Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008449.1 Hibiscus syriacus cultivar Beakdansim tig00111254_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: 1344907
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 6
Found at i:390328 original size:43 final size:43
Alignment explanation
Indices: 390267--390350 Score: 159
Period size: 43 Copynumber: 2.0 Consensus size: 43
390257 GATGATAGGC
390267 TTCATGCTAATCATGTATAATCCTAGTGTAAGTTATGAAGTTG
1 TTCATGCTAATCATGTATAATCCTAGTGTAAGTTATGAAGTTG
*
390310 TTCATGCTAATTATGTATAATCCTAGTGTAAGTTATGAAGT
1 TTCATGCTAATCATGTATAATCCTAGTGTAAGTTATGAAGT
390351 CGAGATAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (43 bp):
TTCATGCTAATCATGTATAATCCTAGTGTAAGTTATGAAGTTG
Found at i:402686 original size:14 final size:14
Alignment explanation
Indices: 402669--402702 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
402659 TTTATAATCA
*
402669 TAAATCTTGAACTC
1 TAAATCTTGAACCC
402683 TAAATCTTGAACCC
1 TAAATCTTGAACCC
402697 TAAATC
1 TAAATC
402703 ACATCCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (14 bp):
TAAATCTTGAACCC
Found at i:404992 original size:23 final size:25
Alignment explanation
Indices: 404950--404998 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
404940 AAACCCTAAT
404950 CTGGTTTAGGGTTTCTGGATA-GGG
1 CTGGTTTAGGGTTTCTGGATATGGG
404974 CTGGTTTAGGG-TTCTGGATATGGG
1 CTGGTTTAGGGTTTCTGGATATGGG
404998 C
1 C
404999 CACCAAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.12, C:0.10, G:0.41, T:0.37
Consensus pattern (25 bp):
CTGGTTTAGGGTTTCTGGATATGGG
Found at i:405062 original size:3 final size:3
Alignment explanation
Indices: 405035--405083 Score: 64
Period size: 3 Copynumber: 16.0 Consensus size: 3
405025 TTGGGTTTTG
*
405035 TAA TAT TAA TAAA TAA T-A TATA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
405081 TAA
1 TAA
405084 AAATTTTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.80
4 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:405774 original size:116 final size:113
Alignment explanation
Indices: 405441--406202 Score: 1016
Period size: 113 Copynumber: 6.7 Consensus size: 113
405431 ATAGAATTAT
* * * * * * *
405441 GCAAAAGGTTGAACAAGCTCTTTTCATTGTGAACTTCTTCTTCCT-CTTCAAATAAGTTCTTCTT
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTC
* * * *
405505 ATTATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTTGA
66 ATTATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGA
* * * *
405553 ACAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTT-TTCTTCCTTCTTCAGATGAATTCTTCT
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAA-TTTCTTCTTCCTCCTTCAGATGAGTTCTTCT
* ** *
405617 CATTATGAACTCTAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
65 CATTATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGA
* *
405666 GCATAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAAGTAATGAGTTCTT
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTCCTTC-AG--ATGAGTTCTT
* * *
405731 CTCATTATGAACTCTAC-CTGGAAAAGCTGATCCATCAAATGATGGATTTGA
63 CTCATTATGAACT-TTCTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGA
* *
405782 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTC
*
405847 ATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGA
* * *
405895 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTT
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTC
*
405960 ATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGA
* *
406008 GCAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTT-CTCTCTTCAGATGAGTTCGTTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTC-CTTCAGATGAGTTC-TTC
*
406071 TTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAGTGATGGATTTGA
64 -TC--ATTATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGA
* *
406124 GCAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTT-CTCTCTTCAGATGAGTTCGTTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTC-CTTCAGATGAGTTC-TTC
406187 TTCTTATTATGAACTT
64 -TC--ATTATGAACTT
406203 CTTCTTCTCT
Statistics
Matches: 599, Mismatches: 38, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
111 2 0.00
112 87 0.15
113 275 0.46
114 3 0.01
115 2 0.00
116 230 0.38
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.39
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGA
Found at i:405789 original size:229 final size:226
Alignment explanation
Indices: 405444--406202 Score: 1041
Period size: 229 Copynumber: 3.3 Consensus size: 226
405434 GAATTATGCA
** * * *
405444 AAAGGTTGAACAAGCTCTTTTCATTGTGAACTTCTTCTTCCT-CTTCA-AATAAGTTCTTCTTAT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGAATGAGTTCTTCTTAT
* * * * *
405507 TATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTTGAACAAAAGGTTAAACAAGTT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGTT
* * ** *
405572 CTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCTAACTGGA
131 CTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGC
*
405637 AAAGCTGATCCATCAAGTGATGGATTTGAGC
196 AAAGCTAATCCATCAAGTGATGGATTTGAGC
*
405668 ATAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAAGTAATGAGTTCTTCT
1 A-AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCCTTC-AG-AATGAGTTCTTCT
* * *
405733 CATTATGAACTCTAC-CTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACA
63 TATTATGAACT-TTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
*
405797 AATTCTTCTCATTATGAA-TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
127 AGTTCTTCTCATTATGAACTTT-TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
405861 CTGGCAAAGCTAATCCATCAAGTGATGGATTTGAGC
191 CTGGCAAAGCTAATCCATCAAGTGATGGATTTGAGC
* *
405897 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAG-ATGAGTTCTTCTTA
1 -AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGAATGAGTTCTTCTTA
* *
405961 TTATGAACTTTCTCTGGCAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAA-GTTGAACAAGT
65 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGT
* *
406025 TCTTCTTATTATGAACTTCTTCTT-CTCTCTTCAGATGAGTTCGTTCTTCTTATTATGAACTTTC
130 TCTTCTCATTATGAACTTTTTCTTCCT-TCTTCAGATGAGTTC-TTC-TC--ATTATGAACTTTC
406089 TCTGGCAAAGCTAATCCATCAAGTGATGGATTTGAGC
190 TCTGGCAAAGCTAATCCATCAAGTGATGGATTTGAGC
* * *
406126 AAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTT-CTCTCTTCAG-ATGAGTTCGTTCTT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTC-CTTCAGAATGA----GTTCTT
406189 CTTATTATGAACTT
61 CTTATTATGAACTT
406203 CTTCTTCTCT
Statistics
Matches: 480, Mismatches: 35, Indels: 32
0.88 0.06 0.06
Matches are distributed among these distances:
224 3 0.01
225 82 0.17
226 68 0.14
227 5 0.01
228 50 0.10
229 249 0.52
230 3 0.01
232 20 0.04
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.39
Consensus pattern (226 bp):
AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGAATGAGTTCTTCTTAT
TATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGTT
CTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGC
AAAGCTAATCCATCAAGTGATGGATTTGAGC
Found at i:406197 original size:44 final size:44
Alignment explanation
Indices: 406139--406241 Score: 178
Period size: 44 Copynumber: 2.4 Consensus size: 44
406129 AGTTGAACAA
406139 GTTCTTCTTATTATGAACTTCTTCTTCTCTCTTCAGATGAGTTC
1 GTTCTTCTTATTATGAACTTCTTCTTCTCTCTTCAGATGAGTTC
406183 GTTCTTCTTATTATGAACTTCTTCTTCTCTCTTCAGATGAGTTC
1 GTTCTTCTTATTATGAACTTCTTCTTCTCTCTTCAGATGAGTTC
406227 -TTC-TC--ATTATGAACT
1 GTTCTTCTTATTATGAACT
406242 CTAACTGACA
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
40 10 0.17
42 2 0.03
43 3 0.05
44 44 0.75
ACGTcount: A:0.17, C:0.22, G:0.11, T:0.50
Consensus pattern (44 bp):
GTTCTTCTTATTATGAACTTCTTCTTCTCTCTTCAGATGAGTTC
Found at i:406227 original size:20 final size:20
Alignment explanation
Indices: 406160--406231 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 20
406150 TATGAACTTC
406160 TTCTTCTCTCTTCAGATGAG
1 TTCTTCTCTCTTCAGATGAG
* *
406180 TTCGTTCT-TCTT-ATTATGAACTTC
1 TTC-TTCTCTCTTCA-GATG-A---G
406204 TTCTTCTCTCTTCAGATGAG
1 TTCTTCTCTCTTCAGATGAG
406224 TTCTTCTC
1 TTCTTCTC
406232 ATTATGAACT
Statistics
Matches: 40, Mismatches: 4, Indels: 16
0.67 0.07 0.27
Matches are distributed among these distances:
19 1 0.03
20 18 0.45
21 5 0.12
23 5 0.12
24 10 0.25
25 1 0.03
ACGTcount: A:0.14, C:0.25, G:0.11, T:0.50
Consensus pattern (20 bp):
TTCTTCTCTCTTCAGATGAG
Found at i:406739 original size:95 final size:95
Alignment explanation
Indices: 406576--406773 Score: 378
Period size: 95 Copynumber: 2.1 Consensus size: 95
406566 CAACATGTTA
406576 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCACAGATATCGATAGT
1 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCACAGATATCGATAGT
406641 TCTTTTAATACCGAGAAATCTTGAATTCTG
66 TCTTTTAATACCGAGAAATCTTGAATTCTG
406671 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCACAGATATCGATAGT
1 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCACAGATATCGATAGT
* *
406736 TCTTTTAATACCGAGGAATCTTTAATTCTG
66 TCTTTTAATACCGAGAAATCTTGAATTCTG
406766 ATTCTGAT
1 ATTCTGAT
406774 GAGGAGAATA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 101 1.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (95 bp):
ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCACAGATATCGATAGT
TCTTTTAATACCGAGAAATCTTGAATTCTG
Found at i:407328 original size:83 final size:83
Alignment explanation
Indices: 407189--407493 Score: 574
Period size: 83 Copynumber: 3.7 Consensus size: 83
407179 CTGTGGTTCA
* *
407189 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCAATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTACTCTTCC
407254 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
*
407272 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTACTCTTCC
*
407337 AAATTCAATGTTTGATTT
66 AAATTCAATGATTGATTT
407355 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTACTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTACTCTTCC
407420 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
407438 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
407494 GGCATTTGTT
Statistics
Matches: 216, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 216 1.00
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.25
Consensus pattern (83 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTACTCTTCC
AAATTCAATGATTGATTT
Found at i:407410 original size:166 final size:171
Alignment explanation
Indices: 407100--407493 Score: 629
Period size: 166 Copynumber: 2.3 Consensus size: 171
407090 GGTTTTATAT
* * * * *
407100 CAAACCAAATCAGAGAACTTAAAGAACACTTCCAGAAGATGCTATTAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTACTCTTCCAAA
407165 TTCAATAACTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
66 TTC-A-AACTGGTTCTGT-GTT-ATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
407230 ATGCAATGAGCACATTCCTCTTCCAAATTCAATGATTGATTTTAC
127 ATGCAATGAGCACATTACTCTTCCAAATTCAATGATTGATTTTAC
*
407275 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTACTCTTCCAAA
407340 TTC-AA-T-GTT-TGAT-TT-TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
66 TTCAAACTGGTTCTG-TGTTATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
*
407399 CTATGAGCACATTACTCTTCCAAATTCAATGATTGATTTTAC
130 CAATGAGCACATTACTCTTCCAAATTCAATGATTGATTTTAC
407441 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
407494 GGCATTTGTT
Statistics
Matches: 210, Mismatches: 8, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
166 137 0.65
168 2 0.01
169 2 0.01
170 4 0.02
171 1 0.00
172 2 0.01
175 62 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (171 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTACTCTTCCAAA
TTCAAACTGGTTCTGTGTTATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC
AATGAGCACATTACTCTTCCAAATTCAATGATTGATTTTAC
Found at i:408724 original size:1 final size:1
Alignment explanation
Indices: 408720--408768 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
408710 TTGACCCCCC
* * * * *
408720 TTTTTCTTTTTCTTTTTTTTTTTTTCTTTTTTTTTTCTTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
408769 CTTCAAGCAT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:408740 original size:11 final size:11
Alignment explanation
Indices: 408720--408763 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
408710 TTGACCCCCC
408720 TTTTTC-TTTT
1 TTTTTCTTTTT
*
408730 TCTTT-TTTTT
1 TTTTTCTTTTT
408740 TTTTTCTTTTT
1 TTTTTCTTTTT
408751 TTTTTCTTTTT
1 TTTTTCTTTTT
408762 TT
1 TT
408764 CTTTTCTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 12 0.40
11 18 0.60
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:408742 original size:13 final size:13
Alignment explanation
Indices: 408720--408771 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
408710 TTGACCCCCC
*
408720 TTTTTCTTTTTCT
1 TTTTTTTTTTTCT
408733 TTTTTTTTTTT-T
1 TTTTTTTTTTTCT
*
408745 CTTTTTTTTTTCT
1 TTTTTTTTTTTCT
*
408758 TTTTTTCTTTTCT
1 TTTTTTTTTTTCT
408771 T
1 T
408772 CAAGCATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
12 11 0.32
13 23 0.68
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTTTCT
Found at i:408742 original size:19 final size:20
Alignment explanation
Indices: 408720--408768 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
408710 TTGACCCCCC
408720 TTTTTCTTTTTCTTTTTT-TT
1 TTTTTCTTTTT-TTTTTTCTT
408740 TTTTTC-TTTTTTTTTTCTT
1 TTTTTCTTTTTTTTTTTCTT
408759 TTTTTCTTTT
1 TTTTTCTTTT
408769 CTTCAAGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.22
19 12 0.44
20 9 0.33
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (20 bp):
TTTTTCTTTTTTTTTTTCTT
Found at i:408743 original size:14 final size:14
Alignment explanation
Indices: 408720--408768 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
408710 TTGACCCCCC
*
408720 TTTTTCTTTTTCTT
1 TTTTTTTTTTTCTT
408734 TTTTTTTTTTTCTT
1 TTTTTTTTTTTCTT
408748 TTTTTTTTCTTT-TT
1 TTTTTTTT-TTTCTT
408762 TTCTTTT
1 TT-TTTT
408769 CTTCAAGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
14 25 0.78
15 7 0.22
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTTTTTTTTCTT
Found at i:408749 original size:25 final size:25
Alignment explanation
Indices: 408721--408768 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
408711 TGACCCCCCT
*
408721 TTTTCTTTTTCTTTTTTTTTTTTTC
1 TTTTCTTTTTCTTTTTTTCTTTTTC
*
408746 TTTTTTTTTTCTTTTTTTCTTTT
1 TTTTCTTTTTCTTTTTTTCTTTT
408769 CTTCAAGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (25 bp):
TTTTCTTTTTCTTTTTTTCTTTTTC
Found at i:416071 original size:15 final size:15
Alignment explanation
Indices: 416048--416079 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
416038 ATGAATGAAT
416048 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
416063 AATGCATGTATGCAA
1 AATGAATGTATGCAA
416078 AA
1 AA
416080 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:421347 original size:3 final size:3
Alignment explanation
Indices: 421318--421376 Score: 82
Period size: 3 Copynumber: 19.0 Consensus size: 3
421308 TTGGGTTTTG
* *
421318 TAA TAT TAA TAAA TAA TATA TAT TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
421365 TAA TAA TAA TAA
1 TAA TAA TAA TAA
421377 ATTTTAAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
3 44 0.88
4 6 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:421404 original size:15 final size:17
Alignment explanation
Indices: 421318--421403 Score: 79
Period size: 18 Copynumber: 5.0 Consensus size: 17
421308 TTGGGTTTTG
*
421318 TAATATTAAT-AAATAA
1 TAATAATAATAAAATAA
*
421334 TATATATTAATAATAATAA
1 TA-ATAATAATAA-AATAA
421353 TAATAATAATAATAATAA
1 TAATAATAATAA-AATAA
**
421371 TAATAAATTTTAAAATAA
1 TAAT-AATAATAAAATAA
421389 -AATAA-AATAAAATAA
1 TAATAATAATAAAATAA
421404 ATTGATGTCT
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
15 8 0.13
16 4 0.07
17 11 0.18
18 25 0.41
19 13 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAATAATAATAAAATAA
Found at i:422190 original size:2 final size:2
Alignment explanation
Indices: 422183--422207 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
422173 TAATCATTTA
422183 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
422208 GGTTAAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:429218 original size:21 final size:21
Alignment explanation
Indices: 429194--429233 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
429184 TGTAGTTTAT
429194 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
429215 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
429234 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:429281 original size:33 final size:33
Alignment explanation
Indices: 429228--429326 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
429218 TTTGTTTCAA
429228 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
429260 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
429293 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
429326 T
1 T
429327 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:429355 original size:13 final size:13
Alignment explanation
Indices: 429312--429366 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
429302 TTGGAAGTAT
429312 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
429325 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
429339 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
429352 TTAAGTATTTGAA
1 TTAAGTATTTCAA
429365 TT
1 TT
429367 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:429588 original size:21 final size:21
Alignment explanation
Indices: 429562--429618 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
429552 TGGAGCGTGG
*
429562 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
*
429583 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
429604 GGGAATCGGTTCCCT
1 GGGAATCGGTTCCCT
429619 AAGTGTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.28
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:429823 original size:17 final size:18
Alignment explanation
Indices: 429803--429836 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
429793 GTTTTTTTAT
429803 AACCGG-GTTTTTAAAAA
1 AACCGGTGTTTTTAAAAA
*
429820 AACCGGTTTTTTTAAAA
1 AACCGGTGTTTTTAAAA
429837 CCGAAACCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (18 bp):
AACCGGTGTTTTTAAAAA
Found at i:429836 original size:15 final size:15
Alignment explanation
Indices: 429784--429839 Score: 58
Period size: 16 Copynumber: 3.6 Consensus size: 15
429774 ATCTGGAATA
*
429784 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
429799 TTATAACCGGGTTTTT
1 TTAAAACC-GGTTTTT
**
429815 AAAAAAACCGGTTTTT
1 -TTAAAACCGGTTTTT
429831 TTAAAACCG
1 TTAAAACCG
429840 AAACCGGTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
15 13 0.41
16 14 0.44
17 5 0.16
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.41
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:429956 original size:15 final size:17
Alignment explanation
Indices: 429930--429961 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
429920 TTCTATGAGA
429930 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
429946 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
429962 CGTATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:431821 original size:29 final size:29
Alignment explanation
Indices: 431780--431837 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
431770 AAATAAAAAC
431780 TTTTTAATAATCAGAGCTCATGCCACAGT
1 TTTTTAATAATCAGAGCTCATGCCACAGT
431809 TTTTTAATAATCAGAGCTCATGCCACAGT
1 TTTTTAATAATCAGAGCTCATGCCACAGT
431838 CATGAATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (29 bp):
TTTTTAATAATCAGAGCTCATGCCACAGT
Found at i:440154 original size:22 final size:22
Alignment explanation
Indices: 440128--440232 Score: 174
Period size: 22 Copynumber: 4.8 Consensus size: 22
440118 ATAGGGCAGA
*
440128 GGGAATCGATACCCCCTTGAAG
1 GGGAAACGATACCCCCTTGAAG
*
440150 GGGAAACGATTCCCCCTTGAAG
1 GGGAAACGATACCCCCTTGAAG
*
440172 GGGAAACGATTCCCCCTTGAAG
1 GGGAAACGATACCCCCTTGAAG
440194 GGGAAACGATACCCCCTTGAAG
1 GGGAAACGATACCCCCTTGAAG
*
440216 GGGAATCGATACCCCCT
1 GGGAAACGATACCCCCT
440233 GAGGGTTCTG
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 79 1.00
ACGTcount: A:0.28, C:0.29, G:0.27, T:0.17
Consensus pattern (22 bp):
GGGAAACGATACCCCCTTGAAG
Found at i:443964 original size:23 final size:22
Alignment explanation
Indices: 443938--443982 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
443928 TTCCATACAA
*
443938 CATCAACACCATCAACCATCTTC
1 CATCAACACCACCAA-CATCTTC
*
443961 CATCAAGACCACCAACATCTTC
1 CATCAACACCACCAACATCTTC
443983 ATTTATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.36, C:0.42, G:0.02, T:0.20
Consensus pattern (22 bp):
CATCAACACCACCAACATCTTC
Found at i:458795 original size:30 final size:30
Alignment explanation
Indices: 458761--458819 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
458751 CATAAGTTTT
*
458761 ACTTGCTA-TTAATATTGATCATTAATCTTG
1 ACTTGATATTTAATATTG-TCATTAATCTTG
* *
458791 ACTTGATATTTAGTTTTGTCATTAATCTT
1 ACTTGATATTTAATATTGTCATTAATCTT
458820 AAATTGCAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (30 bp):
ACTTGATATTTAATATTGTCATTAATCTTG
Found at i:460603 original size:201 final size:199
Alignment explanation
Indices: 460246--460648 Score: 684
Period size: 201 Copynumber: 2.0 Consensus size: 199
460236 TCATAAACAT
460246 AAATTTGAAGATAAGAGGTGGGTAAAAGAATTGTACGAGACCAAAGAAAAATGGGCAGAAGCATA
1 AAATTTGAAGATAAGAGGTGGGTAAAAGAATTGTACGAGACCAAAGAAAAATGGGCAGAAGCATA
460311 TATGAGGGGACACTTTTAAGCAGACGACTTTATTTATATTTTAAAATAATTAATTATAATTGAAT
66 TATGAGGGGACACTTTTAAGCAGACGACTTTATTTATATTTTAAAATAATTAATTATAATTGAAT
460376 TATTTTATTCTCTTTC-ATTTATTTATTAAATGAAAAATTATTAAAATC-TTTATTTGCAGCAAG
131 TATTTTATTCTCTTTCTA-TTA--TATTAAATG-AAAATTATTAAAATCTTTTATTTGCAGCAAG
460439 GAGGTACA
192 GAGGTACA
460447 AAATTTGAAGATAAGAGGTGGGTAAAAGAATTGTACGAGACCAAAGAAAAATGGGCAGAAGCATA
1 AAATTTGAAGATAAGAGGTGGGTAAAAGAATTGTACGAGACCAAAGAAAAATGGGCAGAAGCATA
460512 TATGAGGGGACACTTTTAAGCAGACGACTTTATTTATATTTTAAAAATAATTTAATTATAATTGA
66 TATGAGGGGACACTTTTAAGCAGACGACTTTATTTATATTTT-AAAATAA-TTAATTATAATTGA
460577 ATTATTTTATATTCTCTTTCATTTATTATATTAAATGAAAATTATTAAAATCTTTTATTTGCAGC
129 ATTA-TTT-TATTCTCTTTC---TATTATATTAAATGAAAATTATTAAAATCTTTTATTTGCAGC
*
460642 AATGAGG
189 AAGGAGG
460649 AGTACACAAC
Statistics
Matches: 192, Mismatches: 1, Indels: 13
0.93 0.00 0.06
Matches are distributed among these distances:
201 107 0.56
202 7 0.04
203 18 0.09
204 3 0.02
205 26 0.14
206 27 0.14
208 3 0.02
209 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (199 bp):
AAATTTGAAGATAAGAGGTGGGTAAAAGAATTGTACGAGACCAAAGAAAAATGGGCAGAAGCATA
TATGAGGGGACACTTTTAAGCAGACGACTTTATTTATATTTTAAAATAATTAATTATAATTGAAT
TATTTTATTCTCTTTCTATTATATTAAATGAAAATTATTAAAATCTTTTATTTGCAGCAAGGAGG
TACA
Found at i:464416 original size:268 final size:266
Alignment explanation
Indices: 463969--464792 Score: 1040
Period size: 268 Copynumber: 3.1 Consensus size: 266
463959 CCTCTGTTCT
* * * * * *
463969 TCAGGGAAAATTGAATCCAGGTAGACTTGTTCTACTGTCACTCAGGGAATATCAAATCTAAAATG
1 TCAGGGAAGATTGAATCAAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTAAAAAG
** * * *
464034 GGAGGGATTTGTTCTGCTTCTTCTTGAAGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTG
66 ATAGGGATCTGTT-TGCTTCTT-TTTAAGGAAAATCAGATCTGGGGATGTTGATTCATTCCACTG
* * *
464099 TTACTTAGGGAATATTGAATTGAGGCAGACTTGTTCCAATATTACTAAGGGAATATCAAACCTGA
129 TCACTCAGGGAATATTGAATTGAGGCAGACTTGTTCCACTATTACTAAGGGAATATCAAACCTGA
*
464164 AAAGATAGGGATTTGTTCCGCTTCTTTTTGAGGGAAAATCAGATATGGGGATATTAATTTATTCC
194 AAAGATAGGGATCTGTTCCGCTTCTTTTTGAGGGAAAATCAGATATGGGGATATTAATTTATTCC
*
464229 GCT-ATCAC
259 ACTGATC-C
* * * *
464237 TCAGGGAAGATTGAATCGAGGCAGAATCGTTCCACTGTTACTCAGGGAATATGAAATCTAAAAAG
1 TCAGGGAAGATTGAATCAAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTAAAAAG
* * *
464302 ATAGGGATCTATTATGCTTCTTTTTTAGGTAAAATCAGATCTGGGGATATTGATTCATTCCACTG
66 ATAGGGATCTGTT-TGCTTCTTTTTAAGG-AAAATCAGATCTGGGGATGTTGATTCATTCCACTG
* * *
464367 TCACTCAGGGAATATTGAATTGAGGAAGACTTGTTCCACTGTCACTAAGGGAATATCAAACCTGA
129 TCACTCAGGGAATATTGAATTGAGGCAGACTTGTTCCACTATTACTAAGGGAATATCAAACCTGA
* * * * *
464432 AAGGATAGGGATCTATTCTGCTTCTTCTTGAGGGAAAATCAGATATGGGGATATTTATTTATTCC
194 AAAGATAGGGATCTGTTCCGCTTCTTTTTGAGGGAAAATCAGATATGGGGATATTAATTTATTCC
* * *
464497 ATTGTTCT
259 ACTGATCC
* *
464505 TCAGGAAAGATTGAATCAAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTGAAAAG
1 TCAGGGAAGATTGAATCAAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTAAAAAG
* * * * * *
464570 ATAAGGATCTGTTTCGATTCTTCTTAAGGGAAAATTAGATATGGGGATGTTGATTCATTTCACTG
66 ATAGGGATCTGTTT-GCTTCTTTTTAA-GGAAAATCAGATCTGGGGATGTTGATTCATTCCACTG
* * * * * **
464635 TCACTCAGGGAAGATTAAATCGAGGCAGACTTGTTCTACTATTACTCAGGGAATATCAAATATGA
129 TCACTCAGGGAATATTGAATTGAGGCAGACTTGTTCCACTATTACTAAGGGAATATCAAACCTGA
* * * ** *
464700 ATAGATATGGATCTGTTCCGCTTCTTCTAT-AGGGAAAATCAGATATAAGGATATTGATTTATTC
194 AAAGATAGGGATCTGTTCCGCTTCTT-TTTGAGGGAAAATCAGATATGGGGATATTAATTTATTC
*
464764 CACTGATCT
258 CACTGATCC
* *
464773 TCAAGGAAGATTTAATCAAG
1 TCAGGGAAGATTGAATCAAG
464793 TTCGATTTGA
Statistics
Matches: 477, Mismatches: 74, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
267 6 0.01
268 466 0.98
269 5 0.01
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (266 bp):
TCAGGGAAGATTGAATCAAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTAAAAAG
ATAGGGATCTGTTTGCTTCTTTTTAAGGAAAATCAGATCTGGGGATGTTGATTCATTCCACTGTC
ACTCAGGGAATATTGAATTGAGGCAGACTTGTTCCACTATTACTAAGGGAATATCAAACCTGAAA
AGATAGGGATCTGTTCCGCTTCTTTTTGAGGGAAAATCAGATATGGGGATATTAATTTATTCCAC
TGATCC
Found at i:464682 original size:402 final size:402
Alignment explanation
Indices: 463969--464768 Score: 1037
Period size: 402 Copynumber: 2.0 Consensus size: 402
463959 CCTCTGTTCT
* * * *
463969 TCAGGGAAAATTGAATCCAGGTAGACTTGTTCTACTGTCACTCAGGGAATATCAAATCTAAAATG
1 TCAGGGAAAATTGAATCCAGGAAGACTTGTTCCACTGTCACTAAGGGAATATCAAACCTAAAATG
* * * *
464034 GGAGGGATTTGTTCTGCTTCTTCTTGAAGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTG
66 GGAGGGATCTATTCTGCTTCTTCTTGAAGGAAAATCAGATATGGGGACATTGATTCATTCCACTG
* * **
464099 TTACTTAGGGAATATTGAATTGAGGCAGACTTGTTCCAATATTACTAAGGGAATATCAAACCTGA
131 TTACTTAGGAAAGATTGAATCAAGGCAGACTTGTTCCAATATTACTAAGGGAATATCAAACCTGA
* * * * * *
464164 AAAGATAGGGATTTGTTCCGCTTCTTTTTGAGGGAAAATCAGATATGGGGATATTAATTTATTCC
196 AAAGATAAGGATCTGTTCCGATTCTTCTTAAGGGAAAATCAGATATGGGGATATTAATTCATTCC
* * * *
464229 GCTATCACTCAGGGAAGATTGAATCGAGGCAGAATCGTTCCACTGTTACTCAGGGAATATGAAAT
261 ACTATCACTCAGGGAAGATTAAATCGAGGCAGAATCGTTCCACTATTACTCAGGGAATATCAAAT
* * * * * * **
464294 CTAAAAAGATAGGGATCTATTATGCTTCTTTTTTAGGTAAAATCAGATCTGGGGATATTGATTCA
326 ATAAAAAGATAGGGATCTATTACGCTTCTTCTATAGGGAAAATCAGATATAAGGATATTGATTCA
464359 TTCCACTGTCAC
391 TTCCACTGTCAC
* ** *
464371 TCAGGGAATATTGAATTGAGGAAGACTTGTTCCACTGTCACTAAGGGAATATCAAACCTGAAA-G
1 TCAGGGAAAATTGAATCCAGGAAGACTTGTTCCACTGTCACTAAGGGAATATCAAACCTAAAATG
* * * * * *
464435 GATAGGGATCTATTCTGCTTCTTCTTGAGGGAAAATCAGATATGGGGATATTTATTTATTCCATT
66 G-GAGGGATCTATTCTGCTTCTTCTTGAAGGAAAATCAGATATGGGGACATTGATTCATTCCACT
* * * *
464500 GTT-CTTCAGGAAAGATTGAATCAAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCT
130 GTTACTT-AGGAAAGATTGAATCAAGGCAGACTTGTTCCAATATTACTAAGGGAATATCAAACCT
* * * *
464564 GAAAAGATAAGGATCTGTTTCGATTCTTCTTAAGGGAAAATTAGATATGGGGATGTTGATTCATT
194 GAAAAGATAAGGATCTGTTCCGATTCTTCTTAAGGGAAAATCAGATATGGGGATATTAATTCATT
* * * * *
464629 TCACTGTCACTCAGGGAAGATTAAATCGAGGCAGACTTGTTCTACTATTACTCAGGGAATATCAA
259 CCACTATCACTCAGGGAAGATTAAATCGAGGCAGAATCGTTCCACTATTACTCAGGGAATATCAA
* * * * *
464694 ATATGAATAGATATGGATCTGTTCCGCTTCTTCTATAGGGAAAATCAGATATAAGGATATTGATT
324 ATATAAAAAGATAGGGATCTATTACGCTTCTTCTATAGGGAAAATCAGATATAAGGATATTGATT
*
464759 TATTCCACTG
389 CATTCCACTG
464769 ATCTTCAAGG
Statistics
Matches: 337, Mismatches: 59, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
401 5 0.01
402 332 0.99
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (402 bp):
TCAGGGAAAATTGAATCCAGGAAGACTTGTTCCACTGTCACTAAGGGAATATCAAACCTAAAATG
GGAGGGATCTATTCTGCTTCTTCTTGAAGGAAAATCAGATATGGGGACATTGATTCATTCCACTG
TTACTTAGGAAAGATTGAATCAAGGCAGACTTGTTCCAATATTACTAAGGGAATATCAAACCTGA
AAAGATAAGGATCTGTTCCGATTCTTCTTAAGGGAAAATCAGATATGGGGATATTAATTCATTCC
ACTATCACTCAGGGAAGATTAAATCGAGGCAGAATCGTTCCACTATTACTCAGGGAATATCAAAT
ATAAAAAGATAGGGATCTATTACGCTTCTTCTATAGGGAAAATCAGATATAAGGATATTGATTCA
TTCCACTGTCAC
Found at i:464781 original size:134 final size:134
Alignment explanation
Indices: 463954--464789 Score: 919
Period size: 134 Copynumber: 6.2 Consensus size: 134
463944 AAACGTTAAC
* * * * * *
463954 TCATTCCTCTGTTCTTCAGGGAAAATTGAATCCAGGTAGACTTGTTCTACTGTCACTCAGGGAAT
1 TCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAAT
** * * * * **
464019 ATCAAATCT-AAAATGGGAGGGATTTGTTCTGCTTCTTCTTGAAGGAAAATCAGATCTGGGGACG
66 ATCAAATCTGAAAA-GATAGGGATCTGTTCCGCTTCTTCTTGAGGGAAAATCAGATATGGGGATA
464083 TTGAT
130 TTGAT
* * * * *
464088 TCATTCCACTGTTACTT-AGGGAATATTGAATTGAGGCAGACTTGTTCCAATATTACTAAGGGAA
1 TCATTCCACTGTT-CTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAA
* * *
464152 TATCAAACCTGAAAAGATAGGGATTTGTTCCGCTTCTTTTTGAGGGAAAATCAGATATGGGGATA
65 TATCAAATCTGAAAAGATAGGGATCTGTTCCGCTTCTTCTTGAGGGAAAATCAGATATGGGGATA
*
464217 TTAAT
130 TTGAT
* * * * * *
464222 TTATTCCGCT-ATCACTCAGGGAAGATTGAATCGAGGCAGAATCGTTCCACTGTTACTCAGGGAA
1 TCATTCCACTGTTC-TTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAA
* * * ** * * * *
464286 TATGAAATCTAAAAAGATAGGGATCTATTATGCTTCTTTTTTAGGTAAAATCAGATCTGGGGATA
65 TATCAAATCTGAAAAGATAGGGATCTGTTCCGCTTCTTCTTGAGGGAAAATCAGATATGGGGATA
464351 TTGAT
130 TTGAT
* * * * * *
464356 TCATTCCACTG-TCACTCAGGGAATATTGAATTGAGGAAGACTTGTTCCACTGTCACTAAGGGAA
1 TCATTCCACTGTTC-TTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAA
* * * *
464420 TATCAAACCTGAAAGGATAGGGATCTATTCTGCTTCTTCTTGAGGGAAAATCAGATATGGGGATA
65 TATCAAATCTGAAAAGATAGGGATCTGTTCCGCTTCTTCTTGAGGGAAAATCAGATATGGGGATA
*
464485 TTTAT
130 TTGAT
* * * *
464490 TTATTCCATTGTTCTTCAGGAAAGATTGAATCAAGGCAGACTTGTTCCACTGTTACTCAGGGAAT
1 TCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAAT
* * * * * *
464555 ATCAAATCTGAAAAGATAAGGATCTGTTTCGATTCTTCTTAAGGGAAAATTAGATATGGGGATGT
66 ATCAAATCTGAAAAGATAGGGATCTGTTCCGCTTCTTCTTGAGGGAAAATCAGATATGGGGATAT
464620 TGAT
131 TGAT
* * * * *
464624 TCATTTCACTG-TCACTCAGGGAAGATTAAATCGAGGCAGACTTGTTCTACTATTACTCAGGGAA
1 TCATTCCACTGTTC-TTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAA
* * * **
464688 TATCAAATATGAATAGATATGGATCTGTTCCGCTTCTTCTAT-AGGGAAAATCAGATATAAGGAT
65 TATCAAATCTGAAAAGATAGGGATCTGTTCCGCTTCTTCT-TGAGGGAAAATCAGATATGGGGAT
464752 ATTGAT
129 ATTGAT
* * * *
464758 TTATTCCACTGATCTTCAAGGAAGATTTAATC
1 TCATTCCACTGTTCTTCAGGGAAGATTGAATC
464790 AAGTTCGATT
Statistics
Matches: 588, Mismatches: 105, Indels: 18
0.83 0.15 0.03
Matches are distributed among these distances:
132 1 0.00
133 4 0.01
134 571 0.97
135 12 0.02
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (134 bp):
TCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAAT
ATCAAATCTGAAAAGATAGGGATCTGTTCCGCTTCTTCTTGAGGGAAAATCAGATATGGGGATAT
TGAT
Found at i:465226 original size:42 final size:42
Alignment explanation
Indices: 465142--465231 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
465132 TGGCCTGAAA
* **
465142 GACTTA-TCATCTTGCTCGAAATACTTATAGATGACGTAAAG
1 GACTTACTCATCTTGCTCGAAAGACTTATAGATGACCCAAAG
* * *
465183 GATTTACTCATCTTGCTCGAAAGACTTACT-GATGTCCCGAAG
1 GACTTACTCATCTTGCTCGAAAGACTTA-TAGATGACCCAAAG
465225 GACTTAC
1 GACTTAC
465232 CAATTTTAGA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
41 5 0.12
42 34 0.85
43 1 0.03
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (42 bp):
GACTTACTCATCTTGCTCGAAAGACTTATAGATGACCCAAAG
Found at i:465463 original size:232 final size:233
Alignment explanation
Indices: 465045--465475 Score: 571
Period size: 232 Copynumber: 1.8 Consensus size: 233
465035 ATTTTTTTAG
465045 AAAATTTCAATTTTCAGATTTAAATAAAAAACTTTTCTCATTTTTCGAAAACATATGTGAAAACA
1 AAAATTTCAATTTTCAGATTTAAATAAAAAACTTTTCTCATTTTTCGAAAACA-ATGTGAAAACA
* * * * * * *
465110 TCCTGCCTGAAGGTCTTATGGATGGCCTGAAAGACTTATCATCTTGCTCGAAATACTTATAGATG
65 TCCTGCCTCAAGGTCTTATGGATGACCCGAAAGACTTATAATCTTGCTCGAAAGACTTACAGATA
** ** * *
465175 ACGTAAAGGATTTACTCATCTTGCTCGAAAGACTTACTGATGTCCCGAAGGACTTACCAATTTTA
130 ACCCAAAGGATTTAAGCATCTTACTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTA
465240 GAAATAGTTTACTGGGTAAGACATTTTTCTTACTTTTCA
195 GAAATAGTTTACTGGGTAAGACATTTTTCTTACTTTTCA
* * *** *
465279 AAAATTTCAGTTTTTAGATTTAAATGGGAAACTTTTCTCATTTTTTGAAAAGC-ATGTGAAAACA
1 AAAATTTCAATTTTCAGATTTAAATAAAAAACTTTTCTCATTTTTCGAAAA-CAATGTGAAAACA
* * *
465343 TCCTTCC-CAAGGTCTTATGGATGACCCGAATGACTTATAATCTTGCTCGAAAGACTTACGGATA
65 TCCTGCCTCAAGGTCTTATGGATGACCCGAAAGACTTATAATCTTGCTCGAAAGACTTACAGATA
* * * *
465407 ACCCGAAGGATTTAAGCAT-TATACTCGAAAGACTTACTGATGGCTCGAATGACTTACCATTTTT
130 ACCCAAAGGATTTAAGCATCT-TACTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTT
*
465471 GGAAA
194 AGAAA
465476 CTTTTTTCCA
Statistics
Matches: 168, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
231 1 0.01
232 104 0.62
233 17 0.10
234 45 0.27
235 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (233 bp):
AAAATTTCAATTTTCAGATTTAAATAAAAAACTTTTCTCATTTTTCGAAAACAATGTGAAAACAT
CCTGCCTCAAGGTCTTATGGATGACCCGAAAGACTTATAATCTTGCTCGAAAGACTTACAGATAA
CCCAAAGGATTTAAGCATCTTACTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTAG
AAATAGTTTACTGGGTAAGACATTTTTCTTACTTTTCA
Found at i:468293 original size:12 final size:11
Alignment explanation
Indices: 468278--468340 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 11
468268 CTCCTTTTTC
468278 TTTTTCTCTCTT
1 TTTTTCT-TCTT
468290 TTTTTCTTCTT
1 TTTTTCTTCTT
*
468301 CTTTTTCTATATT
1 -TTTTTCT-TCTT
468314 TTCTCTT-TTCTTT
1 TT-T-TTCTTC-TT
468327 TTTTTCTTCTT
1 TTTTTCTTCTT
468338 TTT
1 TTT
468341 CTATCTTTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
11 11 0.26
12 21 0.49
13 9 0.21
14 2 0.05
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTCTTCTT
Found at i:468293 original size:18 final size:17
Alignment explanation
Indices: 468260--468376 Score: 83
Period size: 16 Copynumber: 7.2 Consensus size: 17
468250 ACTTGATTTA
468260 TTTTC-TTTCTC-CTTT
1 TTTTCTTTTCTCTCTTT
*
468275 TTCT-TTTTCTCTCTTT
1 TTTTCTTTTCTCTCTTT
468291 TTTTC--TTCT-TCTTT
1 TTTTCTTTTCTCTCTTT
*
468305 TTCTATATTTTCTCT-TTT
1 TT-T-TCTTTTCTCTCTTT
468323 CTTTT-TTTTCT-TCTTT
1 -TTTTCTTTTCTCTCTTT
468339 TTCTATCTTTTCTC-CTTT
1 TT-T-TCTTTTCTCTCTTT
**
468357 TTTTCTTCCCTCTCTTT
1 TTTTCTTTTCTCTCTTT
468374 TTT
1 TTT
468377 ATCTCTATAT
Statistics
Matches: 82, Mismatches: 5, Indels: 28
0.71 0.04 0.24
Matches are distributed among these distances:
14 7 0.09
15 17 0.21
16 25 0.30
17 10 0.12
18 20 0.24
19 3 0.04
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCTTTTCTCTCTTT
Found at i:468328 original size:34 final size:33
Alignment explanation
Indices: 468279--468364 Score: 129
Period size: 34 Copynumber: 2.6 Consensus size: 33
468269 TCCTTTTTCT
468279 TTTTCTCTCTTTTTTTCTTCTTCTTTTTCTATA
1 TTTTCTCTCTTTTTTTCTTCTTCTTTTTCTATA
* * *
468312 TTTTCTCTTTTCTTTTTTTTCTTCTTTTTCTATC
1 TTTTCTCTCTT-TTTTTCTTCTTCTTTTTCTATA
468346 TTTTCTC-CTTTTTTTCTTC
1 TTTTCTCTCTTTTTTTCTTC
468365 CCTCTCTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
32 8 0.17
33 12 0.26
34 27 0.57
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.74
Consensus pattern (33 bp):
TTTTCTCTCTTTTTTTCTTCTTCTTTTTCTATA
Found at i:468358 original size:9 final size:8
Alignment explanation
Indices: 468265--468363 Score: 53
Period size: 9 Copynumber: 12.0 Consensus size: 8
468255 ATTTATTTTC
*
468265 TTTCTCCT
1 TTTCTCTT
468273 TTT-TCTT
1 TTTCTCTT
468280 TTTCTCTCT
1 TTTCTCT-T
468289 TTT-T-TT
1 TTTCTCTT
*
468295 CTTCTTCTT
1 TTTC-TCTT
*
468304 TTTCTATAT
1 TTTCTCT-T
468313 TTTCTC-T
1 TTTCTCTT
*
468320 TTTCTTTTT
1 TTTC-TCTT
468329 TTTCTTCTT
1 TTTC-TCTT
*
468338 TTTCTATCT
1 TTTCTCT-T
468347 TTTCTCCTT
1 TTTCT-CTT
*
468356 TTTTTCTT
1 TTTCTCTT
468364 CCCTCTCTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
6 3 0.04
7 12 0.17
8 16 0.23
9 39 0.55
10 1 0.01
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTCTCTT
Found at i:469501 original size:53 final size:52
Alignment explanation
Indices: 469332--469504 Score: 179
Period size: 55 Copynumber: 3.2 Consensus size: 52
469322 ATTTACGGTT
*
469332 ATCAAGAAACCCCTAAAATTAGGCTTAGT-TTCTTTCAAAAATTCATTTAAAAAA
1 ATCAAGAAACCCCTAAAATTAGGCTTA-TCTTCTTT--TAAATTCATTTAAAAAA
* * * * * *
469386 CATCAATAAACCCCTGAAAATCAAGCATATCTTTTTTTTCAAATTCATTTAAAAAC
1 -ATCAAGAAACCCCT-AAAATTAGGCTTATC-TTCTTTT-AAATTCATTTAAAAAA
*
469442 ATCAAGAAACCTCTAAATATTAGGCTTATCTTCTTTTAAATTCA-TTAAAAATA
1 ATCAAGAAACCCCTAAA-ATTAGGCTTATCTTCTTTTAAATTCATTTAAAAA-A
469495 ATCAAGAAAC
1 ATCAAGAAAC
469505 TTCTTAAAAT
Statistics
Matches: 98, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
52 7 0.07
53 17 0.17
54 9 0.09
55 35 0.36
56 25 0.26
57 5 0.05
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (52 bp):
ATCAAGAAACCCCTAAAATTAGGCTTATCTTCTTTTAAATTCATTTAAAAAA
Found at i:469601 original size:55 final size:55
Alignment explanation
Indices: 469542--469888 Score: 377
Period size: 55 Copynumber: 6.6 Consensus size: 55
469532 AATTAATTTT
* * * *
469542 GTCAAGAAA-TATCTGAAAATCAAACTTAATTTCTTTGAAAGCTCATTTAAAAATT
1 GTCAAGAAACT-TCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATC
* *
469597 GTCAACAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTGAAAATC
1 GTCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATC
* * *
469652 GCCAAGAAACTTCTGAAAATTAGACTTAGTTTCTTTAAAATCTCATTT-AAAAT-
1 GTCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATC
*
469705 GATCAAGAAACTTCCGAAAAT-AGGACTTAG--T-TTT--AA----A---AAAAATC
1 G-TCAAGAAACTTCTGAAAATCA-GACTTAGTTTCTTTAAAAGCTCATTTAAAAATC
* * * * *
469749 ATCAGGAAACTTCTGAAAATTAGACTTAGTTTCTTTGAAATCTCATTTAAAAATC
1 GTCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATC
* *
469804 GTCAAGAAACTTATGAAAATCATACTTAGTTTCTTTAAAAGCTCATTTAAAAA-C
1 GTCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATC
* *
469858 ATCAAGAAACTTTTGAAAATCAGACTTAGTT
1 GTCAAGAAACTTCTGAAAATCAGACTTAGTT
469889 CCAAAAAAAC
Statistics
Matches: 249, Mismatches: 25, Indels: 37
0.80 0.08 0.12
Matches are distributed among these distances:
43 29 0.12
44 1 0.00
45 2 0.01
46 3 0.01
48 2 0.01
49 2 0.01
51 3 0.01
52 2 0.01
53 2 0.01
54 58 0.23
55 144 0.58
56 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (55 bp):
GTCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATC
Found at i:469774 original size:152 final size:152
Alignment explanation
Indices: 469603--469897 Score: 439
Period size: 152 Copynumber: 1.9 Consensus size: 152
469593 AATTGTCAAC
* *
469603 AAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTGAAAATCGCCAAGAAACTTCTGA
1 AAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATCGCCAAGAAACTTATGA
* * **
469668 AAATTAGACTTAGTTTCTTTAAAATCTCATTTAAAATGATCAAGAAACTTCCGAAAAT-AGGACT
66 AAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAACATCAAGAAACTTCCGAAAATCA-GACT
**
469732 TAGTTTTAAAAAAAATCATCAGG
130 TAGTTCCAAAAAAAATCATCAGG
* * * *
469755 AAACTTCTGAAAATTAGACTTAGTTTCTTTGAAATCTCATTTAAAAATCGTCAAGAAACTTATGA
1 AAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATCGCCAAGAAACTTATGA
* **
469820 AAATCATACTTAGTTTCTTTAAAAGCTCATTTAAAAACATCAAGAAACTTTTGAAAATCAGACTT
66 AAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAACATCAAGAAACTTCCGAAAATCAGACTT
469885 AGTTCCAAAAAAA
131 AGTTCCAAAAAAA
469898 CACATTAGAT
Statistics
Matches: 127, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
152 126 0.99
153 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (152 bp):
AAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATCGCCAAGAAACTTATGA
AAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAACATCAAGAAACTTCCGAAAATCAGACTT
AGTTCCAAAAAAAATCATCAGG
Found at i:471090 original size:370 final size:370
Alignment explanation
Indices: 470409--471147 Score: 1347
Period size: 370 Copynumber: 2.0 Consensus size: 370
470399 TAAAGCTTTG
*
470409 AGGTAAACTCTTTTTTCCATCATATTCTACCATTGGCATTCCAAACAGTGAGGCTCATTCACCAT
1 AGGTAAACTCTTTTTGCCATCATATTCTACCATTGGCATTCCAAACAGTGAGGCTCATTCACCAT
* *
470474 GTCTGATTGATTTGTATCTTGTATCTCAGCTAGATCTAGTTTTGGTAATACCCCAATGTGGGTAC
66 GTATGATTGATTTGTATCTTATATCTCAGCTAGATCTAGTTTTGGTAATACCCCAATGTGGGTAC
* *
470539 TCACGTCTCTCTTCGTACGAAGATCTTAATCTCGAATGGTCTCACTATGGTGTCACCAAACCATA
131 TCACGGCTCTCTTCGTACCAAGATCTTAATCTCGAATGGTCTCACTATGGTGTCACCAAACCATA
*
470604 GTGTTATTGAATAACTTGAGGGATGATGCAACAATCAGATGAACATTTAAGAAGTGGTCAATTCT
196 GTGTTATTGAATAACTTAAGGGATGATGCAACAATCAGATGAACATTTAAGAAGTGGTCAATTCT
470669 TCTAACAAAAATCTCTTGAATCTTTGCTCTGATCTGAGATATGTGTCACTTTCAACTAAGACAAT
261 TCTAACAAAAATCTCTTGAATCTTTGCTCTGATCTGAGATATGTGTCACTTTCAACTAAGACAAT
*
470734 CTTCTACTTCTTGACGGGTTACTGATGACGTCACAAGGAAATGTA
326 CTTCTACTTCTTGACGGGTTACTGATGACATCACAAGGAAATGTA
470779 AGGTAAACTCTTTTTGCCATCATATTCTACCATTGGCATTCCAAACAGTGAGGCTCATTCACCAT
1 AGGTAAACTCTTTTTGCCATCATATTCTACCATTGGCATTCCAAACAGTGAGGCTCATTCACCAT
470844 GTATGATT-ACTTTGTATCTTATATCTCAGCTAGATCTAGTTTTGGTAATACCCCAATGTGGGTA
66 GTATGATTGA-TTTGTATCTTATATCTCAGCTAGATCTAGTTTTGGTAATACCCCAATGTGGGTA
*
470908 CTCATGGCTCTCTTCGTACCAAGATCTTAATCTCGAATGGTCTCACTATGGTGTCACCAAA-CAG
130 CTCACGGCTCTCTTCGTACCAAGATCTTAATCTCGAATGGTCTCACTATGGTGTCACCAAACCA-
* *
470972 TAGTGTTATTGAATAAGTTAAGGGATGATGCAATAATCAGATGAACATTTAAGAAGTGGTCAATT
194 TAGTGTTATTGAATAACTTAAGGGATGATGCAACAATCAGATGAACATTTAAGAAGTGGTCAATT
*
471037 GTTCTAACAAAAATCTCTTGAATCTTTGCTCTGATCTGAGATATGTGTCACTTTCAACTAAGACA
259 CTTCTAACAAAAATCTCTTGAATCTTTGCTCTGATCTGAGATATGTGTCACTTTCAACTAAGACA
471102 ATCTTCTACTTCTTGACGGGTTACTGATGACATCACAAGGAAATGT
324 ATCTTCTACTTCTTGACGGGTTACTGATGACATCACAAGGAAATGT
471148 TAGAAGTCAT
Statistics
Matches: 356, Mismatches: 11, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
369 3 0.01
370 353 0.99
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (370 bp):
AGGTAAACTCTTTTTGCCATCATATTCTACCATTGGCATTCCAAACAGTGAGGCTCATTCACCAT
GTATGATTGATTTGTATCTTATATCTCAGCTAGATCTAGTTTTGGTAATACCCCAATGTGGGTAC
TCACGGCTCTCTTCGTACCAAGATCTTAATCTCGAATGGTCTCACTATGGTGTCACCAAACCATA
GTGTTATTGAATAACTTAAGGGATGATGCAACAATCAGATGAACATTTAAGAAGTGGTCAATTCT
TCTAACAAAAATCTCTTGAATCTTTGCTCTGATCTGAGATATGTGTCACTTTCAACTAAGACAAT
CTTCTACTTCTTGACGGGTTACTGATGACATCACAAGGAAATGTA
Found at i:471555 original size:28 final size:28
Alignment explanation
Indices: 471517--471595 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
471507 AGGATTCCTT
*
471517 GGGAAGGTAATGTGTTTCAGGTTAATTTG
1 GGGAA-GTAATGTGTTTCAGGTTAATCTG
*
471546 GGGAAGTAATGTGTTTTAGGTTAATCTG
1 GGGAAGTAATGTGTTTCAGGTTAATCTG
* *
471574 GGGAGGTAATGTGTTTCTGGTT
1 GGGAAGTAATGTGTTTCAGGTT
471596 GGATTCTTGC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 40 0.89
29 5 0.11
ACGTcount: A:0.22, C:0.04, G:0.35, T:0.39
Consensus pattern (28 bp):
GGGAAGTAATGTGTTTCAGGTTAATCTG
Found at i:472262 original size:10 final size:10
Alignment explanation
Indices: 472249--472332 Score: 66
Period size: 10 Copynumber: 8.4 Consensus size: 10
472239 CTTTTCGCTC
472249 TTTTTTTCTT
1 TTTTTTTCTT
472259 TTTTTTTC--
1 TTTTTTTCTT
*
472267 TTTTTCTC-T
1 TTTTTTTCTT
*
472276 TTTTCTTCGATT
1 TTTTTTTC--TT
*
472288 TTTCTCTTCTT
1 TTT-TTTTCTT
*
472299 TTTTTTTCTC
1 TTTTTTTCTT
* *
472309 TCTTTCTCTT
1 TTTTTTTCTT
472319 TTTTTTTCTT
1 TTTTTTTCTT
472329 TTTT
1 TTTT
472333 CAGTTTTTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
8 7 0.12
9 6 0.10
10 32 0.54
11 5 0.08
12 4 0.07
13 5 0.08
ACGTcount: A:0.01, C:0.18, G:0.01, T:0.80
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:472271 original size:19 final size:19
Alignment explanation
Indices: 472247--472351 Score: 99
Period size: 20 Copynumber: 5.4 Consensus size: 19
472237 TTCTTTTCGC
472247 TCTTTTTT-TCTTTTTTTT
1 TCTTTTTTCTCTTTTTTTT
*
472265 TC-TTTTTCTC-TTTTTCT
1 TCTTTTTTCTCTTTTTTTT
472282 TCGATTTTTCTCTTCTTTTTTTT
1 TC--TTTTT-TC-TCTTTTTTTT
*
472305 TCTCTCTTTCTCTTTTTTTT
1 TCT-TTTTTCTCTTTTTTTT
**
472325 TCTTTTTTCAGTTTTTATTT
1 TCTTTTTTCTCTTTTT-TTT
472345 TCTTTTT
1 TCTTTTT
472352 GTGTGTGTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
17 13 0.18
18 4 0.06
19 10 0.14
20 27 0.38
21 5 0.07
22 5 0.07
23 8 0.11
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (19 bp):
TCTTTTTTCTCTTTTTTTT
Found at i:472289 original size:27 final size:25
Alignment explanation
Indices: 472224--472351 Score: 77
Period size: 27 Copynumber: 4.8 Consensus size: 25
472214 TATCAGTCTA
* *
472224 TTTTCTTCTTTCTTTCTTTTCGCTCT
1 TTTTCTTCTTTTTTTCTTTT-TCTCT
472250 TTTT-TTCTTTTTTTTTCTTTTTCTCT
1 TTTTCTTC--TTTTTTTCTTTTTCTCT
*
472276 TTTTCTTCGATTTTTCTCTTCTTT-T-T
1 TTTTCTTC--TTTTTTTCTT-TTTCTCT
*
472302 TTTTCTCTCTTTCTCTTTTTTTTTCT-T
1 TTTTCT-TCTTT-T-TTTCTTTTTCTCT
472329 TTTTCAGTT-TTTATTTTCTTTTT
1 TTTTC--TTCTTT-TTTTCTTTTT
472352 GTGTGTGTTT
Statistics
Matches: 83, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
25 6 0.07
26 31 0.37
27 41 0.49
28 4 0.05
29 1 0.01
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTCTTCTTTTTTTCTTTTTCTCT
Found at i:472622 original size:2 final size:2
Alignment explanation
Indices: 472609--472657 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
472599 GACAACAAGG
*
472609 TA TA TA TC TA TA TA TA 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 TA TA TA TA TA TA TA TA
472651 TA TA TA T
1 TA TA TA T
472658 TCGAAAGGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:475887 original size:21 final size:21
Alignment explanation
Indices: 475838--475879 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
475828 AACTGAAATA
475838 AAAAGAATATAATAATTTCTC
1 AAAAGAATATAATAATTTCTC
475859 AAAAGAATATAATAATTTCTC
1 AAAAGAATATAATAATTTCTC
475880 CCAAGAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (21 bp):
AAAAGAATATAATAATTTCTC
Found at i:476195 original size:21 final size:22
Alignment explanation
Indices: 476157--476205 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
476147 CTCATGGGAT
476157 TAAAATAAAATAAAC-AAAGAA
1 TAAAATAAAATAAACAAAAGAA
* * * *
476178 TAAAATACACTAATCAAAAGAC
1 TAAAATAAAATAAACAAAAGAA
476200 TAAAAT
1 TAAAAT
476206 TAAAGTATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.67, C:0.10, G:0.04, T:0.18
Consensus pattern (22 bp):
TAAAATAAAATAAACAAAAGAA
Found at i:476262 original size:14 final size:14
Alignment explanation
Indices: 476200--476266 Score: 55
Period size: 14 Copynumber: 4.8 Consensus size: 14
476190 ATCAAAAGAC
*
476200 TAAAATTAAAGTAT
1 TAAAATTAAAGTAA
* * *
476214 TAAAAATGAAGGACA
1 TAAAATTAAAGTA-A
* **
476229 -AAAATAAAAAAAA
1 TAAAATTAAAGTAA
476242 TAAAATTAAAGTAA
1 TAAAATTAAAGTAA
476256 TAAAATTAAAG
1 TAAAATTAAAG
476267 GATTGAAATT
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
13 1 0.03
14 38 0.97
ACGTcount: A:0.67, C:0.01, G:0.09, T:0.22
Consensus pattern (14 bp):
TAAAATTAAAGTAA
Found at i:476275 original size:14 final size:14
Alignment explanation
Indices: 476200--476279 Score: 54
Period size: 14 Copynumber: 5.7 Consensus size: 14
476190 ATCAAAAGAC
* *
476200 TAAAATTAAAGTAT
1 TAAAATTAAAGGAA
* *
476214 TAAAAATGAAGGACA
1 TAAAATTAAAGGA-A
* **
476229 -AAAATAAAAAAAA
1 TAAAATTAAAGGAA
*
476242 TAAAATTAAAGTAA
1 TAAAATTAAAGGAA
*
476256 TAAAATTAAAGGAT
1 TAAAATTAAAGGAA
*
476270 TGAAATTAAA
1 TAAAATTAAA
476280 CTAACTTAAA
Statistics
Matches: 49, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
13 1 0.02
14 48 0.98
ACGTcount: A:0.65, C:0.01, G:0.10, T:0.24
Consensus pattern (14 bp):
TAAAATTAAAGGAA
Found at i:481435 original size:137 final size:136
Alignment explanation
Indices: 480915--481496 Score: 801
Period size: 136 Copynumber: 4.2 Consensus size: 136
480905 TAGTCACGTG
* *
480915 AAAGCGTGTTTCAGGGAGCACGCCTTCCCTTTTTTTGGTCAGAGAATAGGTTATAATTACCCTAT
1 AAAGCGCGTTTCAGGGGGCA--CCTTCCC-TTTTTT-GTCAGAGAATAGGTTATAATTACCCTAT
* * * *
480980 TATATGTCATGTCCCCCGGCGAGG-CACTATTCATATCATTACCTATAATGTTTGAGGGGACGCA
62 TATGTGTCATGTCCCCCGACG-GGACACTATTCATGTCAGTACCTATAATGTTTGAGGGGACGCA
481044 ACAATGTGGTT
126 ACAATGTGGTT
* * * * * *
481055 AAAGCACGTTTTAGGGGGTGA-CTTCCCTTTTTTGTTAAAGAATAGGTTATAATTATCCTATTAT
1 AAAGCGCGTTTCAGGGGG-CACCTTCCCTTTTTTGTCAGAGAATAGGTTATAATTACCCTATTAT
*
481119 GTGTCATGT-CCCCGACGGGACATTATTCATGTCAGTACCTATAATGTTTGAGGGGACGCAACAA
65 GTGTCATGTCCCCCGACGGGACACTATTCATGTCAGTACCTATAATGTTTGAGGGGACGCAACAA
481183 TGTGGTT
130 TGTGGTT
* ** *
481190 AAAGCGCATTTCAGGGGGTGCCTTCCATTTTTTGTCAGAGAATAGGTTATAATTACCCTATTATG
1 AAAGCGCGTTTCAGGGGGCACCTTCCCTTTTTTGTCAGAGAATAGGTTATAATTACCCTATTATG
* *
481255 TGTCATGTCCCCTGACGGGACACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAT
66 TGTCATGTCCCCCGACGGGACACTATTCATGTCAGTACCTATAATGTTTGAGGGGACGCAACAAT
481320 GTGGTT
131 GTGGTT
* * *
481326 AAAGCGCGTTTCAGGGGGCACCTTCTCTTTTTTAGTCAGAGAATAGGTTATAATTGCCTTATTAT
1 AAAGCGCGTTTCAGGGGGCACCTTCCCTTTTTT-GTCAGAGAATAGGTTATAATTACCCTATTAT
* * * * * *
481391 GTGTCATATCCCCCAACGGGGCACTATTCATGTCAGTACTTATCATGTTTGAGGGGATGCAACAA
65 GTGTCATGTCCCCCGACGGGACACTATTCATGTCAGTACCTATAATGTTTGAGGGGACGCAACAA
481456 TGTGGTT
130 TGTGGTT
* *
481463 AAAGCGCGTTTCAGGGGGGCGCTTTCCCTTTTTT
1 AAAGCGCGTTTCA-GGGGGCACCTTCCCTTTTTT
481497 TGTCGGGTTA
Statistics
Matches: 395, Mismatches: 41, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
134 2 0.01
135 118 0.30
136 123 0.31
137 114 0.29
138 23 0.06
140 14 0.04
141 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (136 bp):
AAAGCGCGTTTCAGGGGGCACCTTCCCTTTTTTGTCAGAGAATAGGTTATAATTACCCTATTATG
TGTCATGTCCCCCGACGGGACACTATTCATGTCAGTACCTATAATGTTTGAGGGGACGCAACAAT
GTGGTT
Found at i:481597 original size:20 final size:20
Alignment explanation
Indices: 481553--481597 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
481543 CACTATGCTG
*
481553 GAAATTTATGTTAGAGTGTT
1 GAAATTTATGTTAGAATGTT
481573 G-AATTTGATGTTAGAATG-T
1 GAAATTT-ATGTTAGAATGTT
481592 GAAATT
1 GAAATT
481598 GGGTCATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.42
Consensus pattern (20 bp):
GAAATTTATGTTAGAATGTT
Found at i:482652 original size:42 final size:41
Alignment explanation
Indices: 482587--482673 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 41
482577 TAGGAATGTA
*
482587 ACCCTGCGGAGATGACATATGAACTGGTGGGCTTGGCATAT
1 ACCCTGCGGAGATGACATATGAACTGGTGGGCTGGGCATAT
* *
482628 ACCCTTGCGGAGATGGA-ATTTGAACTGGTGGGCTGGGCATGT
1 ACCC-TGCGGAGAT-GACATATGAACTGGTGGGCTGGGCATAT
482670 ACCC
1 ACCC
482674 CTATGGCATC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
41 4 0.10
42 35 0.85
43 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (41 bp):
ACCCTGCGGAGATGACATATGAACTGGTGGGCTGGGCATAT
Found at i:483253 original size:17 final size:17
Alignment explanation
Indices: 483231--483266 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
483221 AAACTGAAAC
483231 ATAAATAT-ATAATTCTA
1 ATAAATATAAT-ATTCTA
483248 ATAAATATAATATTCTA
1 ATAAATATAATATTCTA
483265 AT
1 AT
483267 TATATCAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAAATATAATATTCTA
Found at i:483730 original size:191 final size:191
Alignment explanation
Indices: 483406--483787 Score: 746
Period size: 191 Copynumber: 2.0 Consensus size: 191
483396 CCACCTATAA
483406 AATATAATATAAACTTAATATCACCCTATTTAATTACAAATATTTAAATCAAAATTTAGTTCTGA
1 AATATAATATAAACTTAATATCACCCTATTTAATTACAAATATTTAAATCAAAATTTAGTTCTGA
483471 AATTACCTCAATAATAAGGGGAATGCATATGGCTCATTAACGACCGGGCATAAGAAAGGCATGCA
66 AATTACCTCAATAATAAGGGGAATGCATATGGCTCATTAACGACCGGGCATAAGAAAGGCATGCA
483536 GAACCACGCCCATGATTGGAGAAGCAGGAGACATCCACCGATAGCAGTTTTATTATAATTC
131 GAACCACGCCCATGATTGGAGAAGCAGGAGACATCCACCGATAGCAGTTTTATTATAATTC
483597 AATATAATATAAACTTAATATCACCCTATTTAATTACAAATATTTAAATCAAAATTTAGTTCTGA
1 AATATAATATAAACTTAATATCACCCTATTTAATTACAAATATTTAAATCAAAATTTAGTTCTGA
*
483662 AATTACCTCAATAATAAGGGGAATGCATATGGCTCATTAACGATCGGGCATAAGAAAGGCATGCA
66 AATTACCTCAATAATAAGGGGAATGCATATGGCTCATTAACGACCGGGCATAAGAAAGGCATGCA
*
483727 GAACCACGCCCATGATTGGAGAAGCAGGAGACATCTACCGATAGCAGTTTTATTATAATTC
131 GAACCACGCCCATGATTGGAGAAGCAGGAGACATCCACCGATAGCAGTTTTATTATAATTC
483788 GTTGTACGAT
Statistics
Matches: 189, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
191 189 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (191 bp):
AATATAATATAAACTTAATATCACCCTATTTAATTACAAATATTTAAATCAAAATTTAGTTCTGA
AATTACCTCAATAATAAGGGGAATGCATATGGCTCATTAACGACCGGGCATAAGAAAGGCATGCA
GAACCACGCCCATGATTGGAGAAGCAGGAGACATCCACCGATAGCAGTTTTATTATAATTC
Found at i:484617 original size:25 final size:24
Alignment explanation
Indices: 484573--484619 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
484563 CAATTAGCAC
484573 AAATAATAATTAATTAATAAATTT
1 AAATAATAATTAATTAATAAATTT
484597 AAATAAATAA-TAATTATATAAAT
1 AAAT-AATAATTAATTA-ATAAAT
484620 ATTATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAATAATAATTAATTAATAAATTT
Found at i:484632 original size:23 final size:23
Alignment explanation
Indices: 484612--484660 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
484602 AATAATAATT
484612 ATATAAATATTATTTTAATAAAAA
1 ATAT-AATATTATTTTAATAAAAA
484636 ATATAATATTATTTT--TAAAAA
1 ATATAATATTATTTTAATAAAAA
484657 ATAT
1 ATAT
484661 TTATAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.40
23 11 0.44
24 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATAATATTATTTTAATAAAAA
Found at i:484640 original size:26 final size:25
Alignment explanation
Indices: 484602--484660 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 25
484592 AATTTAAATA
* *
484602 AATAATAATTATATAAATATTATTTT
1 AATAAAAAATATAT-AATATTATTTT
484628 AAT-AAAAA-ATATAATATTATTTT
1 AATAAAAAATATATAATATTATTTT
484651 --TAAAAAATAT
1 AATAAAAAATAT
484661 TTATAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
21 1 0.03
22 5 0.17
23 13 0.45
24 4 0.14
25 3 0.10
26 3 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
AATAAAAAATATATAATATTATTTT
Found at i:484667 original size:34 final size:34
Alignment explanation
Indices: 484629--484694 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
484619 TATTATTTTA
* *
484629 ATAAAAAATATAA-TATTATTTTTAAAAAATATTT
1 ATAAAAAATATAACAACTA-TTTTAAAAAATATTT
484663 ATAAAAAATATAACAACTATTTTAAAAAATAT
1 ATAAAAAATATAACAACTATTTTAAAAAATAT
484695 ACTAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 26 0.90
35 3 0.10
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (34 bp):
ATAAAAAATATAACAACTATTTTAAAAAATATTT
Found at i:495877 original size:31 final size:30
Alignment explanation
Indices: 495803--495877 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 30
495793 GGGGCCTACG
*
495803 AGCCTACCCAAGAAAATTCTCGGGGCCATA
1 AGCCTACCCAAGAAAAATCTCGGGGCCATA
* *
495833 GAGGCATACCCAAGAAAAATCTCAGGGTCGCAT-
1 -A-GCCTACCCAAGAAAAATCTC-GGGGC-CATA
495866 AGCCTACCCAAG
1 AGCCTACCCAAG
495878 GGTTGCCTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
31 11 0.30
32 19 0.51
33 4 0.11
34 3 0.08
ACGTcount: A:0.35, C:0.29, G:0.21, T:0.15
Consensus pattern (30 bp):
AGCCTACCCAAGAAAAATCTCGGGGCCATA
Found at i:498154 original size:16 final size:16
Alignment explanation
Indices: 498133--498165 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
498123 AAAATCAGGA
*
498133 TTGAGTCTCTGAATTT
1 TTGAGTCTATGAATTT
498149 TTGAGTCTATGAATTT
1 TTGAGTCTATGAATTT
498165 T
1 T
498166 CTACACTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.09, G:0.18, T:0.52
Consensus pattern (16 bp):
TTGAGTCTATGAATTT
Found at i:499319 original size:37 final size:37
Alignment explanation
Indices: 499275--499361 Score: 147
Period size: 37 Copynumber: 2.4 Consensus size: 37
499265 AAAATAGAAG
*
499275 AAAATTGAATTATGAAAATAGAGGACCATCTAAAATT
1 AAAATTGAATTATGAAAATAGAAGACCATCTAAAATT
*
499312 AAAATTGAATTATGAAAATGGAAGACCATCTAAAATT
1 AAAATTGAATTATGAAAATAGAAGACCATCTAAAATT
*
499349 AAAATCGAATTAT
1 AAAATTGAATTAT
499362 TGTGTTTTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.28
Consensus pattern (37 bp):
AAAATTGAATTATGAAAATAGAAGACCATCTAAAATT
Found at i:500411 original size:68 final size:69
Alignment explanation
Indices: 500328--500466 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
500318 TACTTTATAT
500328 ATTTAGGAATAATTACAA-AATACCCCTCTATATATTATTTTTTTCAATTAAATCACTGTCCTTC
1 ATTTAGGAATAATTACAATAATACCCCTCTATATATTATTTTTTTCAATTAAATCACTGTCCTTC
500392 TTAA
66 TTAA
500396 ATTTAGGAATAATTACAATAATACCCCTCTATATATTATTTTTTTCAATTAAATCACTGTCCTTC
1 ATTTAGGAATAATTACAATAATACCCCTCTATATATTATTTTTTTCAATTAAATCACTGTCCTTC
500461 TTAA
66 TTAA
500465 AT
1 AT
500467 AAAAATAATT
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 18 0.26
69 52 0.74
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.43
Consensus pattern (69 bp):
ATTTAGGAATAATTACAATAATACCCCTCTATATATTATTTTTTTCAATTAAATCACTGTCCTTC
TTAA
Found at i:505234 original size:2 final size:2
Alignment explanation
Indices: 505227--505275 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
505217 TGTCCACCGT
505227 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
505269 TA TA TA T
1 TA TA TA T
505276 TAATTTCTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:507973 original size:20 final size:20
Alignment explanation
Indices: 507924--507973 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
507914 CGATTTTCCA
*
507924 AATTTGCAACGCGAATATGT
1 AATTCGCAACGCGAATATGT
* * *
507944 AAATCACAACGCGAATTTGT
1 AATTCGCAACGCGAATATGT
507964 AATTCGCAAC
1 AATTCGCAAC
507974 ACAGAAGTCA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (20 bp):
AATTCGCAACGCGAATATGT
Found at i:508172 original size:22 final size:22
Alignment explanation
Indices: 508146--508196 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
508136 CTACGGCGAC
*
508146 ATCCGTCCCCATATCCTACGAA
1 ATCCGTCCCCATATCCGACGAA
* *
508168 ATCCGTCCCCATCTCCGGCGAA
1 ATCCGTCCCCATATCCGACGAA
508190 ATCCGTC
1 ATCCGTC
508197 TATCTCCATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.43, G:0.14, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATATCCGACGAA
Found at i:508203 original size:20 final size:21
Alignment explanation
Indices: 508139--508196 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
508129 TCATTCTCTA
* *
508139 CGGCGACATCCGTCCCCATATC
1 CGGCGAAATCCGT-CCCATCTC
**
508161 CTACGAAATCCGTCCCCATCTC
1 CGGCGAAATCCGT-CCCATCTC
508183 CGGCGAAATCCGTC
1 CGGCGAAATCCGTC
508197 TATCTCCATC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.21, C:0.43, G:0.17, T:0.19
Consensus pattern (21 bp):
CGGCGAAATCCGTCCCATCTC
Found at i:510289 original size:21 final size:21
Alignment explanation
Indices: 510264--510304 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
510254 GTTATGTAAT
* *
510264 GAGGTCAATGCTTTGCGTGAG
1 GAGGTCAATACTTTACGTGAG
*
510285 GAGGTCTATACTTTACGTGA
1 GAGGTCAATACTTTACGTGA
510305 AGGCAATGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.15, G:0.32, T:0.32
Consensus pattern (21 bp):
GAGGTCAATACTTTACGTGAG
Found at i:510403 original size:21 final size:21
Alignment explanation
Indices: 510379--510437 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
510369 AACAATGGTG
*
510379 CTTTACGTGGTGAGGTATCTA
1 CTTTACGTGATGAGGTATCTA
*
510400 CTTTACGTGTTGAGGTATCTA
1 CTTTACGTGATGAGGTATCTA
510421 CTTTACGTGATGAGGTA
1 CTTTACGTGATGAGGTA
510438 GCCGCTCTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (21 bp):
CTTTACGTGATGAGGTATCTA
Found at i:510779 original size:42 final size:42
Alignment explanation
Indices: 510733--510851 Score: 139
Period size: 42 Copynumber: 2.8 Consensus size: 42
510723 GATTCACCTG
* * *
510733 TCATCATTCAAGAGGCCTCTCCTATCATTCAAGAGGCCCCTA
1 TCATCATTCAAGAGGCCCCTCCCACCATTCAAGAGGCCCCTA
* * *
510775 TCATCCTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTG
1 TCATCATTCAAGAGGCCCCTCCCACCATTCAAGAGGCCCCTA
* * * * *
510817 TCATCGTTCAAGAGGTCCCTTCCACCGTTCGAGAG
1 TCATCATTCAAGAGGCCCCTCCCACCATTCAAGAG
510852 CCTGATTCAC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (42 bp):
TCATCATTCAAGAGGCCCCTCCCACCATTCAAGAGGCCCCTA
Found at i:510824 original size:21 final size:21
Alignment explanation
Indices: 510729--510836 Score: 110
Period size: 21 Copynumber: 5.1 Consensus size: 21
510719 GCCCGATTCA
510729 CCTGTCATCATTCAAGAGGCC
1 CCTGTCATCATTCAAGAGGCC
* *
510750 TCT-CCTATCATTCAAGAGGCC
1 CCTGTC-ATCATTCAAGAGGCC
* *
510771 CCTATCATCCTTCAAGAGGCC
1 CCTGTCATCATTCAAGAGGCC
** * *
510792 CCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCATTCAAGAGGCC
* *
510813 CCTGTCATCGTTCAAGAGGTC
1 CCTGTCATCATTCAAGAGGCC
510834 CCT
1 CCT
510837 TCCACCGTTC
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
20 1 0.01
21 70 0.97
22 1 0.01
ACGTcount: A:0.21, C:0.37, G:0.18, T:0.24
Consensus pattern (21 bp):
CCTGTCATCATTCAAGAGGCC
Found at i:510845 original size:21 final size:21
Alignment explanation
Indices: 510760--510851 Score: 98
Period size: 21 Copynumber: 4.4 Consensus size: 21
510750 TCTCCTATCA
510760 TTCAAGAGGCCCCTATCATCC-
1 TTCAAGAGGCCCCTATCA-CCG
**
510781 TTCAAGAGGCCCCTCCCACCG
1 TTCAAGAGGCCCCTATCACCG
* *
510802 TTCAAGAGGCCCCTGTCATCG
1 TTCAAGAGGCCCCTATCACCG
*
510823 TTCAAGAGGTCCCT-TCCACCG
1 TTCAAGAGGCCCCTAT-CACCG
*
510844 TTCGAGAG
1 TTCAAGAG
510852 CCTGATTCAC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
20 3 0.05
21 58 0.95
ACGTcount: A:0.21, C:0.37, G:0.21, T:0.22
Consensus pattern (21 bp):
TTCAAGAGGCCCCTATCACCG
Found at i:511875 original size:6 final size:6
Alignment explanation
Indices: 511864--511895 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
511854 TATCTCCCAC
511864 AGATAG AGATAG AGATAG AGATAG AGATAG AG
1 AGATAG AGATAG AGATAG AGATAG AGATAG AG
511896 CTGCCTACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.34, T:0.16
Consensus pattern (6 bp):
AGATAG
Found at i:512234 original size:64 final size:64
Alignment explanation
Indices: 512156--512304 Score: 253
Period size: 64 Copynumber: 2.3 Consensus size: 64
512146 AAATTGATGT
512156 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
1 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
* * ***
512220 ATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTTTTGCTTGTTTAATTG
1 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
512284 ATTTGTAAAAGTTGATTTGTT
1 ATTTGTAAAAGTTGATTTGTT
512305 ATTTTAAATT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 80 1.00
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.52
Consensus pattern (64 bp):
ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
Found at i:512400 original size:20 final size:20
Alignment explanation
Indices: 512372--512433 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
512362 CTTTCGCAAC
512372 GCGAAAGTCAAATTTGCGTT
1 GCGAAAGTCAAATTTGCGTT
* * **
512392 GCGATAGTCAAATTCGCAAT
1 GCGAAAGTCAAATTTGCGTT
* *
512412 GTGAAAGTCAAATTTGTGTT
1 GCGAAAGTCAAATTTGCGTT
512432 GC
1 GC
512434 AATTTCGCGT
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (20 bp):
GCGAAAGTCAAATTTGCGTT
Found at i:514997 original size:24 final size:26
Alignment explanation
Indices: 514944--515001 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 26
514934 CTGAAACATC
*
514944 ATCAAAATCCGAGTGTATTGAACAAG
1 ATCAAATTCCGAGTGTATTGAACAAG
* *
514970 ATCAAATTCC-AG-GTATTGACCAAT
1 ATCAAATTCCGAGTGTATTGAACAAG
514994 ATCAAATT
1 ATCAAATT
515002 TTGAATACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 18 0.62
25 2 0.07
26 9 0.31
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (26 bp):
ATCAAATTCCGAGTGTATTGAACAAG
Found at i:515789 original size:14 final size:15
Alignment explanation
Indices: 515753--515790 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
515743 GAAATCATTG
515753 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
515768 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
515783 AAAAATTA
1 AAAAATTA
515791 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:515971 original size:20 final size:19
Alignment explanation
Indices: 515927--515995 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
515917 CAAAACATTT
*
515927 GTGTTGTGAAATTAAAA-C
1 GTGTTGCGAAATTAAAATC
*
515945 CTGTTGCGAAATTAAAATTC
1 GTGTTGCGAAATTAAAA-TC
515965 GTGTTGCG-AATTCGAAAATC
1 GTGTTGCGAAATT--AAAATC
*
515985 GAGTTGCGAAA
1 GTGTTGCGAAA
515996 ACAAAATTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
18 15 0.36
19 4 0.10
20 17 0.40
21 6 0.14
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (19 bp):
GTGTTGCGAAATTAAAATC
Found at i:515992 original size:40 final size:40
Alignment explanation
Indices: 515947--516034 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
515937 ATTAAAACCT
** * *
515947 GTTGCGAAATTAAAATTCGTGTTGCGAATTC-GAAAATCGA
1 GTTGCGAAAACAAAATTCGCGTTGCGAATTCAG-AAATCAA
*
515987 GTTGCGAAAACAAAATTTGCGTTGCGAATTCAGAAATCAA
1 GTTGCGAAAACAAAATTCGCGTTGCGAATTCAGAAATCAA
516027 GTTGCGAA
1 GTTGCGAA
516035 TTTGGAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 41 0.98
41 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (40 bp):
GTTGCGAAAACAAAATTCGCGTTGCGAATTCAGAAATCAA
Found at i:537394 original size:48 final size:48
Alignment explanation
Indices: 537338--537431 Score: 143
Period size: 48 Copynumber: 2.0 Consensus size: 48
537328 AAACTGAGAC
* * *
537338 TGAGGGTGCTTAGGGTGAGGCTGAGAAGTCTAAAACTGAGGGTGAGGG
1 TGAGGGTGCTGAGGATGAGGATGAGAAGTCTAAAACTGAGGGTGAGGG
* *
537386 TGAGGGTGCTGATGATGAGGATGAGAAGTCTAAAATTGAGGGTGAG
1 TGAGGGTGCTGAGGATGAGGATGAGAAGTCTAAAACTGAGGGTGAG
537432 TGTAACATCC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.28, C:0.06, G:0.44, T:0.22
Consensus pattern (48 bp):
TGAGGGTGCTGAGGATGAGGATGAGAAGTCTAAAACTGAGGGTGAGGG
Found at i:538114 original size:21 final size:21
Alignment explanation
Indices: 538072--538114 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
538062 TTTCTGGGCT
* * *
538072 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
538093 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
538114 A
1 A
538115 ACGAACCAGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:539771 original size:23 final size:23
Alignment explanation
Indices: 539721--539776 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
539711 CACTATGATG
*
539721 CAATTCTACGCGGCACTCCAGTG
1 CAATTCTACGCGGCACTCCAGTA
* * * *
539744 TAATTCTACGTGGCACTTCGGTA
1 CAATTCTACGCGGCACTCCAGTA
*
539767 CAATTATACG
1 CAATTCTACG
539777 AGCTGTGGTG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (23 bp):
CAATTCTACGCGGCACTCCAGTA
Found at i:545021 original size:23 final size:23
Alignment explanation
Indices: 544985--545052 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
544975 ATTATTATAT
544985 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * * *
545008 GGCACTCCGTTGCAATTCTATGT
1 GGCACTACGGTGCAATTCTACGC
* *
545031 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
545053 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:545847 original size:15 final size:15
Alignment explanation
Indices: 545827--545862 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
545817 TAACAATGAA
545827 GGTGAGGGTGCTAAG
1 GGTGAGGGTGCTAAG
545842 GGTGAGGGTGCTAAG
1 GGTGAGGGTGCTAAG
545857 GGTGAG
1 GGTGAG
545863 ACTGACAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.19, C:0.06, G:0.56, T:0.19
Consensus pattern (15 bp):
GGTGAGGGTGCTAAG
Found at i:550096 original size:16 final size:19
Alignment explanation
Indices: 550075--550121 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
550065 AAATTAAACT
550075 TATTAAAAA-TAAT-AAAA
1 TATTAAAAATTAATCAAAA
550092 T-TTAAAAATTAATCAAAA
1 TATTAAAAATTAATCAAAA
*
550110 TATTAATAATTA
1 TATTAAAAATTA
550122 TCGTAAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 7 0.27
17 5 0.19
18 5 0.19
19 9 0.35
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
TATTAAAAATTAATCAAAA
Found at i:550120 original size:19 final size:17
Alignment explanation
Indices: 550075--550121 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
550065 AAATTAAACT
*
550075 TATTAAAAATAATAAAA
1 TATTAAAATTAATAAAA
550092 T-TTAAAAATTAATCAAAA
1 TATT-AAAATTAAT-AAAA
550110 TATTAATAATTA
1 TATTAA-AATTA
550122 TCGTAAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 2 0.08
17 9 0.36
18 7 0.28
19 7 0.28
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
TATTAAAATTAATAAAA
Found at i:550699 original size:3 final size:3
Alignment explanation
Indices: 550634--550679 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
550624 TTCATTTTAA
**
550634 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
550680 ATAATAATAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:552418 original size:17 final size:18
Alignment explanation
Indices: 552387--552420 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
552377 CTTACTATAT
*
552387 TAAAATAAATTTTTGTCA
1 TAAAATAAATGTTTGTCA
552405 TAAAA-AAATGTTTGTC
1 TAAAATAAATGTTTGTC
552421 CTTTATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (18 bp):
TAAAATAAATGTTTGTCA
Found at i:553013 original size:24 final size:25
Alignment explanation
Indices: 552985--553035 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
552975 TATTTATAAT
552985 TTTTTTATA-TATATATACATATTA
1 TTTTTTATAGTATATATACATATTA
* *
553009 -TTTTTATAGTATTTATATATATTA
1 TTTTTTATAGTATATATACATATTA
553033 TTT
1 TTT
553036 ATATTTCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 13 0.57
25 2 0.09
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTTTTATAGTATATATACATATTA
Found at i:557702 original size:19 final size:22
Alignment explanation
Indices: 557678--557725 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
557668 TCCAGCAAAG
*
557678 AAAAAAGAGG-AA-AAA-AGAA
1 AAAAAAAAGGAAAGAAATAGAA
557697 AAAAAAAAGGAAAGAAATAGAA
1 AAAAAAAAGGAAAGAAATAGAA
557719 AAAAAAA
1 AAAAAAA
557726 TTAAATCAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 9 0.36
20 2 0.08
21 3 0.12
22 11 0.44
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (22 bp):
AAAAAAAAGGAAAGAAATAGAA
Found at i:562811 original size:22 final size:22
Alignment explanation
Indices: 562782--562836 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
562772 ATCTACACTC
562782 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
562804 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
562826 TTCAAAGATGA
1 TTCAAAGATGA
562837 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:563638 original size:76 final size:76
Alignment explanation
Indices: 563512--564197 Score: 1212
Period size: 76 Copynumber: 9.0 Consensus size: 76
563502 CTATTTCTCA
* *
563512 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAGGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
563577 ATCATTCGGGT
66 AGCCTTCGGGT
*
563588 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
563653 ATCCTTCGGGT
66 AGCCTTCGGGT
*
563664 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
563729 AGCCTTCGGGT
66 AGCCTTCGGGT
563740 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
563805 ATCCTTCAGGT
66 AGCCTTCGGGT
*
563816 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
563881 AACCTTCGGGT
66 AGCCTTCGGGT
*
563892 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
563957 AACCTTCGGGT
66 AGCCTTCGGGT
563968 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
564033 AGCCTTCAGGT
66 AGCCTTCGGGT
564044 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
564109 AGCCTTCGGGT
66 AGCCTTCGGGT
*
564120 CATCTGTAAGCCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
564184 ACCCTTAGGGT
66 AGCCTTCGGGT
564195 CAT
1 CAT
564198 TCATAAGACC
Statistics
Matches: 592, Mismatches: 18, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
75 13 0.02
76 579 0.98
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:564358 original size:3 final size:3
Alignment explanation
Indices: 564350--564419 Score: 86
Period size: 3 Copynumber: 23.0 Consensus size: 3
564340 TTCATTTTAA
**
564350 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
564398 AAT AGT AAT ATT ATTT ATT ATT
1 ATT ATT ATT ATT A-TT ATT ATT
564420 TAAATATTAC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
3 55 0.95
4 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:564425 original size:18 final size:18
Alignment explanation
Indices: 564350--564428 Score: 81
Period size: 18 Copynumber: 4.2 Consensus size: 18
564340 TTCATTTTAA
564350 ATTATTATTATTA-AAATT
1 ATTATTATTATTATAAA-T
* *
564368 ATTATTATTATTATTATT
1 ATTATTATTATTATAAAT
564386 ATTATTATTATTAATAGTAAT
1 ATTATTATTATT-ATA--AAT
564407 ATTATTTATTATT-TAAAT
1 ATTA-TTATTATTATAAAT
564425 ATTA
1 ATTA
564429 CAAAGCCCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 33 0.63
19 3 0.06
20 2 0.04
21 6 0.12
22 8 0.15
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (18 bp):
ATTATTATTATTATAAAT
Found at i:569201 original size:25 final size:27
Alignment explanation
Indices: 569166--569232 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 27
569156 CCCCCACCGT
*
569166 TAAAAATTTAA-A-TACTAAAATGAAA
1 TAAAAAGTTAATAGTACTAAAATGAAA
569191 TAAAAAGTTAACAATATGTACTAAAATGAAA
1 TAAAAAGTT---AATA-GTACTAAAATGAAA
569222 TAAAAAGTTAA
1 TAAAAAGTTAA
569233 CAATGGGTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
25 8 0.23
28 4 0.11
29 1 0.03
31 22 0.63
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.27
Consensus pattern (27 bp):
TAAAAAGTTAATAGTACTAAAATGAAA
Found at i:569213 original size:31 final size:31
Alignment explanation
Indices: 569178--569257 Score: 133
Period size: 31 Copynumber: 2.6 Consensus size: 31
569168 AAAATTTAAA
*
569178 TACTAAAATGAAATAAAAAGTTAACAATATG
1 TACTAAAATGAAATAAAAAGTTAACAATAGG
*
569209 TACTAAAATGAAATAAAAAGTTAACAATGGG
1 TACTAAAATGAAATAAAAAGTTAACAATAGG
*
569240 TACTAAAATAAAATAAAA
1 TACTAAAATGAAATAAAA
569258 TTAAATTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.24
Consensus pattern (31 bp):
TACTAAAATGAAATAAAAAGTTAACAATAGG
Found at i:571830 original size:20 final size:20
Alignment explanation
Indices: 571805--571885 Score: 84
Period size: 20 Copynumber: 4.3 Consensus size: 20
571795 TATATTGGAC
571805 TATGAATCTGAAAGTAAAGT
1 TATGAATCTGAAAGTAAAGT
571825 TATGAATCTGAAA-TAAA-T
1 TATGAATCTGAAAGTAAAGT
*
571843 TATGAAT-T--TAG-AAAGT
1 TATGAATCTGAAAGTAAAGT
*
571859 TATGAATCTGAAAATGAAAGT
1 TATGAATCTGAAAGT-AAAGT
*
571880 TTTGAA
1 TATGAA
571886 ATATATCTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
15 4 0.08
16 8 0.16
17 2 0.04
18 8 0.16
19 5 0.10
20 13 0.26
21 10 0.20
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (20 bp):
TATGAATCTGAAAGTAAAGT
Found at i:572481 original size:26 final size:26
Alignment explanation
Indices: 572452--572507 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
572442 ATTAAACTCT
572452 TATTAATTTGA-GTGATCTAA-ATATTA
1 TATT-ATTTGACGTGA-CTAATATATTA
* *
572478 TATTATTTTACGTGACTAATTTATTA
1 TATTATTTGACGTGACTAATATATTA
572504 TATT
1 TATT
572508 GAAATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.34, C:0.05, G:0.09, T:0.52
Consensus pattern (26 bp):
TATTATTTGACGTGACTAATATATTA
Found at i:574558 original size:2 final size:2
Alignment explanation
Indices: 574551--574606 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
574541 TAATTGGTGT
574551 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
574593 TA T- TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
574607 CCCTATTAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:574897 original size:48 final size:46
Alignment explanation
Indices: 574825--574933 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 46
574815 CCAAACAACG
* *
574825 GAAAATAT-TTTTCATAAATGTAAATTATTTTTCAGAATTTATTTTTT
1 GAAAA-ATGTTTTCATAAATATAAATCATTTTTCAGAATTTA-TTTTT
*
574872 GAAAAATGTTTTCTATAAATATAAATCATTTTTCATAATTTATTTTT
1 GAAAAATGTTTTC-ATAAATATAAATCATTTTTCAGAATTTATTTTT
*
574919 CAGAAAATGTTTTCA
1 GA-AAAATGTTTTCA
574934 GTGAAACAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
46 2 0.04
47 17 0.31
48 36 0.65
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (46 bp):
GAAAAATGTTTTCATAAATATAAATCATTTTTCAGAATTTATTTTT
Found at i:575117 original size:20 final size:20
Alignment explanation
Indices: 575075--575121 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
575065 AACACATACC
* *
575075 AAAATTATTATTTAACATAT
1 AAAATTATTAATTAAAATAT
575095 AAAATTATTAAATTAAAAT-T
1 AAAATTATT-AATTAAAATAT
575115 AAAATTA
1 AAAATTA
575122 AATAATTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATTATTAATTAAAATAT
Found at i:575882 original size:16 final size:16
Alignment explanation
Indices: 575858--575895 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
575848 TAATAAATAA
575858 ACAAACATAAACGAAC
1 ACAAACATAAACGAAC
*
575874 ACAATCATAAACGAAC
1 ACAAACATAAACGAAC
*
575890 ATAAAC
1 ACAAAC
575896 GTTGGAGACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.61, C:0.24, G:0.05, T:0.11
Consensus pattern (16 bp):
ACAAACATAAACGAAC
Found at i:576847 original size:20 final size:20
Alignment explanation
Indices: 576814--576861 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
576804 AACATAAATG
* *
576814 AATGAACATACACGAACATA
1 AATGAACGTTCACGAACATA
* *
576834 ACTGAACGTTCACGAACGTA
1 AATGAACGTTCACGAACATA
576854 AATGAACG
1 AATGAACG
576862 AATGAGACCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.46, C:0.21, G:0.17, T:0.17
Consensus pattern (20 bp):
AATGAACGTTCACGAACATA
Found at i:578827 original size:3 final size:3
Alignment explanation
Indices: 578819--578878 Score: 93
Period size: 3 Copynumber: 19.7 Consensus size: 3
578809 TTAAAAAATA
*
578819 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT TACT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
*
578865 TAG TAT TAT TAT TA
1 TAT TAT TAT TAT TA
578879 ATTTATATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:579852 original size:18 final size:19
Alignment explanation
Indices: 579817--579866 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 19
579807 CCTAAGGTTT
579817 TTTTAATATTCTTAATTTTTTA
1 TTTT-ATATT-TT-ATTTTTTA
579839 TTTT-TATTTTATTTTTTA
1 TTTTATATTTTATTTTTTA
579857 TTTTATATTT
1 TTTTATATTT
579867 ACATATTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 12 0.44
19 7 0.26
20 4 0.15
22 4 0.15
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTATATTTTATTTTTTA
Found at i:579854 original size:12 final size:12
Alignment explanation
Indices: 579834--579862 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
579824 ATTCTTAATT
579834 TTTTA-TTTTTA
1 TTTTATTTTTTA
579845 TTTTATTTTTTA
1 TTTTATTTTTTA
579857 TTTTAT
1 TTTTAT
579863 ATTTACATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:583963 original size:100 final size:101
Alignment explanation
Indices: 583773--583968 Score: 279
Period size: 100 Copynumber: 2.0 Consensus size: 101
583763 GGGCTTCCCA
* * *
583773 ATTTCAGAGCCAATTTCAACATCACAACGAAGGATATTGGACCCAAGATAACACAAGCTCAACTT
1 ATTTCAGAGCCAATGTCAACATCACAACGAAGGATATTAGACCCAAGACAACACAAGCTCAACTT
*
583838 CACGACGAAGGGGCGGCTGATTGTCAACAAAATTTC
66 CACGACGAAGGGGCGGCTGACTGTCAACAAAATTTC
* * * * * *
583874 ATTT-AGAGTCAATGTCAACTTCACAACGAATGATATTAGACTCGAGACAGCACAAGCTCAACTT
1 ATTTCAGAGCCAATGTCAACATCACAACGAAGGATATTAGACCCAAGACAACACAAGCTCAACTT
583938 CAC-AGCGAAGGGGCGGCTGACTGTCAACAAA
66 CACGA-CGAAGGGGCGGCTGACTGTCAACAAA
583969 TAATTTCCCA
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
99 1 0.01
100 79 0.94
101 4 0.05
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (101 bp):
ATTTCAGAGCCAATGTCAACATCACAACGAAGGATATTAGACCCAAGACAACACAAGCTCAACTT
CACGACGAAGGGGCGGCTGACTGTCAACAAAATTTC
Found at i:584778 original size:80 final size:80
Alignment explanation
Indices: 584634--584784 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
584624 GAAACACCAA
*
584634 ACCTTCGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAG
1 ACCTTCGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAG
584699 GGCTATTTGCCAAAG
66 GGCTATTTGCCAAAG
* * * * * * * *
584714 ACCTTCGAGTTTG-TCTACGCTCAGCTCCGAGGCACATCATTTGTAGCATAACTTAAGTCGAGAA
1 ACCTTCGAGTTCGAT-TACACTCAGCTCCAAGGCACATCATTTGCAACATAACTCAAGGCAAGAA
584778 GGGCTAT
65 GGGCTAT
584785 CTGCAAACCA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
79 1 0.02
80 60 0.98
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (80 bp):
ACCTTCGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAG
GGCTATTTGCCAAAG
Found at i:585055 original size:3 final size:3
Alignment explanation
Indices: 585047--585120 Score: 130
Period size: 3 Copynumber: 24.3 Consensus size: 3
585037 AATATATTAC
585047 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
*
585096 ATT ATT ATT ATT AGT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
585121 ATTTATAGAG
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 65 0.96
4 3 0.04
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:585290 original size:21 final size:20
Alignment explanation
Indices: 585264--585325 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
585254 CGCAAATCAG
*
585264 TTTCCAGATTCGCAACGCGAT
1 TTTCCA-ATTCGCAATGCGAT
**
585285 TTTCCAATTTCGCGTTGCGAT
1 TTTCCAA-TTCGCAATGCGAT
585306 TTTCCCAATTCGCAATGCGA
1 TTT-CCAATTCGCAATGCGA
585326 ATAAGTAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.03
21 29 0.85
22 4 0.12
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (20 bp):
TTTCCAATTCGCAATGCGAT
Found at i:585358 original size:21 final size:20
Alignment explanation
Indices: 585315--585366 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
585305 TTTTCCCAAT
*
585315 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
**
585335 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TAAGAAAA
*
585356 TCGTAATGCGA
1 TCGCAATGCGA
585367 TACTGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:585429 original size:20 final size:20
Alignment explanation
Indices: 585400--585509 Score: 148
Period size: 20 Copynumber: 5.5 Consensus size: 20
585390 TACAAAATTA
*
585400 CAACGTGATACTGACTTTCG
1 CAACGCGATACTGACTTTCG
585420 CAACGCGATACTGACTTTCG
1 CAACGCGATACTGACTTTCG
*
585440 CAACGCGATTCTGACTTTCG
1 CAACGCGATACTGACTTTCG
* *
585460 CAACACGATTCTGACTTTCG
1 CAACGCGATACTGACTTTCG
* * *
585480 CAACGAGATTCTGACTATCG
1 CAACGCGATACTGACTTTCG
*
585500 CAACGAGATA
1 CAACGCGATA
585510 ATACAGAATC
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 83 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (20 bp):
CAACGCGATACTGACTTTCG
Found at i:585682 original size:12 final size:12
Alignment explanation
Indices: 585663--585696 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
585653 CTCTCCGGCG
585663 ACATCCGTTCCT
1 ACATCCGTTCCT
*
585675 ATATCCGTTCCT
1 ACATCCGTTCCT
585687 ACATCC-TTCC
1 ACATCCGTTCC
585697 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:586149 original size:21 final size:21
Alignment explanation
Indices: 586080--586149 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
586070 CATGTGAATC
*
586080 GGACTCTTGAATGGTGGGA-G
1 GGACTCTTGAACGGTGGGAGG
* * ** *
586100 GGACCTCTTCAACGATGACAGA
1 GGA-CTCTTGAACGGTGGGAGG
*
586122 GGCCTCTTGAACGGTGGGAGG
1 GGACTCTTGAACGGTGGGAGG
586143 GGACTCT
1 GGACTCT
586150 CGAGGAATGA
Statistics
Matches: 35, Mismatches: 13, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
20 3 0.09
21 30 0.86
22 2 0.06
ACGTcount: A:0.21, C:0.20, G:0.37, T:0.21
Consensus pattern (21 bp):
GGACTCTTGAACGGTGGGAGG
Found at i:586168 original size:42 final size:41
Alignment explanation
Indices: 586083--586204 Score: 111
Period size: 42 Copynumber: 2.9 Consensus size: 41
586073 GTGAATCGGA
* * *
586083 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGAGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGAGGC
* *
586125 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGAGGC
* * * * *
586167 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAG
586205 GTGAGTCGGG
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 56 0.85
43 6 0.09
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.21
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGAGGC
Done.