Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 39 of 51
Found at i:7602052 original size:37 final size:37
Alignment explanation
Indices: 7601975--7602170 Score: 158
Period size: 36 Copynumber: 5.4 Consensus size: 37
7601965 TTGCAAATTG
*
7601975 TTTTTGAAAATACATAATAATATATAG---TTTAAAACA
1 TTTTTGAAAATATAT-AT-ATATATAGTTTTTTAAAACA
* *
7602011 TTTTTGAAAATATGTATATATATAGTTTTTTAAAATA
1 TTTTTGAAAATATATATATATATAGTTTTTTAAAACA
* *
7602048 TTTTTGAAAAT-TATA-ATATATAGTTTTTGAAAACG
1 TTTTTGAAAATATATATATATATAGTTTTTTAAAACA
* *
7602083 TTTTT-AAAATATATATAATATATA-CTTTTGAAAAC-
1 TTTTTGAAAATATATAT-ATATATAGTTTTTTAAAACA
* * * * * *
7602118 GTTATGAAAACATTTATATAATATAATTTTTAAAAACCA
1 TTTTTGAAAATATATATAT-ATATAGTTTTTTAAAA-CA
*
7602157 -TGTTGAAAATATAT
1 TTTTTGAAAATATAT
7602171 TTTTTGAAAA
Statistics
Matches: 131, Mismatches: 18, Indels: 20
0.78 0.11 0.12
Matches are distributed among these distances:
34 13 0.10
35 33 0.25
36 40 0.31
37 34 0.26
38 11 0.08
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (37 bp):
TTTTTGAAAATATATATATATATAGTTTTTTAAAACA
Found at i:7602074 original size:35 final size:36
Alignment explanation
Indices: 7601975--7602111 Score: 152
Period size: 37 Copynumber: 3.8 Consensus size: 36
7601965 TTGCAAATTG
* **
7601975 TTTTTGAAAATACATAATAATATA-TAGTTTAAAACA
1 TTTTTGAAAATATATAAT-ATATAGTTTTTTAAAACA
* *
7602011 TTTTTGAAAATATGTATATATATAGTTTTTTAAAATA
1 TTTTTGAAAATATATA-ATATATAGTTTTTTAAAACA
* *
7602048 TTTTTGAAAAT-TATAATATATAGTTTTTGAAAACG
1 TTTTTGAAAATATATAATATATAGTTTTTTAAAACA
* *
7602083 TTTTTAAAATATATATAATATATACTTTT
1 TTTTTGAAA-ATATATAATATATAGTTTT
7602112 GAAAACGTTA
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
35 25 0.29
36 24 0.28
37 37 0.43
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (36 bp):
TTTTTGAAAATATATAATATATAGTTTTTTAAAACA
Found at i:7602118 original size:36 final size:38
Alignment explanation
Indices: 7601974--7602311 Score: 172
Period size: 38 Copynumber: 9.0 Consensus size: 38
7601964 TTTGCAAATT
*
7601974 GTTTTTGAAAATACATAATAATATATAG--TTT-AAAAC
1 GTTTTTGAAAATATAT-ATAATATATAGTTTTTGAAAAC
* * * *
7602010 ATTTTTGAAAATATGTAT-ATATATAGTTTTTTAAAAT
1 GTTTTTGAAAATATATATAATATATAGTTTTTGAAAAC
*
7602047 ATTTTTG-AAA-AT-TATAATATATAGTTTTTGAAAAC
1 GTTTTTGAAAATATATATAATATATAGTTTTTGAAAAC
*
7602082 GTTTTT-AAAATATATATAATATATA-CTTTTGAAAAC
1 GTTTTTGAAAATATATATAATATATAGTTTTTGAAAAC
* * *
7602118 G-TTATGAAAACATTTATATAATATA-A-TTTTTAAAAAC
1 GTTTTTG-AAA-ATATATATAATATATAGTTTTTGAAAAC
** * * * * * * *
7602155 CATGTTGAAAATATAT-T-TTTTGAAAATTATAT-AATATATA
1 GTTTTTGAAAATATATATAATAT-ATAGTT-TTTGAA-A-A-C
*
7602195 G-TTTTGAAAACGTTTTATATATAATATATA-CTTTTGAAAAC
1 GTTTTTGAAAA-----TATATATAATATATAGTTTTTGAAAAC
* * * *
7602236 G-TTATGAAAACATTTATATAATATATAATTTTTAAAAAC
1 GTTTTTG-AAA-ATATATATAATATATAGTTTTTGAAAAC
** *
7602275 CATTTTGAAAATATATATAATATATAGTTTTTAAAAA
1 GTTTTTGAAAATATATATAATATATAGTTTTTGAAAA
7602312 AAAAAACATT
Statistics
Matches: 236, Mismatches: 36, Indels: 58
0.72 0.11 0.18
Matches are distributed among these distances:
34 13 0.06
35 34 0.14
36 38 0.16
37 42 0.18
38 58 0.25
39 21 0.09
40 4 0.02
41 5 0.02
42 4 0.02
43 4 0.02
44 8 0.03
45 3 0.01
46 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (38 bp):
GTTTTTGAAAATATATATAATATATAGTTTTTGAAAAC
Found at i:7602218 original size:30 final size:30
Alignment explanation
Indices: 7602182--7602238 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
7602172 TTTTGAAAAT
*
7602182 TATATAATATATAGTTTTGAAAACGTTTTA
1 TATATAATATATACTTTTGAAAACGTTTTA
7602212 TATATAATATATACTTTTGAAAACGTT
1 TATATAATATATACTTTTGAAAACGTT
7602239 ATGAAAACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (30 bp):
TATATAATATATACTTTTGAAAACGTTTTA
Found at i:7602228 original size:118 final size:121
Alignment explanation
Indices: 7602048--7602290 Score: 388
Period size: 118 Copynumber: 2.0 Consensus size: 121
7602038 TTTTAAAATA
7602048 TTTTTGAAAATTATAATATATAGTTTTTGAAAACGTTTTTAAAATATATATAATATATACTTTTG
1 TTTTTGAAAATTATAATATATAGTTTTTGAAAACG-TTTT---ATATATATAATATATACTTTTG
7602113 AAAACGTTATGAAAACATTTATAT-A-ATATAATTTTTAAAAACCATGTTGAAAATATAT
62 AAAACGTTATGAAAACATTTATATAATATATAATTTTTAAAAACCATGTTGAAAATATAT
7602171 TTTTTGAAAATTATATAATATATAG-TTTTGAAAACG-TTT-TATATATAATATATACTTTTGAA
1 TTTTTGAAAA-T-TATAATATATAGTTTTTGAAAACGTTTTATATATATAATATATACTTTTGAA
*
7602233 AACGTTATGAAAACATTTATATAATATATAATTTTTAAAAACCATTTTGAAAATATAT
64 AACGTTATGAAAACATTTATATAATATATAATTTTTAAAAACCATGTTGAAAATATAT
7602291 ATAATATATA
Statistics
Matches: 115, Mismatches: 1, Indels: 11
0.91 0.01 0.09
Matches are distributed among these distances:
118 45 0.39
119 1 0.01
120 32 0.28
122 3 0.03
123 10 0.09
124 12 0.10
125 12 0.10
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (121 bp):
TTTTTGAAAATTATAATATATAGTTTTTGAAAACGTTTTATATATATAATATATACTTTTGAAAA
CGTTATGAAAACATTTATATAATATATAATTTTTAAAAACCATGTTGAAAATATAT
Found at i:7602313 original size:40 final size:38
Alignment explanation
Indices: 7602249--7602351 Score: 104
Period size: 38 Copynumber: 2.7 Consensus size: 38
7602239 ATGAAAACAT
* * *
7602249 TTATATAATATATAATTTTT-AAAAACCATTTTGAAAA
1 TTATATAATATATAGTTTTTAAAAAAACATTTTAAAAA
7602286 TATATATAATATATAGTTTTTAAAAAAAAAAACATTTTAAAAA
1 T-TATATAATATATAGTTTTT----AAAAAAACATTTTAAAAA
*
7602329 TTATAT-ATATAT-GTTTTTGAAAA
1 TTATATAATATATAGTTTTTAAAAA
7602352 CGTTTATATA
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
36 4 0.07
37 1 0.02
38 18 0.32
40 6 0.11
41 6 0.11
42 5 0.09
43 16 0.29
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (38 bp):
TTATATAATATATAGTTTTTAAAAAAACATTTTAAAAA
Found at i:7602339 original size:41 final size:42
Alignment explanation
Indices: 7602269--7602351 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 42
7602259 TATAATTTTT
* *
7602269 AAAAACCATTTTGAAAATATATATAATATATAGTTTTTAAAAA
1 AAAAAACATTTTAAAAATATATATAATATAT-GTTTTTAAAAA
*
7602312 AAAAAACATTTTAAAAAT-TATAT-ATATATGTTTTTGAAAA
1 AAAAAACATTTTAAAAATATATATAATATATGTTTTTAAAAA
7602352 CGTTTATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 10 0.27
41 6 0.16
42 5 0.14
43 16 0.43
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.39
Consensus pattern (42 bp):
AAAAAACATTTTAAAAATATATATAATATATGTTTTTAAAAA
Found at i:7606138 original size:20 final size:21
Alignment explanation
Indices: 7606113--7606164 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
7606103 TATTATATTG
*
7606113 TTATTTAAAAATTAT-AAAAT
1 TTATTTAAAAATCATAAAAAT
*
7606133 TTATTTGAAAATCATAAAAAT
1 TTATTTAAAAATCATAAAAAT
7606154 TATATTTAAAA
1 T-TATTTAAAA
7606165 CAAAAAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 13 0.48
21 6 0.22
22 8 0.30
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
TTATTTAAAAATCATAAAAAT
Found at i:7606171 original size:20 final size:21
Alignment explanation
Indices: 7606128--7606177 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
7606118 TAAAAATTAT
*
7606128 AAAATTTATTTGAAAATCATA
1 AAAATTTATTTGAAAATCAAA
7606149 AAAATTATATTT-AAAA-CAAA
1 AAAATT-TATTTGAAAATCAAA
7606169 AAAGATTTA
1 AAA-ATTTA
7606178 AACATTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 8 0.31
21 13 0.50
22 5 0.19
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (21 bp):
AAAATTTATTTGAAAATCAAA
Found at i:7609052 original size:202 final size:204
Alignment explanation
Indices: 7608706--7609112 Score: 800
Period size: 202 Copynumber: 2.0 Consensus size: 204
7608696 TTTGAAGGAA
7608706 CAATATGATCATGCAATATGTATCTTTAAGCGAAAGAGACGATTTCAAATGGGATTAAAATTTTA
1 CAATATGATCATGCAATATGTATCTTTAAGCGAAAGAGACGATTTCAAATGGGATTAAAATTTTA
7608771 AGGTTGTGCATGAAAAGCTGAACCTCAGCGATGATGGTGGAGCATGTTCATAAGAGCTCAAGGGG
66 AGGTTGTGCATGAAAAGCTGAACCTCAGCGATGATGGTGGAGCATGTTCATAAGAGCTCAAGGGG
7608836 GATAATGGTCAAATTTTA-TTT-ATTTCCTTACTTGCTGGAGCAATCTACGAGCTCTACTAAATT
131 GATAATGGTCAAATTTTATTTTAATTTCCTTACTTGCTGGAGCAATCTACGAGCTCTACTAAATT
7608899 TCCTCTTTG
196 TCCTCTTTG
7608908 CAATATGATCATGCAATATGTATCTTTAAGCGAAAGAGACGATTTCAAATGGGATTAAAATTTTA
1 CAATATGATCATGCAATATGTATCTTTAAGCGAAAGAGACGATTTCAAATGGGATTAAAATTTTA
7608973 AGGTTGTGCATGAAAAGCTGAACCTCAGCGATGATGGTGGAGCATGTTCATAAGAGCTCAAGGGG
66 AGGTTGTGCATGAAAAGCTGAACCTCAGCGATGATGGTGGAGCATGTTCATAAGAGCTCAAGGGG
7609038 GATAATGGTCAAATTTTATTTTAATTTCCTTACTTGCTGGAGCAATCTACGAGCTCTACTAAATT
131 GATAATGGTCAAATTTTATTTTAATTTCCTTACTTGCTGGAGCAATCTACGAGCTCTACTAAATT
7609103 TCCTCTTTG
196 TCCTCTTTG
7609112 C
1 C
7609113 TTTAATCCCA
Statistics
Matches: 203, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
202 148 0.73
203 3 0.01
204 52 0.26
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (204 bp):
CAATATGATCATGCAATATGTATCTTTAAGCGAAAGAGACGATTTCAAATGGGATTAAAATTTTA
AGGTTGTGCATGAAAAGCTGAACCTCAGCGATGATGGTGGAGCATGTTCATAAGAGCTCAAGGGG
GATAATGGTCAAATTTTATTTTAATTTCCTTACTTGCTGGAGCAATCTACGAGCTCTACTAAATT
TCCTCTTTG
Found at i:7614115 original size:59 final size:59
Alignment explanation
Indices: 7614043--7614161 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
7614033 TGACTGTCGC
7614043 AATACAAGATATTGTTTTCTTGTTTCTTGCCTAAATCTTCCAAGAAACTTTGGAGCCAA
1 AATACAAGATATTGTTTTCTTGTTTCTTGCCTAAATCTTCCAAGAAACTTTGGAGCCAA
*
7614102 AATACAAGATATTGTTTTCTTGTTTCTTGCCTAACTCTTCCAAGAAACTTTGGAGCCAA
1 AATACAAGATATTGTTTTCTTGTTTCTTGCCTAAATCTTCCAAGAAACTTTGGAGCCAA
7614161 A
1 A
7614162 CCATCTCCTT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (59 bp):
AATACAAGATATTGTTTTCTTGTTTCTTGCCTAAATCTTCCAAGAAACTTTGGAGCCAA
Found at i:7617774 original size:16 final size:17
Alignment explanation
Indices: 7617749--7617780 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7617739 TCGCCGACCG
7617749 AATTTCACTATTCACGA
1 AATTTCACTATTCACGA
7617766 AATTT-ACTATTCACG
1 AATTTCACTATTCACG
7617781 TGAGTAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (17 bp):
AATTTCACTATTCACGA
Found at i:7623363 original size:30 final size:29
Alignment explanation
Indices: 7623329--7623402 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
7623319 TGAAATTATT
*
7623329 AAAATTCTCAAAAAACA-CCTAAAATTCTA
1 AAAAATCTCAAAAAA-ATCCTAAAATTCTA
*
7623358 AAAAATCTCAAAAAAATTCCTAAATTTCT-
1 AAAAATCTCAAAAAAA-TCCTAAAATTCTA
*
7623387 AAAAATCTAAAAAAAA
1 AAAAATCTCAAAAAAA
7623403 CATAACTCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
28 1 0.03
29 29 0.73
30 10 0.25
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.24
Consensus pattern (29 bp):
AAAAATCTCAAAAAAATCCTAAAATTCTA
Found at i:7624496 original size:2 final size:2
Alignment explanation
Indices: 7624489--7624523 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
7624479 ATGTTAGATA
7624489 AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7624524 TAATATAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:7624511 original size:17 final size:17
Alignment explanation
Indices: 7624489--7624521 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7624479 ATGTTAGATA
7624489 ATATATATATATATATT
1 ATATATATATATATATT
7624506 ATATATATATATATAT
1 ATATATATATATATAT
7624522 ATTAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATATATATATATATATT
Found at i:7624603 original size:2 final size:2
Alignment explanation
Indices: 7624596--7624629 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
7624586 AAAAACCAAA
7624596 AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7624630 ATTATAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7624724 original size:2 final size:2
Alignment explanation
Indices: 7624717--7624754 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7624707 AGTACTTTGA
7624717 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7624755 TAATAATAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7627801 original size:6 final size:6
Alignment explanation
Indices: 7627790--7627834 Score: 54
Period size: 7 Copynumber: 6.8 Consensus size: 6
7627780 ACCCACCTTA
7627790 TTTCTT TTTCTTT TTTCTT TTTCTTT TTTCTTT TGTTCTT TTTCT
1 TTTCTT TTTC-TT TTTCTT TTTC-TT TTTC-TT T-TTCTT TTTCT
7627835 CATTTTTCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
6 14 0.39
7 19 0.53
8 3 0.08
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:7627808 original size:13 final size:13
Alignment explanation
Indices: 7627790--7627856 Score: 73
Period size: 13 Copynumber: 4.8 Consensus size: 13
7627780 ACCCACCTTA
7627790 TTTCTTTTTCTTT
1 TTTCTTTTTCTTT
7627803 TTTCTTTTTCTTT
1 TTTCTTTTTCTTT
7627816 TTTCTTTTGTTCTTT
1 TTTC-TTT-TTCTTT
7627831 TTCTCATTTTTCTCTCT
1 TT-TC-TTTTTCT-T-T
7627848 TTT-TTTTTC
1 TTTCTTTTTC
7627857 AATTTAGGGC
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
13 17 0.35
14 9 0.19
15 12 0.25
16 7 0.15
17 3 0.06
ACGTcount: A:0.01, C:0.18, G:0.01, T:0.79
Consensus pattern (13 bp):
TTTCTTTTTCTTT
Found at i:7631543 original size:60 final size:60
Alignment explanation
Indices: 7631471--7631591 Score: 206
Period size: 60 Copynumber: 2.0 Consensus size: 60
7631461 CACACGAAAT
*
7631471 AGTCAAAGAATTAAATTTAAAAGAAAATGGAAATGAAGTGTTGGAATGAAGAAAACAGAC
1 AGTCAAAGAATTAAATTTAAAAGAAAATGGAAATGAAGTGTTGGAATAAAGAAAACAGAC
* * *
7631531 AGTCAAAGAATTAAATTTGAAAGGAAATGGAAATGAAGTGTTGGAATAAAGAAAATAGAC
1 AGTCAAAGAATTAAATTTAAAAGAAAATGGAAATGAAGTGTTGGAATAAAGAAAACAGAC
7631591 A
1 A
7631592 ATGAATTCGA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.53, C:0.04, G:0.22, T:0.21
Consensus pattern (60 bp):
AGTCAAAGAATTAAATTTAAAAGAAAATGGAAATGAAGTGTTGGAATAAAGAAAACAGAC
Found at i:7637611 original size:13 final size:13
Alignment explanation
Indices: 7637593--7637617 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7637583 CTACTTAAAA
7637593 CGGGTTTAGAGCT
1 CGGGTTTAGAGCT
7637606 CGGGTTTAGAGC
1 CGGGTTTAGAGC
7637618 CTTAAGTGAA
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:0.16, C:0.16, G:0.40, T:0.28
Consensus pattern (13 bp):
CGGGTTTAGAGCT
Found at i:7638074 original size:13 final size:13
Alignment explanation
Indices: 7638056--7638088 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
7638046 CTTAGTTAAG
7638056 AAAATTGAAAGGT
1 AAAATTGAAAGGT
7638069 AAAATTGAAAGGT
1 AAAATTGAAAGGT
7638082 AAAATTG
1 AAAATTG
7638089 TGATCCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (13 bp):
AAAATTGAAAGGT
Found at i:7638215 original size:30 final size:33
Alignment explanation
Indices: 7638181--7638270 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 33
7638171 AAAGAGGACC
*
7638181 AATAAGATAAAGAGAATAA-AAT-AA-AAATAA
1 AATAAGATAAAGAGAAGAATAATGAATAAATAA
* *
7638211 AATAAAATAAAGAGAAGAATAATGAATAAATGA
1 AATAAGATAAAGAGAAGAATAATGAATAAATAA
7638244 AAT-AGAT-AAGATGAAGAAATAAT-AATA
1 AATAAGATAAAGA-GAAG-AATAATGAATA
7638271 GTAAATACAT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
30 17 0.33
31 7 0.14
32 13 0.25
33 14 0.27
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (33 bp):
AATAAGATAAAGAGAAGAATAATGAATAAATAA
Found at i:7638482 original size:2 final size:2
Alignment explanation
Indices: 7638470--7638535 Score: 125
Period size: 2 Copynumber: 33.5 Consensus size: 2
7638460 GTTAGGTTAG
7638470 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7638511 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7638536 AATGATAATA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7638614 original size:6 final size:6
Alignment explanation
Indices: 7638603--7638674 Score: 58
Period size: 6 Copynumber: 11.8 Consensus size: 6
7638593 AAATCGAAAA
* * *
7638603 AAATAT AAATAT AAATAT AAATAT ATATAT AATATTAT ATATAT ACATAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AA-A-TAT AAATAT AAATAT
* *
7638653 --ATAT AATTAT AAGATAT TAATA
1 AAATAT AAATAT AA-ATAT AAATA
7638675 GTAATAAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
4 4 0.07
6 40 0.74
7 6 0.11
8 4 0.07
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (6 bp):
AAATAT
Found at i:7638630 original size:2 final size:2
Alignment explanation
Indices: 7638605--7638657 Score: 56
Period size: 2 Copynumber: 27.5 Consensus size: 2
7638595 ATCGAAAAAA
* * *
7638605 AT AT AA AT AT AA AT AT AA AT AT AT AT AT A- AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
7638645 AT AC AT AT AT AT A
1 AT AT AT AT AT AT A
7638658 ATTATAAGAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:7638806 original size:2 final size:2
Alignment explanation
Indices: 7638750--7638792 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7638740 AGTACTTTGA
7638750 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7638792 A
1 A
7638793 ATAATGGGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7638899 original size:25 final size:25
Alignment explanation
Indices: 7638871--7638928 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
7638861 GGTTAAATTG
7638871 AATTAAAAAGCAAGTTGGGTGGCCA
1 AATTAAAAAGCAAGTTGGGTGGCCA
7638896 AATTAAAAAGCAAGTTGGGTGGCCA
1 AATTAAAAAGCAAGTTGGGTGGCCA
7638921 AATTAAAA
1 AATTAAAA
7638929 CAAAATCGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.45, C:0.10, G:0.24, T:0.21
Consensus pattern (25 bp):
AATTAAAAAGCAAGTTGGGTGGCCA
Found at i:7639261 original size:20 final size:20
Alignment explanation
Indices: 7639236--7639273 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7639226 ACCTCGTCGG
*
7639236 CCGCCGTTGAACGGCGACGT
1 CCGCCGTTCAACGGCGACGT
*
7639256 CCGCCGTTCATCGGCGAC
1 CCGCCGTTCAACGGCGAC
7639274 AAAAATAAAA
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:0.13, C:0.39, G:0.32, T:0.16
Consensus pattern (20 bp):
CCGCCGTTCAACGGCGACGT
Found at i:7652645 original size:22 final size:23
Alignment explanation
Indices: 7652602--7652645 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
7652592 TGTTGGCTTG
**
7652602 ATTGACAAAATGTTAAGTGATCTT
1 ATTGACAAAA-GTTAAAAGATCTT
7652626 ATTGACAAAA-TTAAAAGATC
1 ATTGACAAAAGTTAAAAGATC
7652646 AATGGTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
24 10 0.56
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (23 bp):
ATTGACAAAAGTTAAAAGATCTT
Found at i:7655633 original size:20 final size:20
Alignment explanation
Indices: 7655610--7655653 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
7655600 CTTTGTTATT
7655610 AGTAAGTTCACAGTATGATC
1 AGTAAGTTCACAGTATGATC
7655630 AGTAAGTTCACAGTATGATC
1 AGTAAGTTCACAGTATGATC
7655650 AGTA
1 AGTA
7655654 TACTTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (20 bp):
AGTAAGTTCACAGTATGATC
Found at i:7656716 original size:170 final size:170
Alignment explanation
Indices: 7656434--7656749 Score: 632
Period size: 170 Copynumber: 1.9 Consensus size: 170
7656424 TATTGAGAGC
7656434 AAGTCTCAGTAAGCAAGGTAATGTAGCATTTTTTTAGAGAAGAACAAGCAATTTGAGAAAAGAAC
1 AAGTCTCAGTAAGCAAGGTAATGTAGCATTTTTTTAGAGAAGAACAAGCAATTTGAGAAAAGAAC
7656499 AAAAACTAAATTGATAAAATGAATAAATAGGAAAAGTTAAATTTATTGATTTTTTTCTAACTAGG
66 AAAAACTAAATTGATAAAATGAATAAATAGGAAAAGTTAAATTTATTGATTTTTTTCTAACTAGG
7656564 ACCAAACTGATAAAATGTATACATTTTTATGACTAAAATT
131 ACCAAACTGATAAAATGTATACATTTTTATGACTAAAATT
7656604 AAGTCTCAGTAAGCAAGGTAATGTAGCATTTTTTTAGAGAAGAACAAGCAATTTGAGAAAAGAAC
1 AAGTCTCAGTAAGCAAGGTAATGTAGCATTTTTTTAGAGAAGAACAAGCAATTTGAGAAAAGAAC
7656669 AAAAACTAAATTGATAAAATGAATAAATAGGAAAAGTTAAATTTATTGATTTTTTTCTAACTAGG
66 AAAAACTAAATTGATAAAATGAATAAATAGGAAAAGTTAAATTTATTGATTTTTTTCTAACTAGG
7656734 ACCAAACTGATAAAAT
131 ACCAAACTGATAAAAT
7656750 TTTTTAACTG
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
170 146 1.00
ACGTcount: A:0.46, C:0.09, G:0.15, T:0.30
Consensus pattern (170 bp):
AAGTCTCAGTAAGCAAGGTAATGTAGCATTTTTTTAGAGAAGAACAAGCAATTTGAGAAAAGAAC
AAAAACTAAATTGATAAAATGAATAAATAGGAAAAGTTAAATTTATTGATTTTTTTCTAACTAGG
ACCAAACTGATAAAATGTATACATTTTTATGACTAAAATT
Found at i:7658295 original size:32 final size:32
Alignment explanation
Indices: 7658229--7658295 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
7658219 GACATAGTTG
* *
7658229 AGGGACTAAAATCGAAAGGGAGTTAATGTCTA
1 AGGGACTAAAATCGAAAGGAAGATAATGTCTA
*
7658261 AGGGACTAAAATCGAACGGAACGATAATGT-TA
1 AGGGACTAAAATCGAAAGGAA-GATAATGTCTA
7658293 AGG
1 AGG
7658296 ATTATGTACC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 24 0.77
33 7 0.23
ACGTcount: A:0.42, C:0.10, G:0.28, T:0.19
Consensus pattern (32 bp):
AGGGACTAAAATCGAAAGGAAGATAATGTCTA
Found at i:7663803 original size:3 final size:3
Alignment explanation
Indices: 7663797--7663885 Score: 151
Period size: 3 Copynumber: 29.7 Consensus size: 3
7663787 TTTTTATCCA
* *
7663797 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
7663845 TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7663886 AAATACATAA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:7669400 original size:14 final size:15
Alignment explanation
Indices: 7669371--7669402 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
7669361 GAATTATTTT
7669371 ATTCATTAAGTTAAA
1 ATTCATTAAGTTAAA
7669386 ATTCATTAA-TTAAA
1 ATTCATTAAGTTAAA
7669400 ATT
1 ATT
7669403 TGAAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (15 bp):
ATTCATTAAGTTAAA
Found at i:7676697 original size:10 final size:10
Alignment explanation
Indices: 7676663--7676716 Score: 63
Period size: 10 Copynumber: 5.1 Consensus size: 10
7676653 ATTATGTTTG
7676663 AAGAAAAAAA
1 AAGAAAAAAA
*
7676673 AATAATAATAAAA
1 AA-GA-AA-AAAA
7676686 AAGAAAAAAA
1 AAGAAAAAAA
7676696 AAGAAAAAAA
1 AAGAAAAAAA
*
7676706 AGGAAAAAAA
1 AAGAAAAAAA
7676716 A
1 A
7676717 GGGGGTCAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
10 26 0.68
11 3 0.08
12 3 0.08
13 6 0.16
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:7676704 original size:19 final size:20
Alignment explanation
Indices: 7676668--7676717 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
7676658 GTTTGAAGAA
*
7676668 AAAAAAATAATAATAAAAAAG
1 AAAAAAA-AAGAATAAAAAAG
7676689 AAAAAAAAAGAA-AAAAAAG
1 AAAAAAAAAGAATAAAAAAG
*
7676708 GAAAAAAAAG
1 AAAAAAAAAG
7676718 GGGGTCAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 16 0.59
20 4 0.15
21 7 0.26
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (20 bp):
AAAAAAAAAGAATAAAAAAG
Found at i:7677996 original size:84 final size:84
Alignment explanation
Indices: 7677855--7678162 Score: 530
Period size: 84 Copynumber: 3.7 Consensus size: 84
7677845 TAACTGAAAA
*
7677855 ATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACGGAAC
1 ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACGGAAC
7677920 CAATCATTGAATTTAGAAG
66 CAATCATTGAATTTAGAAG
7677939 ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACGGAAC
1 ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACGGAAC
7678004 CAATCATTGAATTTAGAAG
66 CAATCATTGAATTTAGAAG
* * *
7678023 ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATTTGGTTTGGTA--AA
1 ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGG-ACGGA
7678086 ACCAATCATTGAATTTAGAAG
64 ACCAATCATTGAATTTAGAAG
* *
7678107 ATGAATGTGCTCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATTTGATCTGGTT
1 ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
7678163 TGGTAAAAAT
Statistics
Matches: 214, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
83 2 0.01
84 207 0.97
85 4 0.02
86 1 0.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (84 bp):
ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACGGAAC
CAATCATTGAATTTAGAAG
Found at i:7679046 original size:113 final size:113
Alignment explanation
Indices: 7678781--7679290 Score: 806
Period size: 113 Copynumber: 4.5 Consensus size: 113
7678771 TTCCAGTTCG
7678781 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
** * * *
7678846 AACCTTTTTGCTTAAATCTATCACTTGATGGATTATCTTTTCCAGAGAA
66 AACCTTTTACCTGAATTC-ATCACTTGATGGATTAACTTTTCCAGAGAA
*
7678895 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
***
7678960 AACCTTTTGTTTGAATTCATCACTTGATGGATTAACTTTTCCAGAGAA
66 AACCTTTTACCTGAATTCATCACTTGATGGATTAACTTTTCCAGAGAA
*
7679008 GGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * * *
7679073 AACCTTTTACCTGAGTCCATCATTTGATGGATCAACCTTTACAGAGAA
66 AACCTTTTACCTGAATTCATCACTTGATGGATTAACTTTTCCAGAGAA
7679121 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* *
7679186 AACCTTTTACCTGAATTCATCAATTGATGGATTATCTTTTCCAGAG-A
66 AACCTTTTACCTGAATTCATCACTTGATGGATTAACTTTTCCAGAGAA
* * * *
7679233 AGTTCATAATAAGAAGAACTCATATGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
7679291 CTCATCTGAA
Statistics
Matches: 366, Mismatches: 30, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
112 55 0.15
113 234 0.64
114 77 0.21
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTACCTGAATTCATCACTTGATGGATTAACTTTTCCAGAGAA
Found at i:7679282 original size:40 final size:40
Alignment explanation
Indices: 7679230--7679330 Score: 193
Period size: 40 Copynumber: 2.5 Consensus size: 40
7679220 TCTTTTCCAG
7679230 AGAAGTTCATAATAAGAAGAACTCATATGAAGAAGAAAGA
1 AGAAGTTCATAATAAGAAGAACTCATATGAAGAAGAAAGA
*
7679270 AGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGAAAGA
1 AGAAGTTCATAATAAGAAGAACTCATATGAAGAAGAAAGA
7679310 AGAAGTTCATAATAAGAAGAA
1 AGAAGTTCATAATAAGAAGAA
7679331 TTTGTTCAAC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.54, C:0.08, G:0.20, T:0.18
Consensus pattern (40 bp):
AGAAGTTCATAATAAGAAGAACTCATATGAAGAAGAAAGA
Found at i:7679286 original size:24 final size:23
Alignment explanation
Indices: 7679243--7679290 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
7679233 AGTTCATAAT
7679243 AAGAAGAACTCATATGAAGAAGA
1 AAGAAGAACTCATATGAAGAAGA
*
7679266 AAGAAGAAGTTCATAAT-AAGAAGA
1 AAGAAGAA-CTCAT-ATGAAGAAGA
7679290 A
1 A
7679291 CTCATCTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 8 0.36
24 12 0.55
25 2 0.09
ACGTcount: A:0.58, C:0.06, G:0.21, T:0.15
Consensus pattern (23 bp):
AAGAAGAACTCATATGAAGAAGA
Found at i:7679670 original size:3 final size:3
Alignment explanation
Indices: 7679664--7679749 Score: 145
Period size: 3 Copynumber: 28.7 Consensus size: 3
7679654 TTTTTATCCA
* *
7679664 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
7679712 TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7679750 AATATATTAA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:7682444 original size:14 final size:14
Alignment explanation
Indices: 7682427--7682454 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7682417 CCAATCTGGC
7682427 TTGTCAAATCCTGT
1 TTGTCAAATCCTGT
7682441 TTGTCAAATCCTGT
1 TTGTCAAATCCTGT
7682455 CTTCCAGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (14 bp):
TTGTCAAATCCTGT
Found at i:7690159 original size:19 final size:18
Alignment explanation
Indices: 7690135--7690176 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
7690125 AAAAGATTAT
7690135 AAATTTCATAT-ATTTTTGA
1 AAATTTCAT-TGATTTTT-A
*
7690154 AAATTTTATTGATTTTTA
1 AAATTTCATTGATTTTTA
7690172 AAATT
1 AAATT
7690177 AATTATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (18 bp):
AAATTTCATTGATTTTTA
Found at i:7690624 original size:22 final size:23
Alignment explanation
Indices: 7690565--7690628 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
7690555 CTCATATATT
*
7690565 TAAAATTCAATAAAAATACAATAA
1 TAAAATTCAATAAAAA-AGAATAA
* *
7690589 -AAAAAT-AAT-TAAAAGAA-AA
1 TAAAATTCAATAAAAAAGAATAA
7690608 TAAAATTCAATAAAAAAGAAT
1 TAAAATTCAATAAAAAAGAAT
7690629 GTAAAGATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 9
0.69 0.11 0.20
Matches are distributed among these distances:
19 2 0.06
20 8 0.26
21 6 0.19
22 10 0.32
23 5 0.16
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.22
Consensus pattern (23 bp):
TAAAATTCAATAAAAAAGAATAA
Found at i:7694425 original size:17 final size:17
Alignment explanation
Indices: 7694394--7694435 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
7694384 TCACTCAATG
*
7694394 CATAATTTGAATAAAAA
1 CATAATTTTAATAAAAA
* *
7694411 CATAATTTTAGTAAAAT
1 CATAATTTTAATAAAAA
7694428 CA-AATTTT
1 CATAATTTT
7694436 TGGAACAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (17 bp):
CATAATTTTAATAAAAA
Found at i:7707188 original size:21 final size:21
Alignment explanation
Indices: 7707141--7707182 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
7707131 CACTCCTTAA
*
7707141 GAACCATATACATAATATAAT
1 GAACCATATACATAATACAAT
7707162 GAACCATATACATAATACAAT
1 GAACCATATACATAATACAAT
7707183 AGACCAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.17, G:0.05, T:0.26
Consensus pattern (21 bp):
GAACCATATACATAATACAAT
Found at i:7710669 original size:22 final size:21
Alignment explanation
Indices: 7710629--7710669 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
7710619 TTTAGAATTT
*
7710629 TATTTTTTTATATAATTTAAA
1 TATTTTTTTATACAATTTAAA
*
7710650 TATTTTCTTTATACATTTTA
1 TATTTT-TTTATACAATTTA
7710670 TTAATAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
TATTTTTTTATACAATTTAAA
Found at i:7710847 original size:60 final size:60
Alignment explanation
Indices: 7710779--7710916 Score: 240
Period size: 60 Copynumber: 2.3 Consensus size: 60
7710769 CCCTCCAACT
* *
7710779 ATTAAAAGTTATAAAATTTTCCCCCAACTATAAGGTGTTGCTTTGTTGAGTCCCTTGACA
1 ATTAAAAGTTATAAAATGTTCCCCCAACTATAAGGTGTTGCTTTGTTGAGTCCCTCGACA
*
7710839 ATTAAAAGTTATAAAATGTTCCCCCAACTATAAGGTGTTGCTTTGTTGAGTCCCTCGACT
1 ATTAAAAGTTATAAAATGTTCCCCCAACTATAAGGTGTTGCTTTGTTGAGTCCCTCGACA
*
7710899 ATTAAAAGTTACAAAATG
1 ATTAAAAGTTATAAAATG
7710917 GCCACTCGAT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 74 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (60 bp):
ATTAAAAGTTATAAAATGTTCCCCCAACTATAAGGTGTTGCTTTGTTGAGTCCCTCGACA
Found at i:7713874 original size:13 final size:13
Alignment explanation
Indices: 7713856--7713963 Score: 50
Period size: 13 Copynumber: 8.3 Consensus size: 13
7713846 AAATTGAAAA
7713856 ATAATATATATAT
1 ATAATATATATAT
7713869 ATAATATA-A-A-
1 ATAATATATATAT
* *
7713879 ATTATATATA-AA
1 ATAATATATATAT
*
7713891 AT-ATATTTATATT
1 ATAATATATATA-T
7713904 ATAA-ACTATATAT
1 ATAATA-TATATAT
*
7713917 ATAAATTATATTTAT
1 AT-AA-TATATATAT
*
7713932 GTGAACTATATATAT
1 AT-AA-TATATATAT
*
7713947 ATAA-AGTATGTAT
1 ATAATA-TATATAT
7713960 ATAA
1 ATAA
7713964 AATTATAAGC
Statistics
Matches: 74, Mismatches: 11, Indels: 20
0.70 0.10 0.19
Matches are distributed among these distances:
10 7 0.09
11 9 0.12
12 5 0.07
13 24 0.32
14 10 0.14
15 18 0.24
16 1 0.01
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (13 bp):
ATAATATATATAT
Found at i:7713914 original size:20 final size:18
Alignment explanation
Indices: 7713853--7713919 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
7713843 AAAAAATTGA
*
7713853 AAAATA-ATATATATATAT
1 AAAATATATTTATAT-TAT
* * *
7713871 AATATAAAATTATA-TAT
1 AAAATATATTTATATTAT
7713888 AAAATATATTTATATTAT
1 AAAATATATTTATATTAT
* *
7713906 AAACTATATATATA
1 AAAATATATTTATA
7713920 AATTATATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
17 14 0.36
18 20 0.51
19 5 0.13
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATATATTTATATTAT
Found at i:7713988 original size:18 final size:18
Alignment explanation
Indices: 7713965--7714019 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
7713955 TGTATATAAA
7713965 ATTATAAGCTATATTTAT
1 ATTATAAGCTATATTTAT
* * *
7713983 ATTATAAACTCTA-TAATT
1 ATTATAAGCTATATTTA-T
*
7714001 ATTATAAGCTATATATAT
1 ATTATAAGCTATATTTAT
7714019 A
1 A
7714020 AATTATGTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
17 2 0.07
18 25 0.89
19 1 0.04
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (18 bp):
ATTATAAGCTATATTTAT
Found at i:7714080 original size:41 final size:41
Alignment explanation
Indices: 7713859--7714082 Score: 131
Period size: 41 Copynumber: 5.4 Consensus size: 41
7713849 TTGAAAAATA
* *
7713859 ATATATATATA-TA-ATATA-AAATTATATATA-AAATATAT
1 ATATATATAAACTATATATATAAACTATATATATAAAT-TAT
* * * * *
7713897 TTATATTATAAACTATATATATAAATTATATTTATGTGAACTAT
1 ATATA-TATAAACTATATATATAAACTATA--TATATAAATTAT
* * * *
7713941 ATATATATAAAGTATGTATATAAAAT-TATA-AGCTATATT-T
1 ATATATATAAACTATATATATAAACTATATATA--TAAATTAT
*
7713981 ATAT-TATAAACTCTATAATTATTATAAGCTATATATATAAATTAT
1 ATATATATAAA--CTAT-A-TA-TATAAACTATATATATAAATTAT
* * * * *
7714026 GTTTATGTGAACTATATATATAAACTATGTATATAAATTAT
1 ATATATATAAACTATATATATAAACTATATATATAAATTAT
*
7714067 ATATGTATAAACTATA
1 ATATATATAAACTATA
7714083 AAAAGTATAT
Statistics
Matches: 139, Mismatches: 29, Indels: 33
0.69 0.14 0.16
Matches are distributed among these distances:
38 4 0.03
39 11 0.08
40 9 0.06
41 43 0.31
42 12 0.09
43 21 0.15
44 25 0.18
45 9 0.06
46 5 0.04
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (41 bp):
ATATATATAAACTATATATATAAACTATATATATAAATTAT
Found at i:7714082 original size:15 final size:13
Alignment explanation
Indices: 7713898--7714082 Score: 63
Period size: 13 Copynumber: 13.3 Consensus size: 13
7713888 AAAATATATT
7713898 TATAT-TATAAAC
1 TATATATATAAAC
*
7713910 TATATATATAAAT
1 TATATATATAAAC
* *
7713923 TATATTTATGTGAAC
1 TATA--TATATAAAC
*
7713938 TATATATATATAAAG
1 --TATATATATAAAC
* *
7713953 TATGTATATAAAA
1 TATATATATAAAC
*
7713966 T-TATA-AGCTATA-
1 TATATATA--TAAAC
*
7713978 TTTATATTATAAACTC
1 TATATA-TATAAA--C
*
7713994 TATAATTATTATAAGC
1 TAT-A-TA-TATAAAC
*
7714010 TATATATATAAAT
1 TATATATATAAAC
* * *
7714023 TATGTTTATGTGAAC
1 TA--TATATATAAAC
7714038 TATATATATAAAC
1 TATATATATAAAC
* *
7714051 TATGTATATAAAT
1 TATATATATAAAC
7714064 TATATATGTATAAAC
1 TATATA--TATAAAC
7714079 TATA
1 TATA
7714083 AAAAGTATAT
Statistics
Matches: 127, Mismatches: 27, Indels: 35
0.67 0.14 0.19
Matches are distributed among these distances:
11 1 0.01
12 9 0.07
13 63 0.50
14 2 0.02
15 33 0.26
16 6 0.05
17 5 0.04
18 8 0.06
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:7714158 original size:66 final size:66
Alignment explanation
Indices: 7714068--7714203 Score: 211
Period size: 66 Copynumber: 2.1 Consensus size: 66
7714058 ATAAATTATA
*
7714068 TATGTATAAACTATAAAAAGTATATAGTTTATAAAATATTATTTATATTAATATAGTATATATAT
1 TATGTATAAACTATAAAAAGTATATAGTTTATAAAATATAATTTATATTAATATAGTATATATAT
7714133 G
66 G
* ***
7714134 TATGTATAAGCTATATAAAA-TATATAGTTTATATGTTATAATTTATATTAATATAGTATATATA
1 TATGTATAAACTATA-AAAAGTATATAGTTTATAAAATATAATTTATATTAATATAGTATATATA
7714198 TG
65 TG
7714200 TATG
1 TATG
7714204 CATTAGTCTA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
66 60 0.94
67 4 0.06
ACGTcount: A:0.44, C:0.01, G:0.09, T:0.46
Consensus pattern (66 bp):
TATGTATAAACTATAAAAAGTATATAGTTTATAAAATATAATTTATATTAATATAGTATATATAT
G
Found at i:7714319 original size:2 final size:2
Alignment explanation
Indices: 7714314--7714369 Score: 67
Period size: 2 Copynumber: 27.0 Consensus size: 2
7714304 TTATATAGTT
** *
7714314 TA TA TA TA TA GG TA TA TA TA TA TA TA TA TA TA TA TA TA TA GTT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
7714357 TA TA TA TA CTA TA
1 TA TA TA TA -TA TA
7714370 CATGGTTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 43 0.93
3 3 0.07
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7714369 original size:20 final size:20
Alignment explanation
Indices: 7714300--7714395 Score: 70
Period size: 20 Copynumber: 4.5 Consensus size: 20
7714290 ATAAATAATT
*
7714300 TACTTTATATAGTTTATATA
1 TACTATATATAGTTTATATA
7714320 TA-TAGGTATATA-TATATATATA
1 TACTA--TATATAGT-T-TATATA
*
7714342 TATATATATATAGTTTATATA
1 TA-CTATATATAGTTTATATA
* * *
7714363 TACTATACATGGTTTATACA
1 TACTATATATAGTTTATATA
7714383 TACATATTATATA
1 TAC-TA-TATATA
7714396 AATTTATTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
19 1 0.02
20 20 0.33
21 17 0.28
22 19 0.32
23 1 0.02
24 2 0.03
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (20 bp):
TACTATATATAGTTTATATA
Found at i:7714414 original size:23 final size:25
Alignment explanation
Indices: 7714388--7714445 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 25
7714378 ATACATACAT
*
7714388 ATTATATAAATTTATTT-AAT-AAA
1 ATTATATAAAATTATTTAAATGAAA
*
7714411 ATTA-ATAAAATTATTTAAATGTAA
1 ATTATATAAAATTATTTAAATGAAA
7714435 ATTATATAAAA
1 ATTATATAAAA
7714446 CATGATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 11 0.37
23 7 0.23
24 6 0.20
25 6 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
ATTATATAAAATTATTTAAATGAAA
Found at i:7714759 original size:14 final size:14
Alignment explanation
Indices: 7714737--7714815 Score: 54
Period size: 14 Copynumber: 5.8 Consensus size: 14
7714727 GTATATTTAT
*
7714737 ATTATGGTTTAGGG
1 ATTAGGGTTTAGGG
7714751 ATTAGGGTTTA--G
1 ATTAGGGTTTAGGG
* * **
7714763 TTTATGGTTTAAAG
1 ATTAGGGTTTAGGG
* *
7714777 TTTATGGTTTAGGG
1 ATTAGGGTTTAGGG
*
7714791 ATTAGGATTTAGGG
1 ATTAGGGTTTAGGG
* *
7714805 TTTAGGATTTA
1 ATTAGGGTTTA
7714816 TATAAACTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
12 10 0.19
14 44 0.81
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (14 bp):
ATTAGGGTTTAGGG
Found at i:7714785 original size:26 final size:26
Alignment explanation
Indices: 7714738--7714788 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
7714728 TATATTTATA
**
7714738 TTATGGTTTAGGGATTAGGGTTTAGT
1 TTATGGTTTAAAGATTAGGGTTTAGT
* *
7714764 TTATGGTTTAAAGTTTATGGTTTAG
1 TTATGGTTTAAAGATTAGGGTTTAG
7714789 GGATTAGGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (26 bp):
TTATGGTTTAAAGATTAGGGTTTAGT
Found at i:7715066 original size:19 final size:18
Alignment explanation
Indices: 7715044--7715086 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
7715034 AAATTTTTCT
*
7715044 ATTTCATCTAAATTTCCCA
1 ATTTCATCTAAA-TTCCAA
*
7715063 ATTTCCTTCTAAATTCCAA
1 ATTT-CATCTAAATTCCAA
7715082 ATTTC
1 ATTTC
7715087 CTTATATTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 13 0.62
20 7 0.33
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTCATCTAAATTCCAA
Found at i:7715087 original size:19 final size:20
Alignment explanation
Indices: 7715050--7715089 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
7715040 TTCTATTTCA
*
7715050 TCTAAATTTCCCAATTTCCT
1 TCTAAATTTCCAAATTTCCT
7715070 TCTAAA-TTCCAAATTTCCT
1 TCTAAATTTCCAAATTTCCT
7715089 T
1 T
7715090 ATATTCTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (20 bp):
TCTAAATTTCCAAATTTCCT
Found at i:7715205 original size:2 final size:2
Alignment explanation
Indices: 7715198--7715328 Score: 162
Period size: 2 Copynumber: 65.5 Consensus size: 2
7715188 ACTTTGAATA
*
7715198 AT AT AT AT AT AT AT AT AT A- AGT AT AT AT AT AT AT AT AT A- AA
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
*
7715239 AGT AT AT AT AT AT AT AT AT AT A- AGT AT AT AT AT AT AT AT AA AT
1 A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* *
7715282 AT AT AT A- AGT AT TT AT AT AT AT AT AT AT AA AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7715324 AT AT A
1 AT AT A
7715329 ATTAAACATA
Statistics
Matches: 114, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
1 4 0.04
2 106 0.93
3 4 0.04
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:7715367 original size:35 final size:35
Alignment explanation
Indices: 7715323--7715433 Score: 119
Period size: 35 Copynumber: 3.3 Consensus size: 35
7715313 TATATATATA
*
7715323 TATATAATTAAACATAAGTGACTAAAATAAAAGAT
1 TATAAAATTAAACATAAGTGACTAAAATAAAAGAT
* * *
7715358 TATAAAATT-AACAT---TAAC--AATTAATA-AT
1 TATAAAATTAAACATAAGTGACTAAAATAAAAGAT
7715386 TATATATAATTAAACATAAGTGACTAAAATAAAAGAT
1 TATA-A-AATTAAACATAAGTGACTAAAATAAAAGAT
7715423 TATAAAATTAA
1 TATAAAATTAA
7715434 CATTAACAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
28 6 0.10
29 7 0.12
30 4 0.07
31 8 0.13
34 8 0.13
35 14 0.23
36 7 0.12
37 6 0.10
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (35 bp):
TATAAAATTAAACATAAGTGACTAAAATAAAAGAT
Found at i:7715398 original size:65 final size:65
Alignment explanation
Indices: 7715321--7715453 Score: 266
Period size: 65 Copynumber: 2.0 Consensus size: 65
7715311 AATATATATA
7715321 TATATATAATTAAACATAAGTGACTAAAATAAAAGATTATAAAATTAACATTAACAATTAATAAT
1 TATATATAATTAAACATAAGTGACTAAAATAAAAGATTATAAAATTAACATTAACAATTAATAAT
7715386 TATATATAATTAAACATAAGTGACTAAAATAAAAGATTATAAAATTAACATTAACAATTAATAAT
1 TATATATAATTAAACATAAGTGACTAAAATAAAAGATTATAAAATTAACATTAACAATTAATAAT
7715451 TAT
1 TAT
7715454 GCACATTAAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.33
Consensus pattern (65 bp):
TATATATAATTAAACATAAGTGACTAAAATAAAAGATTATAAAATTAACATTAACAATTAATAAT
Found at i:7715787 original size:12 final size:12
Alignment explanation
Indices: 7715770--7715807 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
7715760 TTTGTAATAC
7715770 ATGTAATAGACT
1 ATGTAATAGACT
7715782 ATGTAATAGACT
1 ATGTAATAGACT
7715794 ATGTAATAGACT
1 ATGTAATAGACT
7715806 AT
1 AT
7715808 TAAATGCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (12 bp):
ATGTAATAGACT
Found at i:7722100 original size:20 final size:20
Alignment explanation
Indices: 7722075--7722135 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 20
7722065 TTTGATGCAA
**
7722075 AGGGAATCGATCCCCCCTTG
1 AGGGAATCGATCCCCCCTAC
* *
7722095 AGGGAACCGATTCCCCCCCAC
1 AGGGAATCGA-TCCCCCCTAC
7722116 AGGGGAATCGATACCCCCCT
1 A-GGGAATCGAT-CCCCCCT
7722136 GGGGTTCTGG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
20 9 0.28
21 9 0.28
22 14 0.44
ACGTcount: A:0.23, C:0.39, G:0.23, T:0.15
Consensus pattern (20 bp):
AGGGAATCGATCCCCCCTAC
Found at i:7725561 original size:2 final size:2
Alignment explanation
Indices: 7725554--7725607 Score: 67
Period size: 2 Copynumber: 27.5 Consensus size: 2
7725544 AACTCAACAG
* *
7725554 TA TA TA TA T- TA TA TA TA TA AA CTA TA CA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
7725595 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
7725608 TAGAATTGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.04
2 43 0.93
3 1 0.02
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:7725871 original size:2 final size:2
Alignment explanation
Indices: 7725864--7725892 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7725854 TATGTTTAAT
7725864 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7725893 TATTCAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7726031 original size:17 final size:17
Alignment explanation
Indices: 7725991--7726032 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
7725981 TTAGGAAATT
*
7725991 TTGAGAATATAGGGAAA
1 TTGAGAATATAGGAAAA
7726008 TTGGAGAATATAGGAAAA
1 TT-GAGAATATAGGAAAA
7726026 TTGAGAA
1 TTGAGAA
7726033 ATTTAGAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.48, C:0.00, G:0.29, T:0.24
Consensus pattern (17 bp):
TTGAGAATATAGGAAAA
Found at i:7726540 original size:14 final size:14
Alignment explanation
Indices: 7726521--7726567 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
7726511 TTTTTTTCTT
7726521 TATATAAATTAAAC
1 TATATAAATTAAAC
7726535 TATAT-AATT----
1 TATATAAATTAAAC
7726544 TATATAAATTAAAC
1 TATATAAATTAAAC
*
7726558 TATATTAATT
1 TATATAAATT
7726568 TTCCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:7726546 original size:23 final size:24
Alignment explanation
Indices: 7726519--7726568 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
7726509 TATTTTTTTC
7726519 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
7726542 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
7726566 TTT
1 TTT
7726569 TCCTTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:7727318 original size:12 final size:12
Alignment explanation
Indices: 7727296--7727327 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
7727286 CCGTGTATAC
7727296 AGAAG-AAAAGA
1 AGAAGAAAAAGA
7727307 AGAAGAAAAAGA
1 AGAAGAAAAAGA
7727319 AGAA-AAAAA
1 AGAAGAAAAA
7727328 AACTAAGGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AGAAGAAAAAGA
Found at i:7730704 original size:21 final size:22
Alignment explanation
Indices: 7730664--7730705 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
7730654 TAAAGTGTCC
*
7730664 AATATTAATATTTTTCGGTAAA
1 AATAATAATATTTTTCGGTAAA
7730686 AATAATAATATTTTT-GGTAA
1 AATAATAATATTTTTCGGTAA
7730706 TGTTTTACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (22 bp):
AATAATAATATTTTTCGGTAAA
Found at i:7733783 original size:15 final size:15
Alignment explanation
Indices: 7733763--7733803 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
7733753 CAATAATAAA
7733763 ATAATGTCAGTAATT
1 ATAATGTCAGTAATT
7733778 ATAATGTCAGTAATT
1 ATAATGTCAGTAATT
7733793 ATAATGTCAGT
1 ATAATGTCAGT
7733804 GAGAAAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (15 bp):
ATAATGTCAGTAATT
Found at i:7737017 original size:17 final size:19
Alignment explanation
Indices: 7736997--7737031 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
7736987 TCCCCGGGAA
7736997 TTTAAAA-AAAA-ACTTTG
1 TTTAAAACAAAATACTTTG
7737014 TTTAAAACAAAATACTTT
1 TTTAAAACAAAATACTTT
7737032 AATTTACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (19 bp):
TTTAAAACAAAATACTTTG
Found at i:7737368 original size:22 final size:20
Alignment explanation
Indices: 7737329--7737369 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
7737319 TTTCAATATG
*
7737329 CATATATATATATTTCATGA
1 CATATATATATATGTCATGA
7737349 CATATATATAATCATGTCATG
1 CATATATAT-AT-ATGTCATG
7737370 CACACATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (20 bp):
CATATATATATATGTCATGA
Found at i:7737600 original size:15 final size:15
Alignment explanation
Indices: 7737580--7737614 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
7737570 CCGTAGAACC
7737580 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
7737595 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
7737610 ACTAC
1 ACTAC
7737615 ATACCCTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.34, G:0.23, T:0.14
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:7739527 original size:25 final size:23
Alignment explanation
Indices: 7739482--7739527 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
7739472 CATTTATTCT
7739482 TATACCATCTTCATTCAAATTAC
1 TATACCATCTTCATTCAAATTAC
* *
7739505 TATACACATTTTCTTTCTAAATT
1 TATAC-CATCTTCATTC-AAATT
7739528 TACTCATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 9 0.47
25 5 0.26
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.46
Consensus pattern (23 bp):
TATACCATCTTCATTCAAATTAC
Found at i:7742708 original size:17 final size:19
Alignment explanation
Indices: 7742688--7742722 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
7742678 TCCCCGGGAA
7742688 TTTAAAA-AAAA-ACTTTG
1 TTTAAAACAAAATACTTTG
7742705 TTTAAAACAAAATACTTT
1 TTTAAAACAAAATACTTT
7742723 AATTTACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (19 bp):
TTTAAAACAAAATACTTTG
Found at i:7743263 original size:15 final size:15
Alignment explanation
Indices: 7743243--7743276 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
7743233 CCGTAGGACC
7743243 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
7743258 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
7743273 ACTA
1 ACTA
7743277 AAATACCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.32, G:0.24, T:0.15
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:7744700 original size:223 final size:220
Alignment explanation
Indices: 7744393--7744838 Score: 849
Period size: 223 Copynumber: 2.0 Consensus size: 220
7744383 CTAATGATCA
7744393 AAACATAACCTTTAATTTAACAAACCAACAAATCATAAAACCCTTACCTTTGGCCTAGCTTCCAC
1 AAACATAACCTTTAATTTAACAAACCAACAAATCATAAAACCCTTACCTTTGGCCTAGCTTCCAC
7744458 GGTTGGGAGAAGAAAAAATGAAGAAGAAAGAGTTTTCAGATAACTCTTTCCCCCATCCAACGTGA
66 GGTTGGGAGAAGAAAAAATGAAGAAGAAAGAGTTTTCAGATAACTCTTTCCCCCATCCAACGTGA
7744523 TTCATTCATATAATTGGGGGGAAAATATCTTTCATGCTAAATGACCATTTTGCCCTTTAATTCTT
131 TTCATTCATATAATTGGGGGGAAAATATCTTTCATGCTAAATGACCATTTTGCCCTTTAATTCTT
7744588 TGGATTAATTACTATAAACTTTTAGG
196 TGGA-TAATTACTATAAACTTTTAGG
7744614 AAACATAACCTTTAATTTAACAAATAACCAACAAATCATAAAACCCTTACCTTT-GCCTAGCTTC
1 AAACATAACCTTTAATTTAAC--A-AACCAACAAATCATAAAACCCTTACCTTTGGCCTAGCTTC
7744678 CACGGTTGGGAGAAGAAAAAATGAAGAAGAAAGAGTTTTCAGATAACTCTTTCCCCCATCCAACG
63 CACGGTTGGGAGAAGAAAAAATGAAGAAGAAAGAGTTTTCAGATAACTCTTTCCCCCATCCAACG
7744743 TGATTCATTCATATAATTGGGGGGAAAATATCTTTCATGCTAAATGACCATTTTGCCCTTTAATT
128 TGATTCATTCATATAATTGGGGGGAAAATATCTTTCATGCTAAATGACCATTTTGCCCTTTAATT
7744808 CTTTGGATAATTACTATAAACTTTTAGG
193 CTTTGGATAATTACTATAAACTTTTAGG
7744836 AAA
1 AAA
7744839 TATTTCTGAA
Statistics
Matches: 222, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
221 21 0.09
222 24 0.11
223 148 0.67
224 29 0.13
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (220 bp):
AAACATAACCTTTAATTTAACAAACCAACAAATCATAAAACCCTTACCTTTGGCCTAGCTTCCAC
GGTTGGGAGAAGAAAAAATGAAGAAGAAAGAGTTTTCAGATAACTCTTTCCCCCATCCAACGTGA
TTCATTCATATAATTGGGGGGAAAATATCTTTCATGCTAAATGACCATTTTGCCCTTTAATTCTT
TGGATAATTACTATAAACTTTTAGG
Found at i:7750673 original size:21 final size:21
Alignment explanation
Indices: 7750644--7750696 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
7750634 ATTCTGACTA
7750644 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
7750665 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
7750686 TCGCAATGCGA
1 TCGCATTGCGA
7750697 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:7750711 original size:20 final size:20
Alignment explanation
Indices: 7750686--7750832 Score: 165
Period size: 20 Copynumber: 7.3 Consensus size: 20
7750676 TTTTCCTAAT
7750686 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
** *
7750706 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
* *
7750727 TCGTAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
7750747 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
7750767 TTGCAATGCG-ATTC-TGACTA
1 TCGCAATGCGAATACGT-A-AA
7750787 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
7750807 TCGCAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
7750827 TCGCAA
1 TCGCAA
7750833 CGAGATTCTG
Statistics
Matches: 105, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
18 1 0.01
19 5 0.05
20 79 0.75
21 19 0.18
22 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:7750826 original size:60 final size:60
Alignment explanation
Indices: 7750686--7750853 Score: 232
Period size: 60 Copynumber: 2.8 Consensus size: 60
7750676 TTTTCCTAAT
** * *
7750686 TCGCAATGCGAATACGTAAATCGCAATGCGAATT-TGGAAAATCGTAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCG-ATTCT-GACTATCGCAATGCGAATACGTAAA
*
7750747 TCGCAATGCGAATACGTAAATTGCAATGCGATTCTGACTATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGATTCTGACTATCGCAATGCGAATACGTAAA
* *
7750807 TCGCAATGCGAAT-CTGTAAATCGCAACGAGATTCTGACTATCGCAAT
1 TCGCAATGCGAATAC-GTAAATCGCAATGCGATTCTGACTATCGCAAT
7750854 ACTGAATTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
59 1 0.01
60 66 0.68
61 30 0.31
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (60 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGATTCTGACTATCGCAATGCGAATACGTAAA
Found at i:7750842 original size:20 final size:20
Alignment explanation
Indices: 7750802--7750842 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7750792 ATGCGAATAC
* *
7750802 GTAAATCGCAATGCGAATCT
1 GTAAATCGCAACGAGAATCT
*
7750822 GTAAATCGCAACGAGATTCT
1 GTAAATCGCAACGAGAATCT
7750842 G
1 G
7750843 ACTATCGCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (20 bp):
GTAAATCGCAACGAGAATCT
Found at i:7751741 original size:24 final size:24
Alignment explanation
Indices: 7751688--7751734 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
7751678 GTATTCGAAA
*
7751688 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCAGGAC
7751712 TTTGATCTTGGTCAATACTCAGG
1 TTTGATCTTGGTCAATAC-CAGG
7751735 TTTTGATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCAGGAC
Found at i:7754008 original size:20 final size:20
Alignment explanation
Indices: 7753983--7754076 Score: 125
Period size: 20 Copynumber: 4.7 Consensus size: 20
7753973 GACATTCATT
*
7753983 TGACTATCGCAACGCGAAAA
1 TGACTATCGCAACGCGGAAA
**
7754003 TGACTATCGCAATACGGAAA
1 TGACTATCGCAACGCGGAAA
* *
7754023 TGACTATCGCAATGCGGAAT
1 TGACTATCGCAACGCGGAAA
* *
7754043 TGACCATCACAACGCGGAAA
1 TGACTATCGCAACGCGGAAA
7754063 TGACTATCGCAACG
1 TGACTATCGCAACG
7754077 AGAGAATCGC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.18
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Found at i:7754113 original size:19 final size:19
Alignment explanation
Indices: 7754081--7754160 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 19
7754071 GCAACGAGAG
7754081 AATCGCAATACGAAATGAA
1 AATCGCAATACGAAATGAA
* *
7754100 AATTGCAATGCGAAATGAA
1 AATCGCAATACGAAATGAA
*
7754119 AATCGC-A-ACG-AGTG--
1 AATCGCAATACGAAATGAA
*
7754133 AATCGCAATGCGAAAATGAA
1 AATCGCAATACG-AAATGAA
7754153 AATCGCAA
1 AATCGCAA
7754161 CGAGAAATTA
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
14 6 0.12
15 1 0.02
16 5 0.10
17 2 0.04
18 4 0.08
19 22 0.46
20 8 0.17
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.16
Consensus pattern (19 bp):
AATCGCAATACGAAATGAA
Found at i:7754124 original size:52 final size:53
Alignment explanation
Indices: 7754059--7754160 Score: 152
Period size: 52 Copynumber: 1.9 Consensus size: 53
7754049 TCACAACGCG
** *
7754059 GAAATGACTATCGCAACGAGAGAATCGCAATACG-AAATGAAAATTGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATACGAAAATGAAAATCGCAATGC
* *
7754111 GAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATGAAAATCGCAA
1 GAAATGAAAATCGCAACGAGAGAATCGCAATACGAAAATGAAAATCGCAA
7754161 CGAGAAATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 30 0.68
53 14 0.32
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.16
Consensus pattern (53 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAATACGAAAATGAAAATCGCAATGC
Found at i:7754234 original size:33 final size:33
Alignment explanation
Indices: 7754177--7754261 Score: 134
Period size: 33 Copynumber: 2.5 Consensus size: 33
7754167 ATTAGTTTCG
7754177 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCACT
*
7754211 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
**
7754244 CGTTGCGATAGTCATTTC
1 CGTTGCGATTTTCATTTC
7754262 CACGTTGCGA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 34 0.71
34 14 0.29
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:7755497 original size:21 final size:18
Alignment explanation
Indices: 7755473--7755532 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 18
7755463 GAACGGTGGG
7755473 AGGGGACTCTTGAGGGATGAT
1 AGGGGACTCTTGA---ATGAT
*
7755494 AGGGGCCTCTTGAATGAT
1 AGGGGACTCTTGAATGAT
7755512 AGGGGAGACCTCTTGAATGAT
1 A-GGG-GA-CTCTTGAATGAT
7755533 GACAGGTGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 6 0.18
19 3 0.09
20 1 0.03
21 24 0.71
ACGTcount: A:0.25, C:0.13, G:0.37, T:0.25
Consensus pattern (18 bp):
AGGGGACTCTTGAATGAT
Found at i:7756110 original size:20 final size:20
Alignment explanation
Indices: 7756085--7756133 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
7756075 CAACAACAAA
7756085 ATCGCAACGCGAAA-ATGACT
1 ATCGCAACGC-AAATATGACT
* *
7756105 ATCGCAATGCAAATTTGACT
1 ATCGCAACGCAAATATGACT
7756125 ATCGCAACG
1 ATCGCAACG
7756134 AGAGAATCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCAAATATGACT
Found at i:7756203 original size:20 final size:20
Alignment explanation
Indices: 7756178--7756321 Score: 183
Period size: 20 Copynumber: 7.5 Consensus size: 20
7756168 AATTCTTTCG
** *
7756178 TTGCGATAGTCAAATTCACA
1 TTGCGATAGTCATTTTCGCA
7756198 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
7756218 TTGCGATAGTCATTTTGGCA
1 TTGCGATAGTCATTTTCGCA
*
7756238 TTGCGATAGTCATTTTTGCA
1 TTGCGATAGTCATTTTCGCA
*
7756258 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
*
7756272 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
7756292 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
7756312 TTGCGATAGT
1 TTGCGATAGT
7756322 AAACTATTAT
Statistics
Matches: 109, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
14 7 0.06
16 5 0.05
18 6 0.06
20 91 0.83
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.40
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:7758250 original size:20 final size:20
Alignment explanation
Indices: 7758192--7758261 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
7758182 GAAACTTTAA
**
7758192 ATCGCAA-GACGAAAATGAAA
1 ATCGCAACG-CGAAAATGACT
*
7758212 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
7758232 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
7758252 ATCGCAACGC
1 ATCGCAACGC
7758262 AAGAATCGCA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:7758330 original size:20 final size:20
Alignment explanation
Indices: 7758305--7758351 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
7758295 GATTCTCTCG
7758305 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
7758325 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
7758345 TTGCGAT
1 TTGCGAT
7758352 TCACTCATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:7758946 original size:20 final size:20
Alignment explanation
Indices: 7758921--7759032 Score: 152
Period size: 20 Copynumber: 5.5 Consensus size: 20
7758911 GCTATGTAAA
7758921 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
*
7758941 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAT
* * **
7758961 TCGTATTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTACGTAT
* *
7758982 TCACGTTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
7759002 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
7759022 TCGCATTGCGA
1 TCGCATTGCGA
7759033 ATTAGGAAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
20 64 0.83
21 13 0.17
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:7759047 original size:41 final size:40
Alignment explanation
Indices: 7758918--7759053 Score: 146
Period size: 41 Copynumber: 3.4 Consensus size: 40
7758908 GGCGCTATGT
7758918 AAATCGCATTGCGATTTACGTATTCGCATTGCGATTTACG
1 AAATCGCATTGCGATTTACGTATTCGCATTGCGATTTACG
* * * ** * *
7758958 TAATCGTATTGCGATTTTCCAAATTCACGTTGCGATTTACG
1 AAATCGCATTGCGA-TTTACGTATTCGCATTGCGATTTACG
* * * *
7758999 TATTCGCATTGCGATTTACGTATTCGCATTGCGAATTAGG
1 AAATCGCATTGCGATTTACGTATTCGCATTGCGATTTACG
*
7759039 AAAATCGCAATGCGA
1 -AAATCGCATTGCGA
7759054 ATTTGGGAAA
Statistics
Matches: 75, Mismatches: 19, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
40 31 0.41
41 44 0.59
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (40 bp):
AAATCGCATTGCGATTTACGTATTCGCATTGCGATTTACG
Found at i:7759052 original size:21 final size:21
Alignment explanation
Indices: 7759022--7759074 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
7759012 ATTTACGTAT
*
7759022 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* *
7759043 TCGCAATGCGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
*
7759064 TCGCACTGCGA
1 TCGCAATGCGA
7759075 TAGTCAGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:7759053 original size:61 final size:61
Alignment explanation
Indices: 7758918--7759053 Score: 182
Period size: 61 Copynumber: 2.2 Consensus size: 61
7758908 GGCGCTATGT
* * *
7758918 AAATCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGTATTGCGATTTTCCA
1 AAATCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCATTGCGAATTACCA
* * * * **
7758979 AATTCACGTTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGAATTAGGA
1 AAATCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCATTGCGAATTACCA
*
7759040 AAATCGCAATGCGA
1 AAATCGCATTGCGA
7759054 ATTTGGGAAA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (61 bp):
AAATCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCATTGCGAATTACCA
Found at i:7762278 original size:13 final size:13
Alignment explanation
Indices: 7762260--7762290 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
7762250 TATCAATCAT
7762260 TGTTGACTGTCAC
1 TGTTGACTGTCAC
*
7762273 TGTTGATTGTCAC
1 TGTTGACTGTCAC
7762286 TGTTG
1 TGTTG
7762291 GTGCAGGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.16, G:0.26, T:0.45
Consensus pattern (13 bp):
TGTTGACTGTCAC
Found at i:7762708 original size:3 final size:3
Alignment explanation
Indices: 7762702--7762735 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
7762692 CAACAACAAC
*
7762702 AAT AAT AAT AAT AAT AA- AAT AAT GAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7762736 ATAAAACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:7762724 original size:17 final size:17
Alignment explanation
Indices: 7762702--7762736 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
7762692 CAACAACAAC
7762702 AATAATAATAATAATAA
1 AATAATAATAATAATAA
*
7762719 AATAATGATAATAATAA
1 AATAATAATAATAATAA
7762736 A
1 A
7762737 TAAAACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
AATAATAATAATAATAA
Found at i:7768446 original size:19 final size:20
Alignment explanation
Indices: 7768411--7768448 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
7768401 TGTTAGATTT
*
7768411 CAGTTATTTAGTTTGTTAGG
1 CAGTTATTTAATTTGTTAGG
7768431 CAGTTA-TTAATTTGTTAG
1 CAGTTATTTAATTTGTTAG
7768449 TTTGTTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.24, C:0.05, G:0.21, T:0.50
Consensus pattern (20 bp):
CAGTTATTTAATTTGTTAGG
Found at i:7780190 original size:5 final size:6
Alignment explanation
Indices: 7780175--7780231 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
7780165 GAGACCTATA
** * * *
7780175 AAAAAT AAAAAT AAAAAAT ATTAAT AAAAAC AATAAT AATAAT AAAAAT
1 AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
7780224 AAATAAT A
1 AAA-AAT A
7780232 TAATATAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
6 31 0.76
7 10 0.24
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (6 bp):
AAAAAT
Found at i:7780190 original size:13 final size:13
Alignment explanation
Indices: 7780172--7780231 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 13
7780162 ACTGAGACCT
7780172 ATAAAAAATAAAA
1 ATAAAAAATAAAA
**
7780185 ATAAAAAATATTA
1 ATAAAAAATAAAA
* *
7780198 AT-AAAAACAATA
1 ATAAAAAATAAAA
*
7780210 AT-AATAATAAAA
1 ATAAAAAATAAAA
*
7780222 ATAAATAATA
1 ATAAAAAATA
7780232 TAATATAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
12 19 0.49
13 20 0.51
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:7780209 original size:15 final size:14
Alignment explanation
Indices: 7780174--7780231 Score: 64
Period size: 15 Copynumber: 4.0 Consensus size: 14
7780164 TGAGACCTAT
*
7780174 AAAAAATAAAAAT-
1 AAAAAATAATAATA
*
7780187 AAAAAATATTAATA
1 AAAAAATAATAATA
7780201 AAAACAATAATAATA
1 AAAA-AATAATAATA
7780216 ATAAAAATAAATAATA
1 A-AAAAAT-AATAATA
7780232 TAATATAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
13 11 0.29
14 4 0.11
15 13 0.34
16 10 0.26
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAAATAATAATA
Found at i:7780212 original size:18 final size:18
Alignment explanation
Indices: 7780178--7780236 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
7780168 ACCTATAAAA
*
7780178 AATAAAAATAAAAAATATT
1 AATAAAAATAAATAATA-T
*
7780197 AATAAAAA-CAATAATAAT
1 AATAAAAATAAATAAT-AT
7780215 AATAAAAATAAATAATAT
1 AATAAAAATAAATAATAT
7780233 AATA
1 AATA
7780237 TAATATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 20 0.57
19 15 0.43
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (18 bp):
AATAAAAATAAATAATAT
Found at i:7780216 original size:28 final size:27
Alignment explanation
Indices: 7780174--7780229 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
7780164 TGAGACCTAT
*
7780174 AAAAAATAAAAATAA-AAAATATTAATA
1 AAAAAATAAAAATAATAAAA-ATAAATA
*
7780201 AAAACAATAATAATAATAAAAATAAATA
1 AAAA-AATAAAAATAATAAAAATAAATA
7780229 A
1 A
7780230 TATAATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 17 0.68
29 4 0.16
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (27 bp):
AAAAAATAAAAATAATAAAAATAAATA
Found at i:7782306 original size:30 final size:30
Alignment explanation
Indices: 7782270--7782329 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
7782260 TCCTTTTTAT
7782270 ACAATCAACAACCTCATTAGCAACCAAAGC
1 ACAATCAACAACCTCATTAGCAACCAAAGC
7782300 ACAATCAACAACCTCATTAGCAACCAAAGC
1 ACAATCAACAACCTCATTAGCAACCAAAGC
7782330 CCAAAGCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.33, G:0.07, T:0.13
Consensus pattern (30 bp):
ACAATCAACAACCTCATTAGCAACCAAAGC
Found at i:7783604 original size:5 final size:5
Alignment explanation
Indices: 7783572--7783635 Score: 55
Period size: 5 Copynumber: 13.6 Consensus size: 5
7783562 AATAAATACT
* * * * *
7783572 AAAT- AAATC AAAGA AAAGA AAATA AAATA AAAT- AAATC AAA-G AAA-A
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
7783618 AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAA
7783636 ATATTAAATA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
4 14 0.27
5 38 0.73
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (5 bp):
AAATA
Found at i:7783605 original size:29 final size:27
Alignment explanation
Indices: 7783572--7783634 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
7783562 AATAAATACT
7783572 AAATAAATCAAAGAAAAGAAAATAAAATA
1 AAATAAATCAAAG-AAA-AAAATAAAATA
7783601 AAATAAATCAAAGAAAAAAATAAAATA
1 AAATAAATCAAAGAAAAAAATAAAATA
7783628 AAATAAA
1 AAATAAA
7783635 AATATTAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 18 0.53
28 3 0.09
29 13 0.38
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (27 bp):
AAATAAATCAAAGAAAAAAATAAAATA
Found at i:7783637 original size:29 final size:30
Alignment explanation
Indices: 7783554--7783637 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 30
7783544 AAAATGTTAG
7783554 AAAAAAT-AAATAAATACTAAATAAATCAAAGAA
1 AAAAAATAAAATAAA-A-T-AA-AAATCAAAGAA
7783587 AAGAAAATAAAATAAAAT--AAATCAAAG-A
1 AA-AAAATAAAATAAAATAAAAATCAAAGAA
7783615 AAAAAATAAAATAAAATAAAAAT
1 AAAAAATAAAATAAAATAAAAAT
7783638 ATTAAATATT
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
27 15 0.32
28 3 0.06
29 13 0.28
33 3 0.06
34 6 0.13
35 7 0.15
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.17
Consensus pattern (30 bp):
AAAAAATAAAATAAAATAAAAATCAAAGAA
Found at i:7784776 original size:18 final size:18
Alignment explanation
Indices: 7784749--7784788 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
7784739 CCAAAAAACT
*
7784749 ATAAAGAAAAATAAGTAA
1 ATAAAGAAAAATAAATAA
*
7784767 ATAAATAAAAATAAATAA
1 ATAAAGAAAAATAAATAA
7784785 ATAA
1 ATAA
7784789 TAATATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (18 bp):
ATAAAGAAAAATAAATAA
Found at i:7784781 original size:14 final size:16
Alignment explanation
Indices: 7784764--7784837 Score: 84
Period size: 15 Copynumber: 4.8 Consensus size: 16
7784754 GAAAAATAAG
7784764 TAAATAAATAA-AA-A
1 TAAATAAATAATAATA
7784778 TAAATAAATAATAATA
1 TAAATAAATAATAATA
*
7784794 TAAAT-AATAATATTAA
1 TAAATAAATAATAAT-A
*
7784810 TATAATATATAATAATA
1 TA-AATAAATAATAATA
7784827 TAAA-AAATAAT
1 TAAATAAATAAT
7784838 TTTTTAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
14 11 0.22
15 16 0.31
16 11 0.22
17 6 0.12
18 7 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAATAAATAATAATA
Found at i:7784801 original size:12 final size:12
Alignment explanation
Indices: 7784766--7784837 Score: 84
Period size: 12 Copynumber: 6.5 Consensus size: 12
7784756 AAAATAAGTA
7784766 AATAA-ATAAA-
1 AATAATATAAAT
7784776 AATAA-ATAAAT
1 AATAATATAAAT
7784787 AATAATATAAAT
1 AATAATATAAAT
*
7784799 AATAATATTAAT
1 AATAATATAAAT
7784811 -ATAATAT--AT
1 AATAATATAAAT
*
7784820 AATAATATAAAA
1 AATAATATAAAT
7784832 AATAAT
1 AATAAT
7784838 TTTTTAAAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
9 2 0.04
10 17 0.31
11 12 0.22
12 24 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:7784822 original size:33 final size:32
Alignment explanation
Indices: 7784776--7784837 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
7784766 AATAAATAAA
*
7784776 AATAAATAAATAATAATATAAATAATAATATT
1 AATAAATAAATAATAATATAAAAAATAATATT
*
7784808 AATATAATATATAATAATATAAAAAATAAT
1 AATA-AATAAATAATAATATAAAAAATAAT
7784838 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 4 0.15
33 23 0.85
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (32 bp):
AATAAATAAATAATAATATAAAAAATAATATT
Found at i:7784918 original size:41 final size:42
Alignment explanation
Indices: 7784854--7784958 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 42
7784844 AAAAAAAGTA
* *
7784854 TATATCATATATGTGTTTTCAAAATAATTATTTTCAAAACCATA-
1 TATAT-ATATATATATTTTCAAAATAA-TATTTT-AAAACCATAT
*
7784898 TA-ATATA-ATATATTTTC--AA-AATATTTTAAAACTATAT
1 TATATATATATATATTTTCAAAATAATATTTTAAAACCATAT
7784935 TATATATATATATATTTTCAAAAT
1 TATATATATATATATTTTCAAAAT
7784959 GTTTTAAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
36 8 0.15
37 8 0.15
38 7 0.13
39 12 0.23
41 10 0.19
42 3 0.06
43 2 0.04
44 2 0.04
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.46
Consensus pattern (42 bp):
TATATATATATATATTTTCAAAATAATATTTTAAAACCATAT
Found at i:7784946 original size:37 final size:37
Alignment explanation
Indices: 7784846--7785161 Score: 245
Period size: 37 Copynumber: 8.6 Consensus size: 37
7784836 ATTTTTTAAA
* * *
7784846 AAAAAGTATATATCATATATGTGTTTTCAAAATAATTATTTT
1 AAAAACTATATAT-ATATATATATTTTC--AA-AA-TATTTT
* *
7784888 CAAAACCATATA-ATATAATATATTTTCAAAATATTTT
1 AAAAACTATATATATAT-ATATATTTTCAAAATATTTT
*
7784925 -AAAACTATATTATATATATATATATTTTCAAAAT-GTTT
1 AAAAAC--TA-TATATATATATATATTTTCAAAATATTTT
*
7784963 ------TA-A-ATATAT-T-T-TTTTCAAAATGTTTT
1 AAAAACTATATATATATATATATTTTCAAAATATTTT
*
7784989 AAAAACTATATAT-TATATATATTTTCAAAATGTTTT
1 AAAAACTATATATATATATATATTTTCAAAATATTTT
* *
7785025 AAAAATTATATAT-TATATATTTTTTTCAAAATATTTT
1 AAAAACTATATATATATATA-TATTTTCAAAATATTTT
*
7785062 AAAAACTATATAT-TATATATATTTTCAAAATGTTTTT
1 AAAAACTATATATATATATATATTTTCAAAAT-ATTTT
* *
7785099 AAAAACTATATA-ATATATACATTTTCATAAAATCGTTTT
1 AAAAACTATATATATATATATATTTTC--AAAAT-ATTTT
*
7785138 CAAAACTATATTATATATATATAT
1 AAAAACTATA-TATATATATATAT
7785162 ATATATATAT
Statistics
Matches: 231, Mismatches: 19, Indels: 49
0.77 0.06 0.16
Matches are distributed among these distances:
25 10 0.04
26 4 0.02
27 1 0.00
28 6 0.03
29 1 0.00
31 2 0.01
32 2 0.01
33 4 0.02
34 3 0.01
35 1 0.00
36 49 0.21
37 67 0.29
38 6 0.03
39 39 0.17
40 10 0.04
41 17 0.07
42 9 0.04
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (37 bp):
AAAAACTATATATATATATATATTTTCAAAATATTTT
Found at i:7784956 original size:65 final size:61
Alignment explanation
Indices: 7784882--7785018 Score: 152
Period size: 65 Copynumber: 2.2 Consensus size: 61
7784872 TCAAAATAAT
7784882 TATTTTCAAAACCATAT-AATATAATATATTTTCAAAATATTTT-AAAACTATATTATATATATA
1 TATTTTCAAAACCATATAAATAT-AT-TATTTTCAAAATATTTTAAAAAC--TA-TATAT-TATA
7784945 TA
60 TA
*** * * *
7784947 TATTTTCAAAATGTTTTAAATATATTTTTTTCAAAATGTTTTAAAAACTATATATTATATA
1 TATTTTCAAAACCATATAAATATATTATTTTCAAAATATTTTAAAAACTATATATTATATA
7785008 TATTTTCAAAA
1 TATTTTCAAAA
7785019 TGTTTTAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
61 17 0.27
62 5 0.08
63 2 0.03
64 15 0.23
65 20 0.31
66 5 0.08
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (61 bp):
TATTTTCAAAACCATATAAATATATTATTTTCAAAATATTTTAAAAACTATATATTATATA
Done.