
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 4 0.08
3 44 0.88
4 2 0.04
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:143364 original size:17 final size:18
Alignment explanation
Indices: 143344--143402 Score: 86
Period size: 17 Copynumber: 3.3 Consensus size: 18
143334 TTAAAATATA
143344 TATTATATTTATTATTA-
1 TATTATATTTATTATTAT
*
143361 TATTCTATATTATTATTAT
1 TATTATAT-TTATTATTAT
143380 TATTATA-TTATTATTAT
1 TATTATATTTATTATTAT
143397 TATTAT
1 TATTAT
143403 TATTATTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
17 23 0.61
18 9 0.24
19 6 0.16
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TATTATATTTATTATTAT
Found at i:146502 original size:18 final size:19
Alignment explanation
Indices: 146479--146515 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
146469 ATTTTACACT
146479 TAGGGA-ACCGATTCCCCA
1 TAGGGAGACCGATTCCCCA
146497 TAGGGAGTACCGATTCCCC
1 TAGGGAG-ACCGATTCCCC
146516 CCACGTTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.19
Consensus pattern (19 bp):
TAGGGAGACCGATTCCCCA
Found at i:148591 original size:12 final size:12
Alignment explanation
Indices: 148574--148598 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
148564 AGTCTCTTGA
148574 ATTTCTATTTTT
1 ATTTCTATTTTT
148586 ATTTCTATTTTT
1 ATTTCTATTTTT
148598 A
1 A
148599 CTGTTTTAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (12 bp):
ATTTCTATTTTT
Found at i:148964 original size:2 final size:2
Alignment explanation
Indices: 148957--149013 Score: 57
Period size: 2 Copynumber: 29.0 Consensus size: 2
148947 CTATGTCGTT
* *
148957 TA TA TA TA T- TA TA TCA TA T- TA T- TCA TA TA TG TG TA TA TA TA
1 TA TA TA TA TA TA TA T-A TA TA TA TA T-A TA TA TA TA TA TA TA TA
148998 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
149014 AATTAATTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
1 3 0.06
2 42 0.88
3 3 0.06
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:152638 original size:20 final size:20
Alignment explanation
Indices: 152613--152657 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
152603 ACGTTGGTCA
*
152613 AACATTAAACCTTTAAAATG
1 AACATTAAACCTTCAAAATG
*
152633 AACATTGAACCTTCAAAATG
1 AACATTAAACCTTCAAAATG
152653 AACAT
1 AACAT
152658 CTCAATTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.18, G:0.07, T:0.27
Consensus pattern (20 bp):
AACATTAAACCTTCAAAATG
Done.