Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_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: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 55
Found at i:2758076 original size:20 final size:22
Alignment explanation
Indices: 2758051--2758090 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
2758041 TATGAATTTA
2758051 TTTTAAAAT-AT-TTATTTAAT
1 TTTTAAAATCATATTATTTAAT
2758071 TTTTAAAATCATATTATTTA
1 TTTTAAAATCATATTATTTA
2758091 TTTATTAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTAAAATCATATTATTTAAT
Found at i:2758094 original size:19 final size:18
Alignment explanation
Indices: 2758046--2758093 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 18
2758036 AATATTATGA
2758046 ATTTATTTTAAAATATTT
1 ATTTATTTTAAAATATTT
2758064 ATTTAATTTTTAAAATCATATT
1 ATTT-A-TTTTAAAAT-AT-TT
2758086 ATTTATTT
1 ATTTATTT
2758094 ATTAGTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 4 0.15
19 1 0.04
20 12 0.46
21 3 0.12
22 6 0.23
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTATTTTAAAATATTT
Found at i:2758107 original size:23 final size:22
Alignment explanation
Indices: 2758034--2758135 Score: 91
Period size: 23 Copynumber: 4.5 Consensus size: 22
2758024 AGGCATATTT
**
2758034 ATAATATTATGAATTTATTTTA
1 ATAATATTATTTATTTATTTTA
**
2758056 A-AATATTTATTTAATTT-TTAAA
1 ATAATA-TTATTT-ATTTATTTTA
* *
2758078 ATCATATTATTTATTTATTAGTA
1 ATAATATTATTTATTTATT-TTA
*
2758101 ATAATATTAATTATTTATTTTCA
1 ATAATATTATTTATTTATTTT-A
2758124 ATAATATTATTT
1 ATAATATTATTT
2758136 TTAAATTATC
Statistics
Matches: 63, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
21 8 0.13
22 18 0.29
23 37 0.59
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
ATAATATTATTTATTTATTTTA
Found at i:2759448 original size:18 final size:17
Alignment explanation
Indices: 2759415--2759448 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2759405 ATATTGTGAT
*
2759415 TTGTTGAGAAAGAAAAG
1 TTGTTGAGAAAAAAAAG
2759432 TTGTGTGAGAAAAAAAA
1 TTGT-TGAGAAAAAAAA
2759449 TTAAATTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (17 bp):
TTGTTGAGAAAAAAAAG
Found at i:2761854 original size:15 final size:14
Alignment explanation
Indices: 2761830--2761871 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
2761820 TGACAGTAAG
*
2761830 TTTCTCTTCTTTCTT
1 TTTCTTTTCTTTC-T
2761845 TTTCTTTTCTTTCT
1 TTTCTTTTCTTTCT
2761859 TTTCTGTTTCTTT
1 TTTCT-TTTCTTT
2761872 GCTGATGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTCTTTCT
Found at i:2761862 original size:20 final size:20
Alignment explanation
Indices: 2761830--2761871 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2761820 TGACAGTAAG
*
2761830 TTTCTCTTCTTTCTTTTTCT
1 TTTCTCTTCTTTCTGTTTCT
2761850 TTTCT-TTCTTTTCTGTTTCT
1 TTTCTCTTC-TTTCTGTTTCT
2761870 TT
1 TT
2761872 GCTGATGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTCTCTTCTTTCTGTTTCT
Found at i:2762393 original size:3 final size:3
Alignment explanation
Indices: 2762385--2762456 Score: 126
Period size: 3 Copynumber: 24.0 Consensus size: 3
2762375 TTAATATATT
* *
2762385 TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2762433 TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
2762457 ATCCATATGG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2762777 original size:36 final size:38
Alignment explanation
Indices: 2762736--2762839 Score: 131
Period size: 41 Copynumber: 2.7 Consensus size: 38
2762726 AAGGTTAAAC
2762736 AAGTTCTTCTCATTATGAACTTC-CTT-TTCTTCAGAT
1 AAGTTCTTCTCATTATGAACTTCTCTTCTTCTTCAGAT
* *
2762772 GAGTTCTTCTCATTATGAACTCTCTTCTTCCTTCTTTAGAT
1 AAGTTCTTCTCATTATGAACT-TC-TCTT-CTTCTTCAGAT
*
2762813 AAATTCTTCTCATTATGAACTTTCTCT
1 AAGTTCTTCTCATTATGAAC-TTCTCT
2762840 GGAAAAGTTG
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
36 20 0.34
37 2 0.03
39 3 0.05
40 3 0.05
41 29 0.50
42 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.08, T:0.48
Consensus pattern (38 bp):
AAGTTCTTCTCATTATGAACTTCTCTTCTTCTTCAGAT
Found at i:2762954 original size:41 final size:40
Alignment explanation
Indices: 2762874--2762976 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 40
2762864 AAAGTCGAAC
*
2762874 AAATTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGAT
1 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* * *
2762914 GAGTTCTTCTCATTATGAACTCTTTTCTTCCTTCTTCAGAT
1 AAATTCTTCTCATTATGAACT-TCTTCTTCCTTCTTCAGAT
2762955 AAATTCTTCTCATTATGAACTT
1 AAATTCTTCTCATTATGAACTT
2762977 TCTCTGGAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 20 0.36
41 36 0.64
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.49
Consensus pattern (40 bp):
AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
Found at i:2762985 original size:142 final size:149
Alignment explanation
Indices: 2762715--2763092 Score: 517
Period size: 142 Copynumber: 2.6 Consensus size: 149
2762705 TAAGTGATGA
* ** *
2762715 ATTTGAACAAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTC--CT-TTTCTTCAGATGAGTT
1 ATTTAAAC-AAAAGGTCGAACAAATTCTTCTCATTATGAACTTCTTCTCTTTCTTCAGATGAGTT
*
2762777 CTTCTCATTATGAACTCTCTTCTTCCTTCTTTAGATAAATTCTTCTCATTATGAACTTTCTCTGG
65 CTTCTCATTATGAACTCTCTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTCTCTGG
*
2762842 AAAAG-T-T-GAT-GT-T-G
130 AAAAGTTATCCATAGTATGG
*
2762856 A-TTAAACTAAA-GTCGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTT
1 ATTTAAACAAAAGGTCGAACAAATTCTTCTCATTATGAACTTCTTC-TCTTTCTTCAGATGAGTT
*
2762919 CTTCTCATTATGAACTCTTTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTCTCTGG
65 CTTCTCATTATGAACTCTCTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTCTCTGG
2762984 AAAAGTTAATCCATCAAGTGATGG
130 AAAAGTT-ATCCAT--AGT-ATGG
* * *
2763008 ATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTT
1 ATTTAAACAAAAGGTCGAACAAATTCTTCTCATTATGAACTTCTTC-TCTTTCTTCAGATGAGTT
2763073 CTTCTCATTATGAACTCTCT
65 CTTCTCATTATGAACTCTCT
2763093 CTAGAAAAGA
Statistics
Matches: 207, Mismatches: 14, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
138 27 0.13
139 3 0.01
140 6 0.03
141 2 0.01
142 84 0.41
143 1 0.00
145 1 0.00
146 2 0.01
149 2 0.01
151 1 0.00
152 2 0.01
153 8 0.04
154 68 0.33
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.42
Consensus pattern (149 bp):
ATTTAAACAAAAGGTCGAACAAATTCTTCTCATTATGAACTTCTTCTCTTTCTTCAGATGAGTTC
TTCTCATTATGAACTCTCTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTCTCTGGA
AAAGTTATCCATAGTATGG
Found at i:2763116 original size:113 final size:113
Alignment explanation
Indices: 2762917--2763203 Score: 475
Period size: 113 Copynumber: 2.5 Consensus size: 113
2762907 TTCAGATGAG
* * * * *
2762917 TTCTTCTCATTATGAACTCTTTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTCTCT
1 TTCTTCTCATTATGAACT-TCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCT
* * * *
2762982 GGAAAAGTTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAA
65 AGAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACAAA
2763031 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTA
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTA
2763096 GAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACAAA
66 GAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACAAA
*
2763144 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATAAACTCT
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCT
2763204 TTTCTTCCTT
Statistics
Matches: 163, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
113 145 0.89
114 18 0.11
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTA
GAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACAAA
Found at i:2763213 original size:154 final size:154
Alignment explanation
Indices: 2763031--2763359 Score: 552
Period size: 154 Copynumber: 2.1 Consensus size: 154
2763021 GTTGAACAAA
* *
2763031 TTCTTCTCATTATGAACT-TCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCT
1 TTCTTCTCATTATGAACTCTCTTCATCCTTCTTCAGATAAATTCTTCTCATTATGAACTCTCTCT
2763095 AGAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAA
66 AGAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAA
2763160 CTTCTTCATCCTTCTTCAGATGAG
131 CTTCTTCATCCTTCTTCAGATGAG
* * * *
2763184 TTCTTCTCATTATAAACTCTTTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTCTCT
1 TTCTTCTCATTATGAACTCTCTTCATCCTTCTTCAGATAAATTCTTCTCATTATGAACTCTCTCT
* * * * *
2763249 GGAAAAGTTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
66 AGAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAA
2763314 CTTCTTCATCCTTCTTCAGATGAG
131 CTTCTTCATCCTTCTTCAGATGAG
2763338 TTCTTCTCATTATGAACTCTCT
1 TTCTTCTCATTATGAACTCTCT
2763360 CTGGAAAAGA
Statistics
Matches: 162, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
153 17 0.10
154 145 0.90
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (154 bp):
TTCTTCTCATTATGAACTCTCTTCATCCTTCTTCAGATAAATTCTTCTCATTATGAACTCTCTCT
AGAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAA
CTTCTTCATCCTTCTTCAGATGAG
Found at i:2763221 original size:41 final size:40
Alignment explanation
Indices: 2763141--2763243 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 40
2763131 AAGGTTGAAC
2763141 AAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGAT
1 AAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGAT
* * * * *
2763181 GAGTTCTTCTCATTATAAACTCTTTTCTTCCTTCTTCAGAT
1 AAATTCTTCTCATTATGAACT-TCTTCATCCTTCTTCAGAT
2763222 AAATTCTTCTCATTATGAACTT
1 AAATTCTTCTCATTATGAACTT
2763244 TCTCTGGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
40 19 0.35
41 35 0.65
ACGTcount: A:0.24, C:0.23, G:0.06, T:0.47
Consensus pattern (40 bp):
AAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGAT
Found at i:2763345 original size:267 final size:267
Alignment explanation
Indices: 2762857--2763472 Score: 1162
Period size: 267 Copynumber: 2.3 Consensus size: 267
2762847 TTGATGTTGA
* * * *
2762857 TTAAACTAAA-GTCGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCT
1 TTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCT
2762921 TCTCATTATGAACTCTTTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTCTCTGGAA
66 TCTCATTATGAACTCTTTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTCTCTGGAA
2762986 AAGTTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
131 AAGTTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
2763051 TTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTAGAAAAGATAATCCATCAAGT
196 TTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTAGAAAAGATAATCCATCAAGT
2763116 GATAGAT
261 GATAGAT
2763123 TTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCT
1 TTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCT
*
2763188 TCTCATTATAAACTCTTTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTCTCTGGAA
66 TCTCATTATGAACTCTTTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTCTCTGGAA
*
2763253 AAGTTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
131 AAGTTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
*
2763318 TTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAGATAATCCATCAAGT
196 TTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTAGAAAAGATAATCCATCAAGT
2763383 GATAGAT
261 GATAGAT
2763390 TTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCT
1 TTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCT
2763455 TCTCATTATGAACTCTTT
66 TCTCATTATGAACTCTTT
2763473 CTGGAAAAGA
Statistics
Matches: 341, Mismatches: 8, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
266 9 0.03
267 332 0.97
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (267 bp):
TTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCT
TCTCATTATGAACTCTTTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTCTCTGGAA
AAGTTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
TTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTAGAAAAGATAATCCATCAAGT
GATAGAT
Found at i:2763407 original size:113 final size:113
Alignment explanation
Indices: 2763184--2763507 Score: 540
Period size: 113 Copynumber: 2.9 Consensus size: 113
2763174 TTCAGATGAG
* * * * * *
2763184 TTCTTCTCATTATAAACTCTTTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTCTCT
1 TTCTTCTCATTATGAACT-TCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCT
* * * *
2763249 GGAAAAGTTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAA
65 GGAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACAAA
2763298 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTG
2763363 GAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACAAA
66 GAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACAAA
*
2763411 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTG
2763476 GAAAAGATAATCCATCAAGTGATAGATTTAAA
66 GAAAAGATAATCCATCAAGTGATAGATTTAAA
2763508 TCTTTGCTAA
Statistics
Matches: 199, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
113 182 0.91
114 17 0.09
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTG
GAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACAAA
Found at i:2764634 original size:83 final size:83
Alignment explanation
Indices: 2764397--2765226 Score: 1237
Period size: 83 Copynumber: 9.7 Consensus size: 83
2764387 TTGGTTTTGG
* *
2764397 GGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTACAGAAGATGCTATGAGCAAATTCA
1 GGTTC-TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCA
*
2764462 TCTTTCAACTTCAATGATTGGTTTT
65 TCTTTCAAATTCAATGA------TT
*
2764487 GGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCA
1 GGTTC-TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCA
2764552 TCTTTCAAATTCAATGATT
65 TCTTTCAAATTCAATGATT
* *
2764571 AGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCAT
1 GGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCAT
*
2764636 CTTCCAAATTCAATGATT
66 CTTTCAAATTCAATGATT
* *
2764654 GGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCAT
1 GGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCAT
*
2764719 CTTTCAACTTCAATGATTGGTTTT
66 CTTTCAAATTCAATGA------TT
* *
2764743 GGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTC
1 GGTTC-TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCATATTC
*
2764808 GTCTTTCAAATTCAATGATT
64 ATCTTTCAAATTCAATGATT
* *
2764828 AGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCAT
1 GGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCAT
*
2764893 CTTCCAAATTCAATGATT
66 CTTTCAAATTCAATGATT
* *
2764911 GGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCAT
1 GGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCAT
2764976 CTTTCAAATTCAATGATTGGTTTT
66 CTTTCAAATTCAATGA------TT
* *
2765000 GGGGTTCATACCAAACCAGATCAGAAAACTCAAAGAACACTTCCATAAGATGCTATGAGCATATT
1 --GGTTC-TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATT
2765065 CATCTTTCAAATTCAATGATT
63 CATCTTTCAAATTCAATGATT
*
2765086 GGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCAT
1 GGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCAT
2765151 CTTTCAAATTCAATGATT
66 CTTTCAAATTCAATGATT
*
2765169 GGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
1 GGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
2765227 CATGGCATTT
Statistics
Matches: 688, Mismatches: 35, Indels: 41
0.90 0.05 0.05
Matches are distributed among these distances:
83 387 0.56
84 57 0.08
85 5 0.01
86 2 0.00
89 9 0.01
90 126 0.18
91 30 0.04
92 72 0.10
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (83 bp):
GGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCAT
CTTTCAAATTCAATGATT
Found at i:2765043 original size:432 final size:424
Alignment explanation
Indices: 2764235--2765229 Score: 1467
Period size: 432 Copynumber: 2.3 Consensus size: 424
2764225 CCTACTGAAT
* * *
2764235 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCGTCTTTCAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTTTCAAATTCA
* *
2764300 ATGATTGG-T--TT-TACCAAACCAGATCAGATAACTCAAAGAACACTTACAGAAGATGCTATAA
65 ATGATTGGTTGGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
* * *
2764361 GCAAATTCATCTTTCAACTTCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTC
130 GCACATTCATCTTTCAAATTCAATGATTAG--TT---GTT-ATACCAAACCAGATCAGATAACTC
* *
2764426 AAAGAACACTTACAGAAGATGCTATGAGCAAATTCATCTTTCAACTTCAATGATTGGTTTTGGTT
189 AAAGAACACTTACAGAAGATGCTATGAGCAAATTCATCTTCCAAATTCAATGA-----TTTGGTT
2764491 CATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTT
249 CATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTT
*
2764556 TCAAATTCAATGATTAGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC
314 TCAAATTCAATGATTAGTTTTACCAAACCAGATCAGAAAACTCAAAGAACACTTCCAGAAGATGC
2764621 TATGAGCATATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAAC
379 TATGAGCATATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAAC
*
2764667 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTCAACTTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTCAAATTCAA
2764732 TGATTGGTTTTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
66 TGATTGG--TTGGTTC-TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-
* *
2764797 TGGGCACATTCGTCTTTCAAATTCAATGATTAG-T-TT-TACCAAACCAGATCAGATAACTCAAA
127 TGAGCACATTCATCTTTCAAATTCAATGATTAGTTGTTATACCAAACCAGATCAGATAACTCAAA
* * *
2764859 GAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAATTCAATGA-TTGGTTC-TGCCAA
192 GAACACTTACAGAAGATGCTATGAGCAAATTCATCTTCCAAATTCAATGATTTGGTTCATACCAA
*
2764922 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTC
257 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTCAAATTC
* *
2764987 AATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGAAAACTCAAAGAACACTTCCATAAGATG
322 AATGATTAG---T----TT--TACCAAACCAGATCAGAAAACTCAAAGAACACTTCCAGAAGATG
*
2765052 CTATGAGCATATTCATCTTTCAAATTCAATGATTGGTTCTGCCAAAC
378 CTATGAGCATATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAAC
*
2765099 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTTCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTCAAATTCAA
*
2765164 TGA----TTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
66 TGATTGGTTGGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
2765225 CACAT
131 CACAT
2765230 GGCATTTGTT
Statistics
Matches: 521, Mismatches: 25, Indels: 42
0.89 0.04 0.07
Matches are distributed among these distances:
423 77 0.15
424 15 0.03
425 46 0.09
426 8 0.02
430 74 0.14
431 29 0.06
432 195 0.37
434 1 0.00
436 3 0.01
438 46 0.09
439 27 0.05
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.28
Consensus pattern (424 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTCAAATTCAA
TGATTGGTTGGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
CACATTCATCTTTCAAATTCAATGATTAGTTGTTATACCAAACCAGATCAGATAACTCAAAGAAC
ACTTACAGAAGATGCTATGAGCAAATTCATCTTCCAAATTCAATGATTTGGTTCATACCAAACCA
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTCAAATTCAATG
ATTAGTTTTACCAAACCAGATCAGAAAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATT
CATCTTCCAAATTCAATGATTGGTTCTGCCAAAC
Found at i:2765164 original size:515 final size:516
Alignment explanation
Indices: 2764235--2765226 Score: 1738
Period size: 515 Copynumber: 1.9 Consensus size: 516
2764225 CCTACTGAAT
2764235 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCGTCTTTCAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCGTCTTTCAAATTCA
*
2764300 ATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTACAGAAGATGCTATAAGCAA
66 ATGATTAGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTACAGAAGATGCTATAAGCAA
* *
2764365 ATTCATCTTTCAACTTCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
131 ATTCATCTTCCAAATTCAATGA-----TTT-GGGTTCATACCAAACCAGATCAGATAACTCAAAG
*
2764430 AACACTTACAGAAGATGCTATGAGCAAATTCATCTTTCAACTTCAATGATTGGTTTTGGTTCATA
190 AACACTTACAGAAGATGCTATGAGCAAATTCATCTTTCAAATTCAATGATTGGTTTTGGTTCATA
*
2764495 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTCAA
255 CCAAACCAGATCAGAAAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTCAA
*
2764560 ATTCAATGATTAGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
320 ATTCAATGATTAGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
2764625 AGCATATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACA
385 AGCATATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACA
2764690 CTTCCAGAAGATGCTATGAGCAAATTCATCTTTCAACTTCAATGATTGGTTTTGGTTCATACCAA
450 CTTCCAGAAGATGCTATGAGCAAATTCATCTTTCAACTTCAATGATTGGTTTTGGTTCATACCAA
2764755 AC
515 AC
2764757 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCGTCTTTCAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCGTCTTTCAAATTCA
* * *
2764822 ATGATTAGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAT
66 ATGATTAGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTACAGAAGATGCTATAAGCAA
*
2764887 ATTCATCTTCCAAATTCAATGA-TT-GGTTC-TGCCAAACCAGATCAGATAACTCAAAGAACACT
131 ATTCATCTTCCAAATTCAATGATTTGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACT
* *
2764949 TCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTTGGGGTTCATACCAA
196 TACAGAAGATGCTATGAGCAAATTCATCTTTCAAATTCAATGATTGGTTTT--GGTTCATACCAA
* *
2765014 ACCAGATCAGAAAACTCAAAGAACACTTCCATAAGATGCTATGAGCATATTCATCTTTCAAATTC
259 ACCAGATCAGAAAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTCAAATTC
* *
2765079 AATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
324 AATGATTAGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
*
2765144 TATTCATCTTTCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTC
389 TATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTC
2765209 CAGAAGATGCTATGAGCA
454 CAGAAGATGCTATGAGCA
2765227 CATGGCATTT
Statistics
Matches: 451, Mismatches: 17, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
513 80 0.18
514 5 0.01
515 218 0.48
516 2 0.00
522 146 0.32
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.28
Consensus pattern (516 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCGTCTTTCAAATTCA
ATGATTAGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTACAGAAGATGCTATAAGCAA
ATTCATCTTCCAAATTCAATGATTTGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACT
TACAGAAGATGCTATGAGCAAATTCATCTTTCAAATTCAATGATTGGTTTTGGTTCATACCAAAC
CAGATCAGAAAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTCAAATTCAA
TGATTAGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATA
TTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCA
GAAGATGCTATGAGCAAATTCATCTTTCAACTTCAATGATTGGTTTTGGTTCATACCAAAC
Found at i:2766402 original size:11 final size:10
Alignment explanation
Indices: 2766386--2766446 Score: 68
Period size: 11 Copynumber: 5.6 Consensus size: 10
2766376 CCCTTTTTTC
2766386 TTTTTTCTCTT
1 TTTTTTCT-TT
2766397 TTTTTTCTTT
1 TTTTTTCTTT
*
2766407 TTTCTCTCTTT
1 TTT-TTTCTTT
2766418 TTTTTTCTTTT
1 TTTTTTC-TTT
2766429 TCTTTTTCTTT
1 T-TTTTTCTTT
2766440 TCTTTTT
1 T-TTTTT
2766447 TCTTCAAGCA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
10 8 0.18
11 31 0.69
12 6 0.13
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:2766409 original size:27 final size:27
Alignment explanation
Indices: 2766379--2766450 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 27
2766369 TTGACCCCCC
*
2766379 TTTTTTCTTTTTTCTCTTTTTTTTCTTT
1 TTTTTTCTTTTTTCT-TTCTTTTTCTTT
*
2766407 TTTCTCTCTTTTTT-TTTCTTTTTCTTT
1 TTT-TTTCTTTTTTCTTTCTTTTTCTTT
2766434 TTCTTTTCTTTTTTCTT
1 TT-TTTTCTTTTTTCTT
2766451 CAAGCATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
27 22 0.58
28 7 0.18
29 9 0.24
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (27 bp):
TTTTTTCTTTTTTCTTTCTTTTTCTTT
Found at i:2766450 original size:18 final size:18
Alignment explanation
Indices: 2766379--2766449 Score: 99
Period size: 18 Copynumber: 3.8 Consensus size: 18
2766369 TTGACCCCCC
2766379 TTTTTTCTTTTTTCTCTT
1 TTTTTTCTTTTTTCTCTT
2766397 TTTTTTCTTTTTTCTCTCT
1 TTTTTTCTTTTTTCTCT-T
*
2766416 TTTTTTTTCTTTTTCT-TT
1 TTTTTTCT-TTTTTCTCTT
2766434 TTCTTTTCTTTTTTCT
1 TT-TTTTCTTTTTTCT
2766450 TCAAGCATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
18 27 0.56
19 14 0.29
20 7 0.15
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTCTTTTTTCTCTT
Found at i:2777023 original size:32 final size:30
Alignment explanation
Indices: 2776987--2777057 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
2776977 AAATACTTAC
2776987 AAATAAAATGAAATATTAATAAGAAAATATAT
1 AAATAAAATGAAA-A-TAATAAGAAAATATAT
** * *
2777019 AAATACTATGAAAATAATAAGTATATATAT
1 AAATAAAATGAAAATAATAAGAAAATATAT
*
2777049 AAAAAAAAT
1 AAATAAAAT
2777058 TTTGAAAAGA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
30 20 0.62
31 1 0.03
32 11 0.34
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (30 bp):
AAATAAAATGAAAATAATAAGAAAATATAT
Found at i:2777759 original size:15 final size:15
Alignment explanation
Indices: 2777723--2777768 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
2777713 TTTTCTTTGA
*
2777723 TATTAAAAAATAAA-
1 TATTTAAAAATAAAT
*
2777737 TA--TAAAAATAATT
1 TATTTAAAAATAAAT
2777750 TATTTAAAAATAAAT
1 TATTTAAAAATAAAT
2777765 TATT
1 TATT
2777769 ATTTATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
12 8 0.31
13 2 0.08
14 2 0.08
15 14 0.54
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TATTTAAAAATAAAT
Found at i:2778689 original size:15 final size:15
Alignment explanation
Indices: 2778665--2778702 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
2778655 TGACAGTAAG
*
2778665 TTTCTATTCTTTCTT
1 TTTCTTTTCTTTCTT
2778680 TTTCTTTTC-TTCTT
1 TTTCTTTTCTTTCTT
2778694 TTT-TTTTCT
1 TTTCTTTTCT
2778703 GTTTCTTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 5 0.24
14 8 0.38
15 8 0.38
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTTTCTTTCTT
Found at i:2778694 original size:18 final size:19
Alignment explanation
Indices: 2778671--2778709 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
2778661 TAAGTTTCTA
2778671 TTCTTTCTTTTTCT-TTTC
1 TTCTTTCTTTTTCTGTTTC
*
2778689 TTCTTTTTTTTTCTGTTTC
1 TTCTTTCTTTTTCTGTTTC
2778708 TT
1 TT
2778710 GCTGATGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (19 bp):
TTCTTTCTTTTTCTGTTTC
Found at i:2779219 original size:3 final size:3
Alignment explanation
Indices: 2779211--2779288 Score: 129
Period size: 3 Copynumber: 26.0 Consensus size: 3
2779201 TTAATATATT
* *
2779211 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
2779259 TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2779289 ATCCATATGG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2783012 original size:23 final size:23
Alignment explanation
Indices: 2782986--2783063 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
2782976 CACCACAGAT
2782986 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
2783009 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * *
2783032 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
2783055 TATAATAAT
1 CAT-ATAAT
2783064 GTCCATAAGG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 41 0.91
24 4 0.09
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:2783241 original size:103 final size:103
Alignment explanation
Indices: 2783070--2783390 Score: 570
Period size: 103 Copynumber: 3.1 Consensus size: 103
2783060 TAATGTCCAT
* ***
2783070 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTTGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
2783135 GACTTCACACATGTTCCAAAGAATACATATATGTCCTG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
2783173 AAGGACCACTTATCATTCCTTAAGAATCATATATATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
2783238 GACTTCACACATGTTCCAAAGAATATATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2783276 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
2783341 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2783379 AAGGACCACATA
1 AAGGACCACATA
2783391 GACCCTCGAC
Statistics
Matches: 207, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 207 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:2785572 original size:20 final size:20
Alignment explanation
Indices: 2785536--2785586 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
2785526 AGATAAAATT
* *
2785536 AGTATTGATAC-CAAGGGTG
1 AGTATCGATACTCAAGGGTC
2785555 AGTATCGATACTCAAGGGTC
1 AGTATCGATACTCAAGGGTC
*
2785575 AATATCGATACT
1 AGTATCGATACT
2785587 ATAATGCTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (20 bp):
AGTATCGATACTCAAGGGTC
Found at i:2785900 original size:22 final size:22
Alignment explanation
Indices: 2785875--2785924 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
2785865 CAATACTAAT
* *
2785875 ACACTTCTGTATCAGTGCCAA-G
1 ACACTTCAGTACCAGTG-CAACG
2785897 ACACTTCAGTACCAGTGCAACG
1 ACACTTCAGTACCAGTGCAACG
2785919 ACACTT
1 ACACTT
2785925 TATGATAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (22 bp):
ACACTTCAGTACCAGTGCAACG
Found at i:2792210 original size:7 final size:7
Alignment explanation
Indices: 2792198--2792222 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2792188 AAATTCATTT
2792198 ATTTATG
1 ATTTATG
2792205 ATTTATG
1 ATTTATG
2792212 ATTTATG
1 ATTTATG
2792219 ATTT
1 ATTT
2792223 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
ATTTATG
Found at i:2792234 original size:8 final size:8
Alignment explanation
Indices: 2792221--2792249 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
2792211 GATTTATGAT
2792221 TTTTTTTA
1 TTTTTTTA
2792229 TTTTTTTA
1 TTTTTTTA
2792237 -TTTTTTA
1 TTTTTTTA
2792244 TTTTTT
1 TTTTTT
2792250 GGGGTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTA
Found at i:2792615 original size:14 final size:15
Alignment explanation
Indices: 2792596--2792627 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
2792586 GGGTTGCTAG
2792596 AAATTTAGACAA-AA
1 AAATTTAGACAAGAA
2792610 AAATTTAGACAAGAA
1 AAATTTAGACAAGAA
2792625 AAA
1 AAA
2792628 ACAAGGTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.66, C:0.06, G:0.09, T:0.19
Consensus pattern (15 bp):
AAATTTAGACAAGAA
Found at i:2802719 original size:35 final size:35
Alignment explanation
Indices: 2802652--2802719 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
2802642 CCTTAGGTCC
* * *
2802652 ATAAGGAATTACCAGCTCGATCGGTCTGAACCTAT
1 ATAAGGAATTACCAGCTCGACCGATCTAAACCTAT
* *
2802687 ATAAGGAATTACCAGTTTGACCGATCTAAACCT
1 ATAAGGAATTACCAGCTCGACCGATCTAAACCT
2802720 GCATACTCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (35 bp):
ATAAGGAATTACCAGCTCGACCGATCTAAACCTAT
Found at i:2815052 original size:16 final size:16
Alignment explanation
Indices: 2815031--2815062 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2815021 GTGTCACATT
2815031 AGGGCCACCGGAGCGA
1 AGGGCCACCGGAGCGA
2815047 AGGGCCACCGGAGCGA
1 AGGGCCACCGGAGCGA
2815063 CCCATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.44, T:0.00
Consensus pattern (16 bp):
AGGGCCACCGGAGCGA
Found at i:2816075 original size:35 final size:35
Alignment explanation
Indices: 2816012--2816078 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
2816002 CTTAGATTCG
* * *
2816012 TAAGGAATTACCAGCTCGATCGATCTGAACCTATA
1 TAAGGAATTACCAACTCGACCGAGCTGAACCTATA
* *
2816047 TAAGGAATTACCAATTTGACCGAGCTGAACCT
1 TAAGGAATTACCAACTCGACCGAGCTGAACCT
2816079 GCATACTCCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.25
Consensus pattern (35 bp):
TAAGGAATTACCAACTCGACCGAGCTGAACCTATA
Found at i:2823576 original size:18 final size:18
Alignment explanation
Indices: 2823553--2823599 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
2823543 TAGTAATGGG
**
2823553 GTATCGATATTGGCCTGA
1 GTATCGATACCGGCCTGA
2823571 GTATCGATACCGGCCTGA
1 GTATCGATACCGGCCTGA
2823589 GTATCGATACC
1 GTATCGATACC
2823600 AAAATTAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (18 bp):
GTATCGATACCGGCCTGA
Found at i:2832668 original size:19 final size:19
Alignment explanation
Indices: 2832616--2832662 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
2832606 AGAATGTTTA
2832616 AAAGTATCGGTACTTATAT
1 AAAGTATCGGTACTTATAT
2832635 AAAGTATCGGTACTTATAT
1 AAAGTATCGGTACTTATAT
2832654 AAAGTATCG
1 AAAGTATCG
2832663 AAACTTTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (19 bp):
AAAGTATCGGTACTTATAT
Found at i:2839923 original size:24 final size:24
Alignment explanation
Indices: 2839859--2839911 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
2839849 CTAATGTGTC
*
2839859 ACATCATCCAACTCACGGCAACTA
1 ACATCATCAAACTCACGGCAACTA
2839883 ACATCATCAAACTCACGGCAACTA
1 ACATCATCAAACTCACGGCAACTA
2839907 ACATC
1 ACATC
2839912 TTAATGTCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.17
Consensus pattern (24 bp):
ACATCATCAAACTCACGGCAACTA
Found at i:2842125 original size:20 final size:20
Alignment explanation
Indices: 2842102--2842156 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
2842092 CCACACAAAC
*
2842102 AGTATCGATACTCTCTGTTG
1 AGTATCGATACCCTCTGTTG
2842122 AGTATCGATACCCTCTGTTG
1 AGTATCGATACCCTCTGTTG
2842142 AGTATCGATACCCTC
1 AGTATCGATACCCTC
2842157 CTCACATTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (20 bp):
AGTATCGATACCCTCTGTTG
Found at i:2843427 original size:60 final size:60
Alignment explanation
Indices: 2843359--2843478 Score: 143
Period size: 60 Copynumber: 2.0 Consensus size: 60
2843349 GTTATGAACT
* * * * * * *
2843359 TTAATTTTGATGCTTAATTTTAACTTGATATTCATTTTTATCATTGC-TTTTGATTTAATA
1 TTAATTTTGATACGTAAGTTTAACTTGATATTAATATTGATCATT-CATATTGATTTAATA
* *
2843419 TTAATTTTGATACGTAAGTTTGACTTGTTATTAATATTGATCATTCATATTGATTTAATA
1 TTAATTTTGATACGTAAGTTTAACTTGATATTAATATTGATCATTCATATTGATTTAATA
2843479 AATTTGAACT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 1 0.02
60 49 0.98
ACGTcount: A:0.29, C:0.07, G:0.10, T:0.53
Consensus pattern (60 bp):
TTAATTTTGATACGTAAGTTTAACTTGATATTAATATTGATCATTCATATTGATTTAATA
Found at i:2843882 original size:19 final size:18
Alignment explanation
Indices: 2843858--2843917 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 18
2843848 GGATATCATG
2843858 TTAAAATTAAGCATCAAAA
1 TTAAAATTAAG-ATCAAAA
*
2843877 TTAAAAGTAATGATCAAAA
1 TTAAAATTAA-GATCAAAA
*
2843896 TTAAAATTTACGTATCAAAA
1 TTAAAA-TTAAG-ATCAAAA
2843916 TT
1 TT
2843918 CTTATTATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 23 0.66
20 12 0.34
ACGTcount: A:0.53, C:0.08, G:0.07, T:0.32
Consensus pattern (18 bp):
TTAAAATTAAGATCAAAA
Found at i:2845760 original size:2 final size:2
Alignment explanation
Indices: 2845753--2845778 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2845743 ATCAATAGAT
2845753 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2845779 GTTAAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2846845 original size:22 final size:22
Alignment explanation
Indices: 2846819--2846862 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2846809 TTATAAATGA
2846819 AAAATAAAAATATTTACAACAT
1 AAAATAAAAATATTTACAACAT
*
2846841 AAAATAATAATATTTACAACAT
1 AAAATAAAAATATTTACAACAT
2846863 GTACATACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAATAAAAATATTTACAACAT
Found at i:2847115 original size:89 final size:89
Alignment explanation
Indices: 2846963--2847175 Score: 248
Period size: 89 Copynumber: 2.4 Consensus size: 89
2846953 CAAACTGGAG
* * * * ** *
2846963 AAAAACACAAACTCAAAGGATTAAAATAGCAATAACATAAAGTTAAAGTTCTAAAATAGCAAAAA
1 AAAAACAAAAACTTAAAGGAATAAAATAGCAAAAACATAAAGTTAAAGGACTAAAATAACAAAAA
* *
2847028 TAGACATTTAAAGGACTAAAATAGT
66 TAGAAACTT-AAGGACTAAAATAGT
* * * *
2847053 AAAAACAAAAACTTAAGGGAAT-AAATAGCAAAAACATACATTTAAAGGACTAAAATAACAAAAC
1 AAAAACAAAAACTTAAAGGAATAAAATAGCAAAAACATAAAGTTAAAGGACTAAAATAACAAAAA
*
2847117 TAGAAACTTAAGGACTAAAATGGT
66 TAGAAACTTAAGGACTAAAATAGT
* ** *
2847141 AAAAACAAAAAATTAAAGGGCTAAAATAGTAAAAA
1 AAAAACAAAAACTTAAAGGAATAAAATAGCAAAAA
2847176 TAGAAACTTA
Statistics
Matches: 103, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
88 32 0.31
89 53 0.51
90 18 0.17
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.19
Consensus pattern (89 bp):
AAAAACAAAAACTTAAAGGAATAAAATAGCAAAAACATAAAGTTAAAGGACTAAAATAACAAAAA
TAGAAACTTAAGGACTAAAATAGT
Found at i:2847195 original size:30 final size:30
Alignment explanation
Indices: 2846963--2847234 Score: 205
Period size: 30 Copynumber: 9.2 Consensus size: 30
2846953 CAAACTGGAG
* * *
2846963 AAAAACACAAACTCAAAGGATTAAAATAGC
1 AAAAACAGAAACTTAAAGGACTAAAATAGC
* * * **
2846993 AATAACATAAAGTTAAAGTTCTAAAATAGC
1 AAAAACAGAAACTTAAAGGACTAAAATAGC
* * * *
2847023 AAAAATAGACATTTAAAGGACTAAAATAGT
1 AAAAACAGAAACTTAAAGGACTAAAATAGC
* * *
2847053 AAAAACAAAAACTTAAGGGAAT-AAATAGC
1 AAAAACAGAAACTTAAAGGACTAAAATAGC
* * * *
2847082 AAAAACATACATTTAAAGGACTAAAATAAC
1 AAAAACAGAAACTTAAAGGACTAAAATAGC
* *
2847112 -AAAACTAGAAACTT-AAGGACTAAAATGGT
1 AAAAAC-AGAAACTTAAAGGACTAAAATAGC
* * * *
2847141 AAAAACAAAAAATTAAAGGGCTAAAATAGT
1 AAAAACAGAAACTTAAAGGACTAAAATAGC
* *
2847171 AAAAATAGAAACTT-AAGAGTCT-AAATAGC
1 AAAAACAGAAACTTAAAG-GACTAAAATAGC
* * *
2847200 AAATACAGATAA-TCAAAGGACTAAAATAAC
1 AAAAACAGA-AACTTAAAGGACTAAAATAGC
2847230 AAAAA
1 AAAAA
2847235 ATAGATAAAC
Statistics
Matches: 185, Mismatches: 49, Indels: 16
0.74 0.20 0.06
Matches are distributed among these distances:
29 66 0.36
30 119 0.64
ACGTcount: A:0.59, C:0.11, G:0.12, T:0.19
Consensus pattern (30 bp):
AAAAACAGAAACTTAAAGGACTAAAATAGC
Found at i:2847234 original size:59 final size:60
Alignment explanation
Indices: 2846977--2847239 Score: 228
Period size: 59 Copynumber: 4.4 Consensus size: 60
2846967 ACACAAACTC
* * * * * * * *
2846977 AAAGGATTAAAATAGCAATAACATAAAGTTAA-AGTTCTAAAATAGCAAAAATAGACATTT
1 AAAGGACTAAAATAGCAAAAATAGAAACTTAAGAG-ACTAAAATAGCAAAAACAGACAATT
* * * * * * *
2847037 AAAGGACTAAAATAGTAAAAACAAAAACTTAAGGGAAT-AAATAGCAAAAACATACATTT
1 AAAGGACTAAAATAGCAAAAATAGAAACTTAAGAGACTAAAATAGCAAAAACAGACAATT
* * * * * *
2847096 AAAGGACTAAAATAACAAAACTAGAAACTTAAG-GACTAAAATGGTAAAAACAAAAAATT
1 AAAGGACTAAAATAGCAAAAATAGAAACTTAAGAGACTAAAATAGCAAAAACAGACAATT
* * * * * *
2847155 AAAGGGCTAAAATAGTAAAAATAGAAACTTAAGAGTCT-AAATAGCAAATACAGATAATC
1 AAAGGACTAAAATAGCAAAAATAGAAACTTAAGAGACTAAAATAGCAAAAACAGACAATT
*
2847214 AAAGGACTAAAATAACAAAAAATAGA
1 AAAGGACTAAAATAGC-AAAAATAGA
2847240 TAAACCAGAG
Statistics
Matches: 164, Mismatches: 35, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
58 3 0.02
59 120 0.73
60 40 0.24
61 1 0.01
ACGTcount: A:0.59, C:0.10, G:0.13, T:0.19
Consensus pattern (60 bp):
AAAGGACTAAAATAGCAAAAATAGAAACTTAAGAGACTAAAATAGCAAAAACAGACAATT
Found at i:2848694 original size:3 final size:3
Alignment explanation
Indices: 2848686--2848732 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
2848676 ATAATTTAAA
2848686 AAT AAT AAT AAT AAGT AAT -AT AA- ATAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
2848731 AA
1 AA
2848733 AAAGACCCGG
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 3 0.08
3 33 0.82
4 4 0.10
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2848704 original size:24 final size:23
Alignment explanation
Indices: 2848670--2848735 Score: 87
Period size: 24 Copynumber: 2.7 Consensus size: 23
2848660 ACAAAAATTG
*
2848670 TAATATATAATTTAAAAATAATAA
1 TAATA-ATAATATAAAAATAATAA
*
2848694 TAATAAGTAATATAAATATAATAA
1 TAATAA-TAATATAAAAATAATAA
2848718 TAATAATAATAATAAAAA
1 TAATAATAAT-ATAAAAA
2848736 GACCCGGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 5 0.14
24 32 0.86
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
TAATAATAATATAAAAATAATAA
Found at i:2849412 original size:31 final size:30
Alignment explanation
Indices: 2849348--2849430 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 30
2849338 GAGAAAATTC
*
2849348 GTTTCATG-GAAATGACTCAAAGATGGTTTT
1 GTTTCAAGAGAAATGACTCAAAGAT-GTTTT
2849378 GTTTCAAGAGAAATAGACTCAAAGAT-TTTGT
1 GTTTCAAGAGAAAT-GACTCAAAGATGTTT-T
*
2849409 GTTTCCAA-AGAAACTGCCTCAA
1 GTTT-CAAGAGAAA-TGACTCAA
2849431 GGGAGACAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
30 10 0.22
31 21 0.46
32 15 0.33
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.31
Consensus pattern (30 bp):
GTTTCAAGAGAAATGACTCAAAGATGTTTT
Found at i:2850872 original size:33 final size:30
Alignment explanation
Indices: 2850790--2850907 Score: 116
Period size: 33 Copynumber: 3.8 Consensus size: 30
2850780 GCTTCTTGTC
* *
2850790 TTTTTTCTT-TTCGTTTTTTCTTTGTTTGT
1 TTTTTTCTTGTTTGTTTTTTCTTTGTTTAT
* *
2850819 TTGTTTCTTGCTTTGCTTTTTCTCTTTGTTTCT
1 TTTTTTCTTG-TTTG-TTTTT-TCTTTGTTTAT
2850852 TTTTTTCATTGTTTGATTTTTTGCTTTGTTTAT
1 TTTTTTC-TTGTTTG-TTTTTT-CTTTGTTTAT
2850885 TTTCTTT-TTGTTTG-TTTTTCTTT
1 TTT-TTTCTTGTTTGTTTTTTCTTT
2850908 TTGCTCTTTG
Statistics
Matches: 76, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
29 12 0.16
30 5 0.07
31 3 0.04
32 13 0.17
33 37 0.49
34 6 0.08
ACGTcount: A:0.03, C:0.11, G:0.11, T:0.75
Consensus pattern (30 bp):
TTTTTTCTTGTTTGTTTTTTCTTTGTTTAT
Found at i:2850903 original size:16 final size:15
Alignment explanation
Indices: 2850802--2850910 Score: 74
Period size: 16 Copynumber: 6.8 Consensus size: 15
2850792 TTTTCTTTTC
*
2850802 GTTTTTTCTTTGTTT
1 GTTTTTTTTTTGTTT
* *
2850817 GTTTGTTTCTTGCTTT
1 GTTTTTTTTTTG-TTT
*
2850833 GCTTTTTCTCTTTGTTT
1 G-TTTTT-TTTTTGTTT
* *
2850850 CTTTTTTTCATTGTTT
1 GTTTTTTT-TTTGTTT
*
2850866 GATTTTTTGCTTTGTTT
1 G-TTTTTT-TTTTGTTT
* *
2850883 ATTTTCTTTTTGTTT
1 GTTTTTTTTTTGTTT
2850898 GTTTTTCTTTTTG
1 GTTTTT-TTTTTG
2850911 CTCTTTGTTT
Statistics
Matches: 70, Mismatches: 17, Indels: 13
0.70 0.17 0.13
Matches are distributed among these distances:
15 21 0.30
16 26 0.37
17 19 0.27
18 4 0.06
ACGTcount: A:0.03, C:0.10, G:0.13, T:0.74
Consensus pattern (15 bp):
GTTTTTTTTTTGTTT
Found at i:2850918 original size:23 final size:23
Alignment explanation
Indices: 2850891--2850935 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2850881 TTATTTTCTT
* *
2850891 TTTGTTTGTTTTTCTTTTTGCTC
1 TTTGTTTCTTTTTCTCTTTGCTC
2850914 TTTGTTTCTTTTTCTCTTTGCT
1 TTTGTTTCTTTTTCTCTTTGCT
2850936 GTGATTTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.00, C:0.16, G:0.11, T:0.73
Consensus pattern (23 bp):
TTTGTTTCTTTTTCTCTTTGCTC
Found at i:2850925 original size:16 final size:17
Alignment explanation
Indices: 2850901--2850933 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2850891 TTTGTTTGTT
2850901 TTTCTTTTTGCTCTTTG
1 TTTCTTTTTGCTCTTTG
2850918 TTTCTTTTT-CTCTTTG
1 TTTCTTTTTGCTCTTTG
2850934 CTGTGATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.00, C:0.18, G:0.09, T:0.73
Consensus pattern (17 bp):
TTTCTTTTTGCTCTTTG
Found at i:2852191 original size:21 final size:20
Alignment explanation
Indices: 2852167--2852206 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2852157 GAATGATGAA
*
2852167 ATGCAGATGCAAAATGCAAAG
1 ATGCAAATGC-AAATGCAAAG
*
2852188 ATGCAAATGCAGATGCAAA
1 ATGCAAATGCAAATGCAAA
2852207 AATGTTGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (20 bp):
ATGCAAATGCAAATGCAAAG
Found at i:2852210 original size:14 final size:13
Alignment explanation
Indices: 2852165--2852207 Score: 61
Period size: 13 Copynumber: 3.2 Consensus size: 13
2852155 ATGAATGATG
2852165 AAATGCAGATGCA
1 AAATGCAGATGCA
2852178 AAATGCAAAGATGC-
1 AAATGC--AGATGCA
2852192 AAATGCAGATGCA
1 AAATGCAGATGCA
2852205 AAA
1 AAA
2852208 ATGTTGATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 6 0.22
13 9 0.33
14 6 0.22
15 6 0.22
ACGTcount: A:0.51, C:0.14, G:0.21, T:0.14
Consensus pattern (13 bp):
AAATGCAGATGCA
Found at i:2852978 original size:29 final size:30
Alignment explanation
Indices: 2852924--2852981 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
2852914 GAAAAATGAC
2852924 ACAAACAAATGAGAAAAAATGAGTTAGTAAT
1 ACAAACAAATGAGAAAAAA-GAGTTAGTAAT
2852955 ACAAACAAATGA-AAAAACA-AGTTAGTA
1 ACAAACAAATGAGAAAAA-AGAGTTAGTA
2852982 CAAGCAAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 8 0.31
30 5 0.19
31 13 0.50
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.17
Consensus pattern (30 bp):
ACAAACAAATGAGAAAAAAGAGTTAGTAAT
Found at i:2854032 original size:15 final size:16
Alignment explanation
Indices: 2854014--2854043 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2854004 TTTTAAAACA
2854014 ATTTTAAGA-AAAATC
1 ATTTTAAGACAAAATC
2854029 ATTTTAAGACAAAAT
1 ATTTTAAGACAAAAT
2854044 TTGGTATGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (16 bp):
ATTTTAAGACAAAATC
Found at i:2854628 original size:23 final size:23
Alignment explanation
Indices: 2854578--2854647 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 23
2854568 AGGAATAAGG
* * *
2854578 TAAAAACAAACATAATTACAA-A
1 TAAAAATAAAAATATTTACAACA
2854600 TGAAAAATAAAAATATTTACAACA
1 T-AAAAATAAAAATATTTACAACA
* *
2854624 T-AAAATAATAACATTTACAACA
1 TAAAAATAAAAATATTTACAACA
2854646 TA
1 TA
2854648 TACATACATA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 21 0.52
23 17 0.43
24 2 0.05
ACGTcount: A:0.63, C:0.11, G:0.01, T:0.24
Consensus pattern (23 bp):
TAAAAATAAAAATATTTACAACA
Found at i:2854863 original size:29 final size:30
Alignment explanation
Indices: 2854748--2855012 Score: 186
Period size: 30 Copynumber: 8.9 Consensus size: 30
2854738 CAAAATGGAG
* * *
2854748 AAAAACACAAACTCAAAGGACTAAAATAGC
1 AAAAACAGAAACTTAAGGGACTAAAATAGC
* * * * *
2854778 AATAATAGAAAGTTAAAGTG-TTAAAATAGC
1 AAAAACAGAAACTT-AAGGGACTAAAATAGC
* * * * *
2854808 AAAAACATATATTTAAAGGACTAAAATAGT
1 AAAAACAGAAACTTAAGGGACTAAAATAGC
*
2854838 AAAAACAGAAACTTAAGGGAAT-AAATAGC
1 AAAAACAGAAACTTAAGGGACTAAAATAGC
* *
2854867 AAAAACATACAA-TTCAA-GGACTAAAATAAC
1 AAAAACAGA-AACTT-AAGGGACTAAAATAGC
* * *
2854897 AAAAATAGAAACTTAA-GGACTAAAATGGT
1 AAAAACAGAAACTTAAGGGACTAAAATAGC
* **
2854926 AAAAATAGAAACTTAAAGGG-CTAAAATAAT
1 AAAAACAGAAACTT-AAGGGACTAAAATAGC
* * *
2854956 AAAAATAGAAACTTTAGGGTCT-AAATAGC
1 AAAAACAGAAACTTAAGGGACTAAAATAGC
* *
2854985 AAATACAGACAA-TTAAAGGACTAAAATA
1 AAAAACAGA-AACTTAAGGGACTAAAATA
2855013 AAAAAATAGA
Statistics
Matches: 183, Mismatches: 41, Indels: 22
0.74 0.17 0.09
Matches are distributed among these distances:
29 74 0.40
30 104 0.57
31 5 0.03
ACGTcount: A:0.57, C:0.10, G:0.13, T:0.20
Consensus pattern (30 bp):
AAAAACAGAAACTTAAGGGACTAAAATAGC
Found at i:2854886 original size:59 final size:59
Alignment explanation
Indices: 2854801--2855022 Score: 261
Period size: 59 Copynumber: 3.8 Consensus size: 59
2854791 TAAAGTGTTA
* * * * * *
2854801 AAATAGCAAAAACATATATTTAAAGGACTAAAATAGTAAAAACAGAAACTTAAGGGAAT
1 AAATAGCAAAAACAGACAATTAAAGGACTAAAATAATAAAAATAGAAACTTAAGGGACT
* * *
2854860 AAATAGCAAAAACATACAATTCAAGGACTAAAATAACAAAAATAGAAACTTAA-GGACT
1 AAATAGCAAAAACAGACAATTAAAGGACTAAAATAATAAAAATAGAAACTTAAGGGACT
* * * * * *
2854918 AAAATGGTAAAAATAGA-AACTTAAAGGGCTAAAATAATAAAAATAGAAACTTTAGGGTCT
1 -AAATAGCAAAAACAGACAA-TTAAAGGACTAAAATAATAAAAATAGAAACTTAAGGGACT
*
2854978 AAATAGCAAATACAGACAATTAAAGGACTAAAATAA-AAAAATAGA
1 AAATAGCAAAAACAGACAATTAAAGGACTAAAATAATAAAAATAGA
2855023 TAAACTAGAG
Statistics
Matches: 138, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
58 15 0.11
59 117 0.85
60 6 0.04
ACGTcount: A:0.58, C:0.09, G:0.13, T:0.19
Consensus pattern (59 bp):
AAATAGCAAAAACAGACAATTAAAGGACTAAAATAATAAAAATAGAAACTTAAGGGACT
Found at i:2855753 original size:21 final size:19
Alignment explanation
Indices: 2855721--2855780 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
2855711 ATCAGATTGT
2855721 CCAGGGGTACAGATTCCCC
1 CCAGGGGTACAGATTCCCC
* *
2855740 CCTAGGGGGAACAGATTCCAC
1 CC-A-GGGGTACAGATTCCCC
*
2855761 CCAGGGGTACCGATTCCCC
1 CCAGGGGTACAGATTCCCC
2855780 C
1 C
2855781 TGTCTAACGG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
19 16 0.47
20 2 0.06
21 16 0.47
ACGTcount: A:0.22, C:0.37, G:0.27, T:0.15
Consensus pattern (19 bp):
CCAGGGGTACAGATTCCCC
Found at i:2855775 original size:19 final size:19
Alignment explanation
Indices: 2855721--2855777 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 19
2855711 ATCAGATTGT
*
2855721 CCAGGGGTACAGATTCCCC
1 CCAGGGGTACAGATTCCAC
*
2855740 CCTAGGGGGAACAGATTCCAC
1 CC-A-GGGGTACAGATTCCAC
*
2855761 CCAGGGGTACCGATTCC
1 CCAGGGGTACAGATTCC
2855778 CCCTGTCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 14 0.44
20 2 0.06
21 16 0.50
ACGTcount: A:0.23, C:0.33, G:0.28, T:0.16
Consensus pattern (19 bp):
CCAGGGGTACAGATTCCAC
Found at i:2857451 original size:3 final size:3
Alignment explanation
Indices: 2857443--2857511 Score: 90
Period size: 3 Copynumber: 23.0 Consensus size: 3
2857433 ATATATAATT
2857443 TAA TAA TAA TAA TAA TAA GTAA T-A TAA -ATA TAA -ATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TA-A TAA TA-A TAA TAA TAA
2857488 TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
2857512 AAGACCCGAA
Statistics
Matches: 60, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
2 4 0.07
3 51 0.85
4 5 0.08
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2863993 original size:36 final size:36
Alignment explanation
Indices: 2863931--2864204 Score: 286
Period size: 36 Copynumber: 7.4 Consensus size: 36
2863921 TTAAATATAT
* *
2863931 ATATATATTATATAG-TTTTAAAACATTTTGAAAGC
1 ATATATAATATATAGTTTTTAAAACATTTTGAAAAC
*
2863966 ATATATATTATATAGTTTTTAAAACATTTTGAAAAC
1 ATATATAATATATAGTTTTTAAAACATTTTGAAAAC
* *
2864002 ATATATAATAAATAGTTTTTAAAACATTTTGAAAGCAT
1 ATATATAATATATAGTTTTTAAAACATTTTGAAA--AC
* *
2864040 ATATATAATATATAGTTTTTTAAAAAATATTTTGAAAAT
1 ATATATAATATATAG-TTTTT--AAAACATTTTGAAAAC
* *
2864079 ATATATAATATATGGTTTTTAAAAATATTTTGAATATAC
1 ATATATAATATATAGTTTTT-AAAACATTTTGAA-A-AC
2864118 ATATATAATATAT-GATTTTTAAAATCATTTTGAAAAC
1 ATATATAATATATAG-TTTTTAAAA-CATTTTGAAAAC
* * * * *
2864155 -TATACAATATAAAGTTTTGAAAAC-TTTTTAAATAT
1 ATATATAATATATAGTTTTTAAAACATTTTGAAA-AC
2864190 ATATATATATATATA
1 ATATATA-ATATATA
2864205 TATATATAAT
Statistics
Matches: 209, Mismatches: 16, Indels: 26
0.83 0.06 0.10
Matches are distributed among these distances:
34 7 0.03
35 17 0.08
36 74 0.35
37 23 0.11
38 27 0.13
39 48 0.23
41 13 0.06
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (36 bp):
ATATATAATATATAGTTTTTAAAACATTTTGAAAAC
Found at i:2864193 original size:2 final size:2
Alignment explanation
Indices: 2864186--2864217 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2864176 AACTTTTTAA
2864186 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2864218 GTTTTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2864263 original size:5 final size:5
Alignment explanation
Indices: 2864244--2864295 Score: 54
Period size: 5 Copynumber: 10.4 Consensus size: 5
2864234 TAAAAATATA
* *
2864244 TTATT ATTA-T TTATT TTATT TTATT TTA-T TAACT TTATT TTATTT TTATT
1 TTATT -TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTA-TT TTATT
2864294 TT
1 TT
2864296 TTGGTCCATG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
4 6 0.15
5 26 0.65
6 8 0.20
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:2864280 original size:19 final size:19
Alignment explanation
Indices: 2864244--2864289 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
2864234 TAAAAATATA
* *
2864244 TTATTATTATTTATTTTATT
1 TTATT-TTATTAACTTTATT
2864264 TTATTTTATTAACTTTATT
1 TTATTTTATTAACTTTATT
2864283 TTATTTT
1 TTATTTT
2864290 TATTTTTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
TTATTTTATTAACTTTATT
Found at i:2865683 original size:14 final size:13
Alignment explanation
Indices: 2865659--2865774 Score: 58
Period size: 14 Copynumber: 8.0 Consensus size: 13
2865649 TTATTTAATA
2865659 TATTTTA-TTTTT
1 TATTTTATTTTTT
2865671 TATTTTATCTTTTT
1 TATTTTAT-TTTTT
* *
2865685 TCTTTGATTTATTT
1 TATTTTATTT-TTT
2865699 T-TATTTATTTTTT
1 TAT-TTTATTTTTT
2865712 CTATTTCTATTTTATT
1 -TATTT-TATTTT-TT
2865728 T-TTCCTTAGATTTATTAT
1 TATT--TT--ATTT-TT-T
2865746 TATTTTTTATGTTTTT
1 TA--TTTTAT-TTTTT
2865762 TATTTTATTTTTT
1 TATTTTATTTTTT
2865775 CCTTTGATTT
Statistics
Matches: 83, Mismatches: 3, Indels: 35
0.69 0.02 0.29
Matches are distributed among these distances:
12 7 0.08
13 11 0.13
14 32 0.39
15 9 0.11
16 6 0.07
17 9 0.11
18 5 0.06
19 2 0.02
21 2 0.02
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (13 bp):
TATTTTATTTTTT
Found at i:2865706 original size:40 final size:41
Alignment explanation
Indices: 2865616--2865807 Score: 165
Period size: 44 Copynumber: 4.3 Consensus size: 41
2865606 TAACTTTTTA
2865616 TTATTTATTTATTTTATTTTTTTGACCTTTGATTTATTTAATATATT
1 TTATTT-TTTATTTTATTTTTTT--CCTTTGATTTATTT-AT-TA-T
2865663 TTATTTTTTATTTTATCTTTTTT-CTTTGATTTATTT-TTAT
1 TTATTTTTTATTTTAT-TTTTTTCCTTTGATTTATTTATTAT
* *
2865703 TTATTTTTTCTATTTCTATTTTATTTTTCCTTAGATTTATTATTATTTT
1 TTA-TTTTT-TATTT-TA--TT-TTTTTCCTTTGATTTA-T-TTATTAT
**
2865752 TTATGTTTTTTATTTTA-TTTTTTCCTTTGATTTATTTAACAT
1 TTA--TTTTTTATTTTATTTTTTTCCTTTGATTTATTTATTAT
*
2865794 TTATTTATTATTTT
1 TTATTTTTTATTTT
2865808 TTGTCTATCA
Statistics
Matches: 125, Mismatches: 8, Indels: 31
0.76 0.05 0.19
Matches are distributed among these distances:
40 14 0.11
41 7 0.06
42 13 0.10
43 3 0.02
44 29 0.23
45 7 0.06
46 19 0.15
47 13 0.10
48 4 0.03
49 11 0.09
50 5 0.04
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (41 bp):
TTATTTTTTATTTTATTTTTTTCCTTTGATTTATTTATTAT
Found at i:2865772 original size:19 final size:18
Alignment explanation
Indices: 2865668--2865772 Score: 50
Period size: 19 Copynumber: 5.4 Consensus size: 18
2865658 ATATTTTATT
* *
2865668 TTTTATTTTATCTTTTTTC
1 TTTT-TTTTATGTTTTTTA
** *
2865687 TTTGATTTATTTTTATTTA
1 TTTTTTTTATGTTT-TTTA
* *
2865706 TTTTTTCTATTTCTATTTTA
1 TTTTTTTTATGT-T-TTTTA
* *
2865726 TTTTTCCTTA-GATTTATTA
1 TTTTT-TTTATG-TTTTTTA
2865745 TTATTTTTTATGTTTTTTA
1 TT-TTTTTTATGTTTTTTA
2865764 TTTTATTTT
1 TTTT-TTTT
2865773 TTCCTTTGAT
Statistics
Matches: 65, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
18 10 0.15
19 36 0.55
20 15 0.23
21 4 0.06
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTTTTTTATGTTTTTTA
Found at i:2865780 original size:90 final size:86
Alignment explanation
Indices: 2865610--2865788 Score: 227
Period size: 90 Copynumber: 2.0 Consensus size: 86
2865600 AAAATTTAAC
*
2865610 TTTTTATTATTTATTTATTTTATTTTTTTGACCTTTGATTTATTTAATATATTTTATTTTTTATT
1 TTTTTATTATTTATTTATTTTATTTTTTTGACCTTAGATTTATTTAATATATTTTATTTTTTATT
*
2865675 TTATCTTTTTTCTTTGATTTA
66 TTATCTTTTTCCTTTGATTTA
* ** * *
2865696 TTTTTATTTATTTTTTCTATTTCTATTTTATTTTTCCTTAGATTTA-TTATTATTTTTTATGTTT
1 TTTTTA-TTATTTATT-TATTT-TATTTT-TTTGACCTTAGATTTATTTAATATATTTTA--TTT
2865760 TTTATTTTAT-TTTTTCCTTTGATTTA
60 TTTATTTTATCTTTTTCCTTTGATTTA
2865786 TTT
1 TTT
2865789 AACATTTATT
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
86 6 0.08
87 8 0.10
88 5 0.06
89 17 0.21
90 31 0.39
91 13 0.16
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (86 bp):
TTTTTATTATTTATTTATTTTATTTTTTTGACCTTAGATTTATTTAATATATTTTATTTTTTATT
TTATCTTTTTCCTTTGATTTA
Found at i:2865798 original size:49 final size:45
Alignment explanation
Indices: 2865611--2865809 Score: 183
Period size: 46 Copynumber: 4.3 Consensus size: 45
2865601 AAATTTAACT
* *
2865611 TTTTATTATTTATTTATTTTATTTTTTTGACCTTTGATTTATTTA-ATA
1 TTTT-TTATTTTTTTATTTTA-TTTTTT--CCTTTGATTTATTTATTTA
* *
2865659 TATTTTA-TTTTTTATTTTATCTTTTTTCTTTGATTTATTTTTATTTA
1 TTTTTTATTTTTTTATTTTAT-TTTTTCCTTTGATTTA--TTTATTTA
* * * *
2865706 TTTTTTCTATTTCTATTTTA-TTTTTCCTTAGATTTA-TTA-TTA
1 TTTTTTATTTTTTTATTTTATTTTTTCCTTTGATTTATTTATTTA
2865748 TTTTTTATGTTTTTTATTTTATTTTTTCCTTTGATTTATTTAACATTTA
1 TTTTTTAT-TTTTTTATTTTATTTTTTCCTTTGATTTATTT---ATTTA
*
2865797 TTTATTATTTTTT
1 TTTTTTATTTTTT
2865810 GTCTATCATT
Statistics
Matches: 124, Mismatches: 15, Indels: 24
0.76 0.09 0.15
Matches are distributed among these distances:
42 10 0.08
43 13 0.10
44 25 0.20
45 3 0.02
46 34 0.27
47 10 0.08
48 19 0.15
49 10 0.08
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (45 bp):
TTTTTTATTTTTTTATTTTATTTTTTCCTTTGATTTATTTATTTA
Found at i:2865892 original size:13 final size:13
Alignment explanation
Indices: 2865874--2865903 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2865864 TGAATCGTGT
2865874 TTTTAAATTTTAA
1 TTTTAAATTTTAA
*
2865887 TTTTAATTTTTAA
1 TTTTAAATTTTAA
2865900 TTTT
1 TTTT
2865904 TCGCAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:2866197 original size:19 final size:19
Alignment explanation
Indices: 2866173--2866224 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
2866163 TCAAAATGGT
*
2866173 TGATTAATAGGTGCCAATA
1 TGATTAAAAGGTGCCAATA
*
2866192 TGATTAAAAGGTGCTAATA
1 TGATTAAAAGGTGCCAATA
2866211 TGATTAAAAGGTGC
1 TGATTAAAAGGTGC
2866225 AACTTAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (19 bp):
TGATTAAAAGGTGCCAATA
Found at i:2870366 original size:12 final size:12
Alignment explanation
Indices: 2870335--2870359 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2870325 CCTAAAAATA
2870335 ATCTTTTAAAAG
1 ATCTTTTAAAAG
2870347 ATCTTTTAAAAG
1 ATCTTTTAAAAG
2870359 A
1 A
2870360 GTTTTTAGGA
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:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATCTTTTAAAAG
Found at i:2870771 original size:11 final size:11
Alignment explanation
Indices: 2870757--2870782 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2870747 AATATTTTCC
2870757 TAAAAATAATT
1 TAAAAATAATT
2870768 TAAAAATAATT
1 TAAAAATAATT
2870779 TAAA
1 TAAA
2870783 TTAAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAAAATAATT
Found at i:2870954 original size:161 final size:159
Alignment explanation
Indices: 2870654--2870954 Score: 378
Period size: 161 Copynumber: 1.9 Consensus size: 159
2870644 TTATAAATAA
* * *
2870654 GATATTTATTTACTTAAAAATATCAGAAAATAACATCTAATTGCTTTAAGACATCCCCTTTCTTA
1 GATATTTATTTACTTAAAAATATCAAAAAATAACATCTAATTACTTTAAGACAACCCCTTTCTTA
* *
2870719 ATATTAAAAAATAAATAAATATTAATAAAATATTTTCCTAAAAATAATTTAAAAATAATTTAAAT
66 ATATTAAAAAATAAATAAATATTAATAAAATATTTTACTAAAAATAA-TAAAAAATAATTTAAAT
2870784 TAAATTAAATATATATAATTTATAAAAGTAG
130 T-AATTAAATATATATAATTTATAAAAGTAG
* * * *
2870815 GATATTTATTTATTTAAAAATATCAAAAAATGATATCTAGTTACTTTAAGACAACCCCTTTCTTA
1 GATATTTATTTACTTAAAAATATCAAAAAATAACATCTAATTACTTTAAGACAACCCCTTTCTTA
* * *
2870880 ATATTAAAAAA-ATATTATTATTTAATAATATATATATTTA-TGACTAAAATAA-AAAAAATAA-
66 ATATTAAAAAATAAATAAATA-TTAATAA-A-ATAT-TTTACT-A--AAAATAATAAAAAATAAT
2870941 TTAAATT-ATTAAAT
124 TTAAATTAATTAAAT
2870955 TAAATACATT
Statistics
Matches: 121, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
160 6 0.05
161 83 0.69
162 1 0.01
163 12 0.10
164 12 0.10
166 7 0.06
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.39
Consensus pattern (159 bp):
GATATTTATTTACTTAAAAATATCAAAAAATAACATCTAATTACTTTAAGACAACCCCTTTCTTA
ATATTAAAAAATAAATAAATATTAATAAAATATTTTACTAAAAATAATAAAAAATAATTTAAATT
AATTAAATATATATAATTTATAAAAGTAG
Found at i:2872193 original size:26 final size:26
Alignment explanation
Indices: 2872163--2872247 Score: 143
Period size: 26 Copynumber: 3.3 Consensus size: 26
2872153 CCGATTTAGG
*
2872163 TTGGGCTTTTGGGTACCCATTTGTAA
1 TTGGGCTTCTGGGTACCCATTTGTAA
* *
2872189 TTGGGCTTCTGGGCATCCATTTGTAA
1 TTGGGCTTCTGGGTACCCATTTGTAA
2872215 TTGGGCTTCTGGGTACCCATTTGTAA
1 TTGGGCTTCTGGGTACCCATTTGTAA
2872241 TTGGGCT
1 TTGGGCT
2872248 CCGGTTTGGA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.14, C:0.18, G:0.28, T:0.40
Consensus pattern (26 bp):
TTGGGCTTCTGGGTACCCATTTGTAA
Found at i:2872277 original size:3 final size:3
Alignment explanation
Indices: 2872262--2872357 Score: 96
Period size: 3 Copynumber: 33.0 Consensus size: 3
2872252 TTTGGACTTG
* * *
2872262 TAA TAA TAT TAA TAA T-T TAT TTAA TAA TAA TAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
2872306 TTAA TAA TAA TAA TAA -AA -AA TAA -AA TAA -AA TAA TAA TAA GTAA
1 -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
2872349 TAA TAA TAA
1 TAA TAA TAA
2872358 ATAAATAAAA
Statistics
Matches: 81, Mismatches: 4, Indels: 16
0.80 0.04 0.16
Matches are distributed among these distances:
2 11 0.14
3 62 0.77
4 8 0.10
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2872320 original size:33 final size:32
Alignment explanation
Indices: 2872284--2872368 Score: 106
Period size: 32 Copynumber: 2.7 Consensus size: 32
2872274 TAATTTATTT
*
2872284 AATAATAATAATAATAATATAATTAATAATAA-T
1 AATAATAATAATAA-AATA-AAATAATAATAAGT
2872317 AATAA-AA-AATAAAATAAAATAATAATAAGT
1 AATAATAATAATAAAATAAAATAATAATAAGT
2872347 AATAATAATAA-ATAAATAAAAT
1 AATAATAATAATA-AAATAAAAT
2872369 GGGAAAAAAC
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
29 11 0.23
30 10 0.21
31 8 0.17
32 13 0.28
33 5 0.11
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.29
Consensus pattern (32 bp):
AATAATAATAATAAAATAAAATAATAATAAGT
Found at i:2873303 original size:26 final size:26
Alignment explanation
Indices: 2873272--2873321 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
2873262 GCATGGTCTT
*
2873272 GTGCATCGATGCATCAAATGCATTGA
1 GTGCATCGATGCATAAAATGCATTGA
2873298 GTGCATCGATGCATAAAATGCATT
1 GTGCATCGATGCATAAAATGCATT
2873322 CGATGTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (26 bp):
GTGCATCGATGCATAAAATGCATTGA
Found at i:2873350 original size:91 final size:91
Alignment explanation
Indices: 2873206--2873378 Score: 219
Period size: 91 Copynumber: 1.9 Consensus size: 91
2873196 CGGTGCACTT
* ** *
2873206 AGTGCACTGATGCATGAAATGCATTCGATGTTTTGAAAAAGCCTGAGTCCATCGATGCATGG-TC
1 AGTGCACTGATGCATAAAATGCATTCGATGTTTTGAAAAAAACTGAGTACATCGATGCATGGAT-
*
2873270 TTGTGCATCGATGCATCAAATGCATTG
65 TGGTGCATCGATGCATCAAATGCATTG
*
2873297 AGTGCA-TCGATGCATAAAATGCATTCGATG-TTTGAAAAATTAATTG-GTACATCGATGCATGG
1 AGTGCACT-GATGCATAAAATGCATTCGATGTTTTGAAAAA--AACTGAGTACATCGATGCATGG
*
2873359 ATTGGTGCATCGGTGCATCA
63 ATTGGTGCATCGATGCATCA
2873379 CTTTGAAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
90 10 0.14
91 58 0.82
92 3 0.04
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (91 bp):
AGTGCACTGATGCATAAAATGCATTCGATGTTTTGAAAAAAACTGAGTACATCGATGCATGGATT
GGTGCATCGATGCATCAAATGCATTG
Found at i:2873364 original size:20 final size:20
Alignment explanation
Indices: 2873339--2873376 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2873329 TGAAAAATTA
2873339 ATTGGTACATCGATGCATGG
1 ATTGGTACATCGATGCATGG
* *
2873359 ATTGGTGCATCGGTGCAT
1 ATTGGTACATCGATGCAT
2873377 CACTTTGAAA
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:0.21, C:0.16, G:0.32, T:0.32
Consensus pattern (20 bp):
ATTGGTACATCGATGCATGG
Found at i:2874482 original size:21 final size:21
Alignment explanation
Indices: 2874458--2874501 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2874448 AGTGAGGAGG
*
2874458 AGGAGGAGCACGAGAAGAGCT
1 AGGAGCAGCACGAGAAGAGCT
* *
2874479 AGGAGCAGCTCGTGAAGAGCT
1 AGGAGCAGCACGAGAAGAGCT
2874500 AG
1 AG
2874502 CTCCCGGGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.41, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAAGAGCT
Found at i:2879422 original size:22 final size:21
Alignment explanation
Indices: 2879380--2879419 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2879370 GAGTTTATTT
*
2879380 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2879401 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2879420 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2881498 original size:45 final size:46
Alignment explanation
Indices: 2881409--2881500 Score: 132
Period size: 45 Copynumber: 2.0 Consensus size: 46
2881399 TTAAAAAGCC
* * * *
2881409 TGAGTGCATCGATGCATGGTCCTGTGCATCGATGCATCAAATGCAT
1 TGAGTGCATCGATGCATGGTCATGCGCATCGATCCATAAAATGCAT
*
2881455 TGAGTGCATCGATGCATGGT-ATGCGCATCGTTCCATAAAATGCAT
1 TGAGTGCATCGATGCATGGTCATGCGCATCGATCCATAAAATGCAT
2881500 T
1 T
2881501 TGATGTTTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 21 0.51
46 20 0.49
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (46 bp):
TGAGTGCATCGATGCATGGTCATGCGCATCGATCCATAAAATGCAT
Found at i:2881543 original size:20 final size:20
Alignment explanation
Indices: 2881518--2881555 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2881508 TGAAAAATTA
2881518 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
2881538 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
2881556 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:2882075 original size:137 final size:139
Alignment explanation
Indices: 2881934--2882294 Score: 428
Period size: 139 Copynumber: 2.6 Consensus size: 139
2881924 CTAGCAAAAA
* *
2881934 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTATTCAGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAA
* *
2881999 CTTTTTCTGGAAATGTTGATCCTCAAAAGA-CAT-GTCGTTGGTTCAGCTT-CATATG-TAATGA
66 CTTTATCTGGAAATGTTGATCCTCAAAAGAGCATCGTCGTTGATTCA-CTTCCATA-GATAATGA
*
2882060 ATTAAGGC-AAG
129 ATCAA-GCTAAG
2882071 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-TCTCTTCAGATAAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCT-TCTTCAGATAAGTTCTTCTCATTATGA
* ** * ** ** * * * * **
2882135 AATTCCTCTGAAAATGTTGATCCTCAAGTGAGGTTCTTCTTTTATTCATTTCCATAGATGCTGAA
65 ACTTTATCTGGAAATGTTGATCCTCAAAAGAGCATCGTCGTTGATTCACTTCCATAGATAATGAA
*
2882200 TCAATCTAAG
130 TCAAGCTAAG
* *
2882210 GTCGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAA
* *
2882275 CTCTATCTGGAAATATTGAT
66 CTTTATCTGGAAATGTTGAT
2882295 GTTGATCTAT
Statistics
Matches: 190, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
136 1 0.01
137 85 0.45
138 5 0.03
139 99 0.52
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (139 bp):
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAA
CTTTATCTGGAAATGTTGATCCTCAAAAGAGCATCGTCGTTGATTCACTTCCATAGATAATGAAT
CAAGCTAAG
Found at i:2882519 original size:123 final size:123
Alignment explanation
Indices: 2882197--2882541 Score: 539
Period size: 124 Copynumber: 2.8 Consensus size: 123
2882187 CATAGATGCT
* * *
2882197 GAATCAATC-TAAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTT
1 GAATCAATCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTT
* * * *
2882261 CTTCTCATTATGAACTCTATCTGGAAATATTGATGTTGATCTATCTCCTTCTGTGATA
66 TTTCTCATTATGAACTCTTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATA
* *
2882319 GAGTCAAGCAAAAGGTTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGT
1 GAATCAATCAAAAGG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGT
* * *
2882384 TTTTCTCATTATGAACTATTTCTGGAAATGTTGATGCTGATCTATCTCCTTTTTTGATA
65 TTTTCTCATTATGAACTCTTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATA
* *
2882443 GAATCAATCAAAAGGTTGAACAAGTTTTTCTCATTATGAACTTCTTATTCCTCTTCAGATGAGTT
1 GAATCAATCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTT
*
2882508 TTTCTCATTATGAACTCTTCCTGGAAATGTTGAT
66 TTTCTCATTATGAACTCTTTCTGGAAATGTTGAT
2882542 CCATCGAGTG
Statistics
Matches: 203, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
122 7 0.03
123 84 0.41
124 112 0.55
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (123 bp):
GAATCAATCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTT
TTTCTCATTATGAACTCTTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATA
Found at i:2883421 original size:54 final size:54
Alignment explanation
Indices: 2883325--2883460 Score: 202
Period size: 54 Copynumber: 2.5 Consensus size: 54
2883315 ATAATAACTG
* * * *
2883325 GTTCGTAACACATTTGACAACACATTCATCCTTTCTTGTGGTTTTTACACGGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTATGGTTTCTACACGGAT
* *
2883379 GTTCTTAAAACATTTAACAACACATTCATCCTTTCCTATGGTTTCTACACGGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTATGGTTTCTACACGGAT
*
2883433 GTTCGTAAAA-ATTTGACAATACATTCAT
1 GTTCGTAAAACATTTGACAACACATTCAT
2883461 AATTTACTGT
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
53 16 0.22
54 57 0.78
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTATGGTTTCTACACGGAT
Found at i:2884283 original size:9 final size:8
Alignment explanation
Indices: 2884269--2884328 Score: 52
Period size: 8 Copynumber: 7.2 Consensus size: 8
2884259 AACCCTCCCC
2884269 TTTTTCTAT
1 TTTTTCT-T
2884278 TTTTTC-T
1 TTTTTCTT
2884285 TTTTTCTT
1 TTTTTCTT
2884293 TTTATTCTCCT
1 TTT-TTCT--T
*
2884304 TTTTTCTC
1 TTTTTCTT
2884312 TTTTT-TT
1 TTTTTCTT
*
2884319 TTTCTCTT
1 TTTTTCTT
2884327 TT
1 TT
2884329 GTTTTCTTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
7 12 0.28
8 13 0.30
9 10 0.23
10 4 0.09
11 4 0.09
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTCTT
Found at i:2884319 original size:13 final size:14
Alignment explanation
Indices: 2884303--2884338 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
2884293 TTTATTCTCC
2884303 TTTTTTCTCTTTT-
1 TTTTTTCTCTTTTG
2884316 TTTTTTCTCTTTTG
1 TTTTTTCTCTTTTG
2884330 TTTTCTTCT
1 TTTT-TTCT
2884339 TTAAGCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.62
14 4 0.19
15 4 0.19
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.81
Consensus pattern (14 bp):
TTTTTTCTCTTTTG
Found at i:2884339 original size:13 final size:12
Alignment explanation
Indices: 2884269--2884340 Score: 60
Period size: 12 Copynumber: 6.0 Consensus size: 12
2884259 AACCCTCCCC
2884269 TTTTTCTAT-TTT
1 TTTTTCT-TCTTT
*
2884281 TTCTTTTTTCTTT
1 TT-TTTCTTCTTT
* *
2884294 TTATTCTCCTTT
1 TTTTTCTTCTTT
*
2884306 TTTCTCTT-TTT
1 TTTTTCTTCTTT
2884317 TTTTTC-TCTTT
1 TTTTTCTTCTTT
2884328 TGTTTTCTTCTTT
1 T-TTTTCTTCTTT
2884341 AAGCATAATA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
10 1 0.02
11 12 0.26
12 20 0.43
13 14 0.30
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (12 bp):
TTTTTCTTCTTT
Found at i:2884339 original size:26 final size:26
Alignment explanation
Indices: 2884277--2884340 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
2884267 CCTTTTTCTA
*
2884277 TTTTTTCTTTTTTCTTTTTATTCTCC
1 TTTTTTCTTCTTTCTTTTTATTCTCC
*
2884303 TTTTTTC-TCTTT-TTTTT-TTCTCTT
1 TTTTTTCTTCTTTCTTTTTATTCTC-C
2884327 TTGTTTTCTTCTTT
1 TT-TTTTCTTCTTT
2884341 AAGCATAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 5 0.15
24 7 0.21
25 9 0.27
26 12 0.36
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.80
Consensus pattern (26 bp):
TTTTTTCTTCTTTCTTTTTATTCTCC
Found at i:2891579 original size:15 final size:15
Alignment explanation
Indices: 2891559--2891590 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2891549 TGCAATGAGT
2891559 AATGAATGTATGCAA
1 AATGAATGTATGCAA
2891574 AATGAATGTATGCAA
1 AATGAATGTATGCAA
2891589 AA
1 AA
2891591 GGTATTGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:2894047 original size:15 final size:15
Alignment explanation
Indices: 2894027--2894058 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2894017 TGCAATGAGT
2894027 AATGAATGTATGCAA
1 AATGAATGTATGCAA
2894042 AATGAATGTATGCAA
1 AATGAATGTATGCAA
2894057 AA
1 AA
2894059 GGTATTGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:2899442 original size:3 final size:3
Alignment explanation
Indices: 2899427--2899486 Score: 52
Period size: 3 Copynumber: 20.0 Consensus size: 3
2899417 TTTGGGCCTG
* * *
2899427 TAA TAA TAT TAA TAA T-T TAT TTAA TAA TAA TAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
*
2899471 TTAA TAA TAA AAA TAA
1 -TAA TAA TAA TAA TAA
2899487 AAGAAAAGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 3 0.06
3 39 0.83
4 5 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:2899442 original size:12 final size:12
Alignment explanation
Indices: 2899427--2899480 Score: 58
Period size: 12 Copynumber: 4.5 Consensus size: 12
2899417 TTTGGGCCTG
2899427 TAATAATATTAA
1 TAATAATATTAA
*
2899439 TAAT-TTATTTAA
1 TAATAATA-TTAA
*
2899451 TAATAATAATAA
1 TAATAATATTAA
2899463 TAAT-ATAATTAA
1 TAATAAT-ATTAA
2899475 TAATAA
1 TAATAA
2899481 AAATAAAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
11 4 0.12
12 27 0.79
13 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAATAATATTAA
Found at i:2899458 original size:24 final size:24
Alignment explanation
Indices: 2899427--2899486 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
2899417 TTTGGGCCTG
* * *
2899427 TAATAATATTAATAATTTATTTAA
1 TAATAATAATAATAATATAATTAA
2899451 TAATAATAATAATAATATAATTAA
1 TAATAATAATAATAATATAATTAA
*
2899475 TAATAAAAATAA
1 TAATAATAATAA
2899487 AAGAAAAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
TAATAATAATAATAATATAATTAA
Found at i:2900471 original size:19 final size:19
Alignment explanation
Indices: 2900449--2900509 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
2900439 AAATTAAAAA
2900449 AATAATTACAAAGTAAATT
1 AATAATTACAAAGTAAATT
** * *
2900468 AATAATT--GTATTAAA-A
1 AATAATTACAAAGTAAATT
2900484 AATAATTACAAAGTAAATT
1 AATAATTACAAAGTAAATT
*
2900503 GATAATT
1 AATAATT
2900510 TTATTAAATA
Statistics
Matches: 30, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
16 7 0.23
17 5 0.17
18 5 0.17
19 13 0.43
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (19 bp):
AATAATTACAAAGTAAATT
Found at i:2900488 original size:35 final size:35
Alignment explanation
Indices: 2900445--2900517 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
2900435 AATTAAATTA
2900445 AAAAAATAATTACAAAGTAAATTAATAATTGTATT
1 AAAAAATAATTACAAAGTAAATTAATAATTGTATT
* *
2900480 AAAAAATAATTACAAAGTAAATTGATAATTTTATT
1 AAAAAATAATTACAAAGTAAATTAATAATTGTATT
2900515 AAA
1 AAA
2900518 TATAAATTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (35 bp):
AAAAAATAATTACAAAGTAAATTAATAATTGTATT
Found at i:2900798 original size:35 final size:36
Alignment explanation
Indices: 2900752--2900825 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 36
2900742 AATTAAATTA
2900752 AAAAAATTAATTACAAAGTAAATTAATAATTGTATT
1 AAAAAATTAATTACAAAGTAAATTAATAATTGTATT
* *
2900788 AAAAAA-TAATTACAAAGTAAATTGATAATTTTATT
1 AAAAAATTAATTACAAAGTAAATTAATAATTGTATT
2900823 AAA
1 AAA
2900826 TATAAATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 30 0.83
36 6 0.17
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (36 bp):
AAAAAATTAATTACAAAGTAAATTAATAATTGTATT
Found at i:2903567 original size:12 final size:12
Alignment explanation
Indices: 2903550--2903590 Score: 82
Period size: 12 Copynumber: 3.4 Consensus size: 12
2903540 CTTATTCGTT
2903550 CTCTCATCCGTC
1 CTCTCATCCGTC
2903562 CTCTCATCCGTC
1 CTCTCATCCGTC
2903574 CTCTCATCCGTC
1 CTCTCATCCGTC
2903586 CTCTC
1 CTCTC
2903591 GTCCTTCTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.07, C:0.51, G:0.07, T:0.34
Consensus pattern (12 bp):
CTCTCATCCGTC
Found at i:2909189 original size:2 final size:2
Alignment explanation
Indices: 2909182--2909207 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2909172 AAATATTCAA
2909182 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
2909208 TAAAACCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2912980 original size:13 final size:13
Alignment explanation
Indices: 2912964--2912988 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2912954 TTTTATGAGA
2912964 AAATTTTAATTTT
1 AAATTTTAATTTT
2912977 AAATTTTAATTT
1 AAATTTTAATTT
2912989 ATTTATTCGA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
AAATTTTAATTTT
Found at i:2916408 original size:106 final size:106
Alignment explanation
Indices: 2916223--2920946 Score: 7336
Period size: 106 Copynumber: 45.4 Consensus size: 106
2916213 ATTTTGCTCA
*
2916223 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
2916288 CGAAGGGACCGCTGGTTGTCAATAAACAAATTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
2916329 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
2916394 CGAAGGGACCGCTGGTTGTCAAAAAATAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* *
2916435 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
2916500 CGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
2916541 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTTACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
2916606 CGAAGGGACCGCTAGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* *
2916647 AGAGCCAACTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * * *
2916712 CGAAGGGACCGCTGGTTGTCAATAAAAAAATTACCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* *
2916753 AAAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
2916818 CGAAGGGACCGCTGGTTGTCAATAAACAACTT-CC----T-
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
2916853 ------AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * * *
2916912 CGAAGGGACCGCTGGTTGTCAATAAAAAAATTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
2916953 AAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
2917018 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
2917059 A-A--C---TT---C-GCA-A-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
2917112 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* * * *
2917153 ATAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACACAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * * *
2917218 TGAAGGGACCGCTGGTTATCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* *
2917259 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACATCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
2917324 CGAAGGGACCGCTGGTTGTCAAAAAATAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
2917365 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGCTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
2917430 CGAAGGGACCGCTGGATGTCAACAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
2917471 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
2917536 CGAAGGGACTGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
2917577 AGAGCCAATTTCAATTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
2917642 CGAAGGGACCGCTGGTTGTCAATAAAAAAATTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* * *
2917683 AAAGCCAATTTCAACTTCACAGCGCAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
2917748 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
2917789 A-A--C---TT---C-GCA-A-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
2917842 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* * *
2917883 AAAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
2917948 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
2917989 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTTACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
2918054 CGAAGGGACCGCTAGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* *
2918095 AGAGCCAACTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * * *
2918160 CGAAGGGACCGCTGGTTGTCAATAAAAAAATTACCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* *
2918201 AAAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
2918266 CGAAGGGACCGCTGGTTGTCAATAAACAACTT-CC----T-
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
2918301 ------AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * * *
2918360 CGAAGGGACCGCTGGTTGTCAATAAAAAAATTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
2918401 AAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
2918466 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
2918507 A-A--C---TT---C-GCA-A-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
2918560 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* * * *
2918601 ATAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACACAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * * *
2918666 TGAAGGGACCGCTGGTTATCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* *
2918707 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACATCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
2918772 CGAAGGGACCGCTGGTTGTCAA-AAATAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
2918812 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGCTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
2918877 CGAAGGGACCGCTGGATGTCAACAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
2918918 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
2918983 CGAAGGGACTGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
2919024 AGAGCCAATTTCAATTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
2919089 CGAAGGGACCGCTGGTTGTCAATAAAAAAATTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* * *
2919130 AAAGCCAATTTCAACTTCACAGCGCAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
2919195 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
2919236 A-A--C---TT---C-GCA-A-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
2919289 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* * *
2919330 AAAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
2919395 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
2919436 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC-CCAAGACAACGCAAGTTCAACTTCACG
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACG
* *
2919500 ACGAAGGGACCGCTGGTTGTCAAAAAATAACTTCCCAATTTC
65 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
2919542 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAGGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
2919607 CGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* *
2919648 AGAGCCAATTTCAACATCACAGCGAAGGTTATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* **
2919713 CGAAGGGACCGCTGTTTGTCAACAAACAACTTGTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* *
2919754 AGAGCCAATTTCAACTTCACATCGAAGCATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
2919819 CGAAGGGACCGCTGGTTGTCAATAAAAAAATTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
2919860 AAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
2919925 CGATGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
2919966 A-A--C---TT---C-GCA-A-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
2920019 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* *
2920060 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
2920125 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* * *
2920166 AGAGCCAATTTCAATTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
2920231 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* * *
2920272 AGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAAGGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * * *
2920337 CAAAGGGACCGCTGGCTGTCAACAAACAATTTCCTAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* *
2920378 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
2920443 CGAAGGGACCGCTGGTTATCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
2920484 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
2920549 CGAAGGGACCGCTGGTTGCCAACAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* *
2920590 AGAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
2920655 TGAAGGGACCGCTGGTTGTCAACAAATAACTTCCCAATTTT
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
2920696 AGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
2920761 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* * * * *
2920802 AGAGCCAATTTCAACTTCACAGCAAAGGATATTGGACTCGATACAACACAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * * *
2920867 CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGATTCC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
2920908 AGAGCCAATTTCAACTTCAC-GACGGAGGATATTGGACTC
1 AGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACTC
2920947 GGAACAATGC
Statistics
Matches: 4260, Mismatches: 270, Indels: 176
0.91 0.06 0.04
Matches are distributed among these distances:
94 586 0.14
95 12 0.00
96 10 0.00
97 10 0.00
99 2 0.00
100 20 0.00
101 2 0.00
103 10 0.00
104 10 0.00
105 116 0.03
106 3480 0.82
107 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
Found at i:2916823 original size:43 final size:43
Alignment explanation
Indices: 2916762--2916917 Score: 118
Period size: 43 Copynumber: 3.4 Consensus size: 43
2916752 CAAAGCCAAT
*
2916762 TTCAACTTCACAGTGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
*** ** * * * *
2916805 TTCAACTTCAC-GACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCTAAT
1 TTCAACTTCACAG-CGAA-GGA-TATTGG-ACTC--CAGACAAC--GC-AAG
2916856 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
2916899 TTCAACTTCAC-GACGAAGG
1 TTCAACTTCACAG-CGAAGG
2916918 GACCGCTGGT
Statistics
Matches: 83, Mismatches: 19, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
42 2 0.02
43 33 0.40
44 4 0.05
45 3 0.04
46 8 0.10
48 8 0.10
49 3 0.04
50 4 0.05
51 17 0.20
52 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (43 bp):
TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:2917023 original size:43 final size:43
Alignment explanation
Indices: 2916962--2917117 Score: 125
Period size: 43 Copynumber: 3.4 Consensus size: 43
2916952 CAAAGCCAAT
2916962 TTCAACTTCAC-AGCGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGA-CGAAGGATATTGGACTCCAGACAACGCAAG
*** ** * * * *
2917005 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
1 TTCAACTTCACGACGAA-GGA-TATTGG-ACTC--CAGACAA---CGCAAG
* *
2917056 TTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
2917099 TTCAACTTCACGACGAAGG
1 TTCAACTTCACGACGAAGG
2917118 GACCGCTGGT
Statistics
Matches: 82, Mismatches: 22, Indels: 18
0.67 0.18 0.15
Matches are distributed among these distances:
43 36 0.44
44 4 0.05
45 3 0.04
46 7 0.09
48 7 0.09
49 3 0.04
50 3 0.04
51 19 0.23
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (43 bp):
TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:2917269 original size:518 final size:510
Alignment explanation
Indices: 2916220--2920946 Score: 6059
Period size: 518 Copynumber: 9.1 Consensus size: 510
2916210 CACATTTTGC
*
2916220 TCAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TCAA-AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
2916285 CGACGAAGGGACCGCTGGTTGTCAATAAACAAATTCCCAATTTCAGAGCCAATTTCAACTTCACA
65 CGACGAAGGGACCGCTGGTTGTCAATAAAC-AA----C---TTC--A-CCAATTTCAACTTCACA
*
2916350 GCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
119 GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* * * *
2916415 AAAAATAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAAACA
184 ACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACA
2916480 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAG
249 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-----C---TTC----
* *
2916545 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTTACGACGAA
302 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
2916610 GGGACCGCTAGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAACTTCAACTTCACAGCGAAGG
367 GGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
*
2916675 ATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-A
432 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
*
2916739 A--AATTACCAATT
497 ATCAATTCCCAATT
*
2916751 TCAAAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 TCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
*
2916816 GACGAAGGGACCGCTGGTTGTCAATAAACAACTTC-CTAATTTCAACTTCACAGCGAAGGATATT
66 GACGAAGGGACCGCTGGTTGTCAATAAACAACTTCACCAATTTCAACTTCACAGCGAAGGATATT
* * *
2916880 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAAAAATTC
131 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTC
* *
2916945 TCAATTTCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAA
196 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAA
* *
2917010 CTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAACTTCGCAACGAAGG
261 CTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAACTTCACAACGAAGG
2917075 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
326 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* * * * *
2917140 ACTTCTCAATTTCATAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACACAAG
391 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* *
2917205 TTCAACTTCACGATGAAGGGACCGCTGGTTATCAATAAACAAT---TTCCCAATT
456 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATCAATTCCCAATT
* * *
2917257 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACATCAC
1 TCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
* *
2917322 GACGAAGGGACCGCTGGTTGTCAAAAAATAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
66 GACGAAGGGACCGCTGGTTGTC----AATAA----ACAACTTC--A-CCAATTTCAACTTCACAG
* *
2917387 CGAAGGATATTGGACTCCAGACAACGCAAGCTCAACTTCACGACGAAGGGACCGCTGGATGTCAA
120 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
*
2917452 CAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAA
185 CAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAA
* *
2917517 CGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGC
250 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCA-A--
2917582 CAATTTCAATTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
312 C---TTC-A---CA-A-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * * * *
2917647 GGACCGCTGGTTGTCAATAAAAAAATTCCCAATTTCAAAGCCAATTTCAACTTCACAGCGCAGGA
368 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
*
2917712 TATTGGACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAA
433 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA
2917777 -C--TTCCCAATT
498 TCAATTCCCAATT
*
2917787 TC-AA--C---TT---C-GCA-A-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 TCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
* *
2917840 GACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAAAGCCAATTTCAACTTCACAA
66 GACGAAGGGACCGCTGGTTGTCAATAAACAA-----C---TTC--A-CCAATTTCAACTTCACAG
*
2917905 CGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
120 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* *
2917970 TAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAA
185 CAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAA
* * *
2918035 CGCAAGTTCAACTTTACGACGAAGGGACCGCTAGTTGTCAACAAACAACTTCTCAATTTCAGAGC
250 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT------
*
2918100 CAACTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAG
309 CAACTTC-A---CA-A-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * * * * *
2918165 GGACCGCTGGTTGTCAATAAAAAAATTACCAATTTCAAAGCCAATTTCAACTTCACAGTGAAGGA
368 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
2918230 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA
433 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA
2918295 -C--TT-CC----
498 TCAATTCCCAATT
2918300 T-------AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 TCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
*
2918358 GACGAAGGGACCGCTGGTTGTCAATAAAAAAATTCTCAATTTCAAAGCCAATTTCAACTTCACAG
66 GACGAAGGGACCGCTGGTTGTCAAT----AAA----CAACTTC--A-CCAATTTCAACTTCACAG
2918423 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
120 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* *
2918488 TAAACAACTTCCCAATTTCA-A--C---TT---C-GCA-A-CGAAGGATATTGGACTCCAGACAA
185 CAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAA
2918541 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCATAGC
250 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-----C---TTC----C
* * *
2918606 CAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACACAAGTTCAACTTCACGATGAAG
303 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * *
2918671 GGACCGCTGGTTATCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
368 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
* * *
2918736 TATTGGACTCAAGACAACGCAAGTTCAACATCACGACGAAGGGACCGCTGGTTGTCAA-AAATAA
433 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA
2918800 -C--TTCCCAATT
498 TCAATTCCCAATT
* *
2918810 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGCTCAACTTCAC
1 TCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
* *
2918875 GACGAAGGGACCGCTGGATGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
66 GACGAAGGGACCGCTGGTTGTCAATAAACAA-----C---TTC--A-CCAATTTCAACTTCACAG
*
2918940 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAA
120 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* *
2919005 CAAACAACTTCTCAATTTCAGAGCCAATTTCAATTTCACAGCGAAGGATATTGGACTCCAGACAA
185 CAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAA
* *
2919070 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAAAAATTCCCAATTTCAAAGC
250 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC----AACAAA----CAACTTC----C
* * *
2919135 CAATTTCAACTTCACAGCGCAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGACGAAG
303 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* *
2919200 GGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCA-A--C---TT---C-GCA-A-CGAAGGA
368 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
*
2919253 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
433 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA
*
2919318 -C--TTCTCAATT
498 TCAATTCCCAATT
* *
2919328 TCAAAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCAC
1 TCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
2919393 GACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
66 GACGAAGGGACCGCTGGTTGTCAATAAACAA-----C---TTC--A-CCAATTTCAACTTCACAG
2919458 CGAAGGATATTGGAC-CCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
120 CGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* *
2919522 AAAAATAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACA
184 ACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACA
* *
2919587 ACGCAAGTTCAACTTCAGGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAG
249 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCA-A-
*
2919652 CCAATTTCAACATCACAGCGAAGGTTATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
312 -C---TT---CA-CA-A-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* ** * *
2919717 GGGACCGCTGTTTGTCAACAAACAACTTGTCAATTTCAGAGCCAATTTCAACTTCACATCGAAGC
367 GGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
2919782 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-A
432 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
2919846 A--AATTCCCAATT
497 ATCAATTCCCAATT
2919858 TCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 TCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
* * *
2919923 GACGATGGGACCGCTGGTTGTCAATAAACAACTTC-CCAATTTCAACTTCGCAACGAAGGATATT
66 GACGAAGGGACCGCTGGTTGTCAATAAACAACTTCACCAATTTCAACTTCACAGCGAAGGATATT
2919987 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTC
131 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTC
* * *
2920052 TCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAA
196 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAA
2920117 CTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAATT
261 CTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT------CAA---C---T
*
2920182 TCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGT
314 TCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
2920247 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCC
379 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * * *
2920312 AGACAAGGCAAGTTCAACTTCACGACAAAGGGACCGCTGGCTGTCAACAAACAAT---TTCCTAA
444 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATCAATTCCCAA
2920374 TT
509 TT
* * *
2920376 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCAC
1 TCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
* * *
2920441 GACGAAGGGACCGCTGGTTATCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAA
66 GACGAAGGGACCGCTGGTTGTCAATAAACAA-----C---TTC--A-CCAATTTCAACTTCACAG
*
2920506 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGCCAA
120 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* *
2920571 CAAACAACTTCCCAATTTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAA
185 CAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAA
* *
2920636 CGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAATAACTTCCCAATTTTAGAGC
250 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTT--C----------C
* *
2920701 CAATTTCAACTTCACAGCGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
303 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*
2920766 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCAAAGGA
368 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
* * * * * *
2920831 TATTGGACTCGATACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAA
433 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA
*
2920896 T---TTCCCGATT
498 TCAATTCCCAATT
* * *
2920906 CCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGGACTC
1 TCAAAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACTC
2920947 GGAACAATGC
Statistics
Matches: 3814, Mismatches: 209, Indels: 347
0.87 0.05 0.08
Matches are distributed among these distances:
505 8 0.00
506 512 0.13
507 5 0.00
508 4 0.00
509 5 0.00
510 19 0.00
511 2 0.00
512 13 0.00
513 5 0.00
514 18 0.00
515 4 0.00
516 4 0.00
517 254 0.07
518 1850 0.49
519 10 0.00
520 6 0.00
521 6 0.00
522 9 0.00
523 7 0.00
524 17 0.00
525 2 0.00
526 7 0.00
527 4 0.00
528 6 0.00
529 172 0.05
530 841 0.22
531 4 0.00
532 1 0.00
533 6 0.00
536 3 0.00
537 3 0.00
542 7 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (510 bp):
TCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
GACGAAGGGACCGCTGGTTGTCAATAAACAACTTCACCAATTTCAACTTCACAGCGAAGGATATT
GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTC
CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAA
CTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAACTTCACAACGAAGG
ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATCAATTCCCAATT
Found at i:2918271 original size:43 final size:43
Alignment explanation
Indices: 2918210--2918365 Score: 118
Period size: 43 Copynumber: 3.4 Consensus size: 43
2918200 CAAAGCCAAT
*
2918210 TTCAACTTCACAGTGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
*** ** * * * *
2918253 TTCAACTTCAC-GACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCTAAT
1 TTCAACTTCACAG-CGAA-GGA-TATTGG-ACTC--CAGACAAC--GC-AAG
2918304 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
2918347 TTCAACTTCAC-GACGAAGG
1 TTCAACTTCACAG-CGAAGG
2918366 GACCGCTGGT
Statistics
Matches: 83, Mismatches: 19, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
42 2 0.02
43 33 0.40
44 4 0.05
45 3 0.04
46 8 0.10
48 8 0.10
49 3 0.04
50 4 0.05
51 17 0.20
52 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (43 bp):
TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:2918471 original size:43 final size:43
Alignment explanation
Indices: 2918410--2918565 Score: 125
Period size: 43 Copynumber: 3.4 Consensus size: 43
2918400 CAAAGCCAAT
2918410 TTCAACTTCAC-AGCGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGA-CGAAGGATATTGGACTCCAGACAACGCAAG
*** ** * * * *
2918453 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
1 TTCAACTTCACGACGAA-GGA-TATTGG-ACTC--CAGACAA---CGCAAG
* *
2918504 TTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
2918547 TTCAACTTCACGACGAAGG
1 TTCAACTTCACGACGAAGG
2918566 GACCGCTGGT
Statistics
Matches: 82, Mismatches: 22, Indels: 18
0.67 0.18 0.15
Matches are distributed among these distances:
43 36 0.44
44 4 0.05
45 3 0.04
46 7 0.09
48 7 0.09
49 3 0.04
50 3 0.04
51 19 0.23
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (43 bp):
TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:2921283 original size:86 final size:86
Alignment explanation
Indices: 2921156--2921368 Score: 291
Period size: 86 Copynumber: 2.5 Consensus size: 86
2921146 AAGGCATATC
* *
2921156 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAACCGAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGTCAACCGAAGACCTTCGAGTTCGATTACA
2921221 TTCAGCTCAAAGGCAAAACAA
66 TTCAGCTCAAAGGCAAAACAA
* * *
2921242 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCGAGGACCTTCGAGTTCGATTATA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGTCAACCGAAGACCTTCGAGTTCGATTACA
* * *
2921307 TTTAGCTCAGAGGCAAACCAA
66 TTCAGCTCAAAGGCAAAACAA
* ** * * * *
2921328 ATTTACAATATAGGTCAAGGCTAGAAGGGCTATCTGTCAAC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGTCAAC
2921369 AAAATTGTCG
Statistics
Matches: 111, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
86 111 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (86 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGTCAACCGAAGACCTTCGAGTTCGATTACA
TTCAGCTCAAAGGCAAAACAA
Found at i:2923544 original size:40 final size:41
Alignment explanation
Indices: 2923487--2923605 Score: 145
Period size: 40 Copynumber: 2.9 Consensus size: 41
2923477 TTTTTTTAAC
* *
2923487 TTATTTTAATTATTTAATTTTAATATATTCATTTATAAAAA
1 TTATTTTAATTATTTAATTATATTATATTCATTTATAAAAA
* *
2923528 TTATTTT-AGTATTTAA-TAGTATTATATTCAATTT-TAAAAT
1 TTATTTTAATTATTTAATTA-TATTATATTC-ATTTATAAAAA
* *
2923568 TTATTTTAATTATTTAATTATATTATATTAATTAATAA
1 TTATTTTAATTATTTAATTATATTATATTCATTTATAA
2923606 TATATATATA
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
39 1 0.02
40 32 0.48
41 31 0.47
42 2 0.03
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (41 bp):
TTATTTTAATTATTTAATTATATTATATTCATTTATAAAAA
Found at i:2923597 original size:18 final size:19
Alignment explanation
Indices: 2923576--2923635 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 19
2923566 ATTTATTTTA
* *
2923576 ATTATTTAATTATAT-TAT
1 ATTAATTAATAATATATAT
2923594 ATTAATTAATAATATATAT
1 ATTAATTAATAATATATAT
2923613 ATATAAACATTAATAATATATAT
1 AT-T--A-ATTAATAATATATAT
2923636 TGACATGGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 13 0.37
19 5 0.14
20 1 0.03
22 1 0.03
23 15 0.43
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTAATTAATAATATATAT
Found at i:2923635 original size:81 final size:81
Alignment explanation
Indices: 2923487--2923636 Score: 178
Period size: 81 Copynumber: 1.9 Consensus size: 81
2923477 TTTTTTTAAC
* * * * * ** *
2923487 TTATTTTAATTATTTAATTTTAATATATTCATTTATAAAAATTATTTTAGTATTTAATAGTATTA
1 TTATTTTAATTATTTAATTATAATATATTAATTAATAAAAATTATATAAACATTTAATAATATTA
2923552 TATTCAATTTTAAAAT
66 TATTCAATTTTAAAAT
* *
2923568 TTATTTTAATTATTTAATTATATTATATTAATTAATAATATATATATATAAACA-TTAATAATA-
1 TTATTTTAATTATTTAATTATAATATATTAATTAATAA-AAAT-TATATAAACATTTAATAATAT
2923631 TATATT
64 TATATT
2923637 GACATGGCAT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
81 40 0.70
82 11 0.19
83 6 0.11
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (81 bp):
TTATTTTAATTATTTAATTATAATATATTAATTAATAAAAATTATATAAACATTTAATAATATTA
TATTCAATTTTAAAAT
Found at i:2927080 original size:51 final size:52
Alignment explanation
Indices: 2927007--2927110 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 52
2926997 AAAAATCCAC
* *
2927007 TACCCCACTAATAATAATAAT-AATAAACTGTTGGTTAAGCACGAATCCAAT
1 TACCCCACTAATAATAAAAATAAAAAAACTGTTGGTTAAGCACGAATCCAAT
*
2927058 TACCCCACTAATAATAAAAATAAAAAAAACTGTTGGTTAAGCTCGAATCCAAT
1 TACCCCACTAATAATAAAAAT-AAAAAAACTGTTGGTTAAGCACGAATCCAAT
2927111 AATATTAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
51 20 0.42
53 28 0.58
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (52 bp):
TACCCCACTAATAATAAAAATAAAAAAACTGTTGGTTAAGCACGAATCCAAT
Found at i:2927420 original size:27 final size:28
Alignment explanation
Indices: 2927364--2927425 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
2927354 AACTAAAGTT
* * *
2927364 ATATTTTTTGTCAAAATATGTACCTAAA
1 ATATTTTATGTCAAAACAAGTACCTAAA
2927392 ATATTTTATGTCAAAACAAGTACCTAAA
1 ATATTTTATGTCAAAACAAGTACCTAAA
*
2927420 TTATTT
1 ATATTT
2927426 AAATATTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.42
Consensus pattern (28 bp):
ATATTTTATGTCAAAACAAGTACCTAAA
Found at i:2927547 original size:31 final size:31
Alignment explanation
Indices: 2927492--2927569 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
2927482 TTTAGGTATA
* *
2927492 TATTTTAACTAAAAA-AT-ACTTTAAATACC
1 TATTTTGACCAAAAAGATAACTTTAAATACC
**
2927521 TATTTTGACCAAAAAGATAACTTTAAATATT
1 TATTTTGACCAAAAAGATAACTTTAAATACC
2927552 TATTTTGACC-AAAAGATA
1 TATTTTGACCAAAAAGATA
2927570 TGTTATATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 13 0.30
30 10 0.23
31 20 0.47
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (31 bp):
TATTTTGACCAAAAAGATAACTTTAAATACC
Found at i:2934810 original size:21 final size:21
Alignment explanation
Indices: 2934784--2934823 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2934774 CAGAACCCCA
*
2934784 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
2934805 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
2934824 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Done.