Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004714.1 Hibiscus syriacus cultivar Beakdansim tig00010624_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: 152652
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1406 original size:9 final size:9
Alignment explanation
Indices: 1394--1418 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1384 ATCACCATCA
1394 TCGTCGTTG
1 TCGTCGTTG
1403 TCGTCGTTG
1 TCGTCGTTG
1412 TCGTCGT
1 TCGTCGT
1419 CCTGAGCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.24, G:0.32, T:0.44
Consensus pattern (9 bp):
TCGTCGTTG
Found at i:3518 original size:17 final size:18
Alignment explanation
Indices: 3475--3515 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
3465 AAATTATATT
3475 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
3492 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
3510 ATTAAA
1 AGTAAA
3516 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:3862 original size:51 final size:50
Alignment explanation
Indices: 3759--3888 Score: 136
Period size: 51 Copynumber: 2.5 Consensus size: 50
3749 CCCCTACGTG
* **
3759 GCGTATAGCGCGGATCAGGGGGCGCGCTATACACACATGTAACCCATGTCA
1 GCGTATAGCGCGGA-CAGGGGGCGCGCTATACACACACGTAACCCAAATCA
* **
3810 GCGTATAGCGCGGTACAGGGGGCGCGCTATAC-CCCACGTGGCGCCAAATCA
1 GCGTATAGCGCGG-ACAGGGGGCGCGCTATACACACACGTAAC-CCAAATCA
* * *
3861 GCATATAGCGCGGGGCAGGAGGCGCGCT
1 GCGTATAGCGC-GGACAGGGGGCGCGCT
3889 TTACTGCTAC
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
50 6 0.09
51 58 0.87
52 3 0.04
ACGTcount: A:0.22, C:0.28, G:0.35, T:0.15
Consensus pattern (50 bp):
GCGTATAGCGCGGACAGGGGGCGCGCTATACACACACGTAACCCAAATCA
Found at i:3992 original size:3 final size:3
Alignment explanation
Indices: 3984--4025 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
3974 AAAACGCCTA
* *
3984 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4026 GCAAATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:22396 original size:112 final size:112
Alignment explanation
Indices: 22199--22422 Score: 412
Period size: 112 Copynumber: 2.0 Consensus size: 112
22189 TGGTATATTA
22199 TTTGTAAATATTCAAAGAAGAAAGGAAGTGAGAATTCAAATGAAGAGAGAACATAAGTTGTGGGT
1 TTTGTAAATATTCAAAGAAGAAAGGAAGTGAGAATTCAAATGAAGAGAGAACATAAGTTGTGGGT
*
22264 CAGATTGTTTTATAAATGAAATTTAGATTATGATTGTTTACATGTTC
66 CAGATTGTTTTATAAATGAAATTTACATTATGATTGTTTACATGTTC
* *
22311 TTTGTAAATATTCTAAGAAGACAGGAAGTGAGAATTCAAATGAAGAGAGAACATAAGTTGTGGGT
1 TTTGTAAATATTCAAAGAAGAAAGGAAGTGAGAATTCAAATGAAGAGAGAACATAAGTTGTGGGT
*
22376 CAGATTGTTTTATAAATGAAATTTACATTATGATTGTTTATATGTTC
66 CAGATTGTTTTATAAATGAAATTTACATTATGATTGTTTACATGTTC
22423 ATGCGGATCC
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 108 1.00
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (112 bp):
TTTGTAAATATTCAAAGAAGAAAGGAAGTGAGAATTCAAATGAAGAGAGAACATAAGTTGTGGGT
CAGATTGTTTTATAAATGAAATTTACATTATGATTGTTTACATGTTC
Found at i:26621 original size:20 final size:21
Alignment explanation
Indices: 26598--26638 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
26588 TATTATATAT
**
26598 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
26618 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
26639 TAAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:27350 original size:15 final size:15
Alignment explanation
Indices: 27326--27357 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27316 CTCTGGTAAG
27326 TTTCTCTTCTTTCTT
1 TTTCTCTTCTTTCTT
*
27341 TTTCTTTTCTTTCTT
1 TTTCTCTTCTTTCTT
27356 TT
1 TT
27358 CTGTTTTTTT
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:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTCTTCTTTCTT
Found at i:27910 original size:11 final size:11
Alignment explanation
Indices: 27894--27918 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27884 AATTAATTAT
27894 ATATATATTTA
1 ATATATATTTA
27905 ATATATATTTA
1 ATATATATTTA
27916 ATA
1 ATA
27919 ATAATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATATATATTTA
Found at i:27922 original size:3 final size:3
Alignment explanation
Indices: 27914--28005 Score: 148
Period size: 3 Copynumber: 30.7 Consensus size: 3
27904 AATATATATT
* * *
27914 TAA TAA TAA TAA TTA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
27962 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
28006 TGGATAAAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:28646 original size:230 final size:226
Alignment explanation
Indices: 28248--28979 Score: 958
Period size: 230 Copynumber: 3.2 Consensus size: 226
28238 ATAAGCTCTT
* * * * *
28248 GATGAGTTCTTCTCATTATGAACTTTCTCT--ATAATCT-ATCTCCTTCTGTGATAGAATT-ATG
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATC-CATCCAGTGAT-GAATTCA-G
* *
28309 CAAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
63 -AAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
28373 ATTATGAACTCTTCCTGGCAATGTTGATCCATTAAATGATGAATTCAAACCAAAAAGTTGAACAA
127 ATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAACCAAAAGGTTGAACAA
* *
28438 GTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCA
192 ATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
**
28473 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAAATAATCCATCCAGTGATGAATTCAGATA
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCCAGTGATGAATTCAGA-A
*
28538 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTC
65 AAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTC
*
28603 ATTATGAACTCTTCCTGGCAATGTTGATCCATCAAACGATGAATTCAAACCAAAAGGTTGAACAA
127 ATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAACCAAAAGGTTGAACAA
*
28668 ATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCA
192 ATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* * * * * *
28703 GATGACGAGTTCTTCTCATTATGAACTCTTC-CTGGTAATGTTGATCCATCAAATGATGAATTCA
1 GAT---GAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGCTAATCCATCCAGTGATGAATTCA
*
28767 AACCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
62 GA--AAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* *** * * * * *
28832 TCATTATGAACT-TTCTCTGGAAAAAATAATCCATCCAGTGATGAATTCAGA-TAAAAGGTTGAA
125 TCATTATGAACTCTTC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAACCAAAAGGTTGAA
* *
28895 CAAATTCTTCTCATTATGAACTTCTTATTCATTCTTCA
189 CAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
*
28933 GATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTAATCCATC
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATC
28980 AAATGATAGA
Statistics
Matches: 448, Mismatches: 43, Indels: 30
0.86 0.08 0.06
Matches are distributed among these distances:
225 31 0.07
226 13 0.03
227 92 0.21
228 3 0.01
230 160 0.36
231 47 0.10
233 48 0.11
234 54 0.12
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.38
Consensus pattern (226 bp):
GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCCAGTGATGAATTCAGAAA
AAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAACCAAAAGGTTGAACAAATTC
TTCTCATTATGAACTTCTTCTTCCTTCTTCA
Found at i:28692 original size:117 final size:115
Alignment explanation
Indices: 28309--28986 Score: 931
Period size: 117 Copynumber: 5.9 Consensus size: 115
28299 TAGAATTATG
* * * *
28309 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
28374 TTATGAACTCTTC-CTGGCAATGTTGATCCATTAAATGATGAATTCAAAC
66 TTATGAACTCTTCTCTGGAAAAGTTAATCCATCAAATGATGAATTCAAAC
* * *
28423 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
** * * *
28488 TTATGAACT-TTCTCTGGAAAAAATAATCCATCCAGTGATGAATTCAGA-
66 TTATGAACTCTTCTCTGGAAAAGTTAATCCATCAAATGATGAATTCAAAC
*
28536 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTC
* * * *
28601 TCATTATGAACTCTTC-CTGGCAATGTTGATCCATCAAACGATGAATTCAAAC
63 TCATTATGAACTCTTCTCTGGAAAAGTTAATCCATCAAATGATGAATTCAAAC
*
28653 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTC
* * *
28718 TCATTATGAACTCTTC-CTGGTAATGTTGATCCATCAAATGATGAATTCAAAC
63 TCATTATGAACTCTTCTCTGGAAAAGTTAATCCATCAAATGATGAATTCAAAC
*
28770 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
** * * *
28835 TTATGAACT-TTCTCTGGAAAAAATAATCCATCCAGTGATGAATTCAGA-
66 TTATGAACTCTTCTCTGGAAAAGTTAATCCATCAAATGATGAATTCAAAC
* * *
28883 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTATTCATTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
28948 TTATGAAC-CTTCTCTGGAAAAGCTAATCCATCAAATGAT
66 TTATGAACTCTTCTCTGGAAAAGTTAATCCATCAAATGAT
28987 AGATTTGAAT
Statistics
Matches: 511, Mismatches: 45, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
113 150 0.29
114 145 0.28
116 47 0.09
117 169 0.33
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.37
Consensus pattern (115 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCTTCTCTGGAAAAGTTAATCCATCAAATGATGAATTCAAAC
Found at i:30120 original size:86 final size:84
Alignment explanation
Indices: 29638--30114 Score: 777
Period size: 83 Copynumber: 5.7 Consensus size: 84
29628 GTTCTTACCA
29638 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCAAAT
*
29702 TCAATGATTGGTTCTG-CC
66 TCAATGATTAGTTCTGTCC
* * *
29720 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT-AACAAATTCATCTTCTAAA
1 -AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCAAA
* *
29784 TTCAATGATTGGTTCTG-CTA
65 TTCAATGATTAGTTCTGTC-C
* * *
29804 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT-AACAAATTCATCTTCTAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCAAAT
29868 TCAATGATTAGTTCTGTCC
66 TCAATGATTAGTTCTGTCC
29887 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT-ATTCTTCCAAA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCA-TCTTCCAAA
*
29951 TTCAATGATTTGTTCTGTCC
65 TTCAATGATTAGTTCTGTCC
29971 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTGTTCCAA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATC--TTCCAA
30036 ATTCAATGATTAGTTCTGTCC
64 ATTCAATGATTAGTTCTGTCC
30057 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCT
30115 GTTCCAGTTA
Statistics
Matches: 375, Mismatches: 11, Indels: 15
0.94 0.03 0.04
Matches are distributed among these distances:
83 200 0.53
84 91 0.24
85 1 0.00
86 83 0.22
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (84 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCAAAT
TCAATGATTAGTTCTGTCC
Found at i:31253 original size:1 final size:1
Alignment explanation
Indices: 31247--31301 Score: 83
Period size: 1 Copynumber: 55.0 Consensus size: 1
31237 CCTTGACCCC
* * *
31247 TTTTTTTTCTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
31302 CTTCAAGCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.00, C:0.05, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:43407 original size:15 final size:15
Alignment explanation
Indices: 43383--43414 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
43373 CTCTGGTAAG
43383 TTTCTCTTCTTTCTT
1 TTTCTCTTCTTTCTT
*
43398 TTTCTTTTCTTTCTT
1 TTTCTCTTCTTTCTT
43413 TT
1 TT
43415 CTGTTTTTTT
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:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTCTTCTTTCTT
Found at i:43965 original size:11 final size:11
Alignment explanation
Indices: 43942--43973 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
43932 TGTAATTAAT
43942 TATTTATATATA
1 TATTTA-ATATA
43954 TATTTAATATA
1 TATTTAATATA
43965 TATTTAATA
1 TATTTAATA
43974 ATAATAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTAATATA
Found at i:43977 original size:3 final size:3
Alignment explanation
Indices: 43969--44067 Score: 153
Period size: 3 Copynumber: 32.7 Consensus size: 3
43959 AATATATATT
* *
43969 TAA TAA TAA TAA TTA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
44017 TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
44063 TAA TA
1 TAA TA
44068 TGGATAAAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
3 85 0.98
4 2 0.02
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:46296 original size:55 final size:55
Alignment explanation
Indices: 46190--46320 Score: 163
Period size: 55 Copynumber: 2.4 Consensus size: 55
46180 GCATTCAGAT
* * *
46190 GATTCATAAAGAAGAACATTCGACGAATGAAGAAATTTGAACCTGACTGAAGAAC
1 GATTCATAAAGAAGGACATCCGACGAATGAAGAAATTTGAAACTGACTGAAGAAC
* * * * *
46245 GATTCATGAAGAAGGACATCCGATGAATGAAGAAATTTGAAATTGATTGAAGACC
1 GATTCATAAAGAAGGACATCCGACGAATGAAGAAATTTGAAACTGACTGAAGAAC
* * *
46300 GATCCACAAAGAAAGACATCC
1 GATTCATAAAGAAGGACATCC
46321 TGAAGATGTT
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 64 1.00
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.20
Consensus pattern (55 bp):
GATTCATAAAGAAGGACATCCGACGAATGAAGAAATTTGAAACTGACTGAAGAAC
Found at i:47105 original size:72 final size:72
Alignment explanation
Indices: 46983--47132 Score: 273
Period size: 72 Copynumber: 2.1 Consensus size: 72
46973 CCTTATTACA
*
46983 CAAGAAAATATGAAGACTTTGGGTGAGAATCTGAATGTTAGTGGTACAGCCAATGTGATGATAGC
1 CAAGAAAATATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTACAGCCAATGTGATGATAGC
47048 AAATGAT
66 AAATGAT
*
47055 CAAGAAAATATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAGCCAATGTGATGATAGC
1 CAAGAAAATATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTACAGCCAATGTGATGATAGC
*
47120 AACTGAT
66 AAATGAT
47127 CAAGAA
1 CAAGAA
47133 CCTGTTAGGG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.25
Consensus pattern (72 bp):
CAAGAAAATATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTACAGCCAATGTGATGATAGC
AAATGAT
Found at i:53951 original size:103 final size:103
Alignment explanation
Indices: 53726--53943 Score: 409
Period size: 103 Copynumber: 2.1 Consensus size: 103
53716 GTCGAGGGTC
53726 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
53791 TTGATCCCTAGTATATATATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATATATATGATTATTAAGGAATGA
*
53829 TATGTTGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
53894 TTGATCCCTAGTATATGTATATGATTATTAAGGAATGA
66 TTGATCCCTAGTATATATATATGATTATTAAGGAATGA
53932 TATGTGGTCCTT
1 TATGTGGTCCTT
53944 ATGGACATTA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATATATATGATTATTAAGGAATGA
Found at i:54016 original size:23 final size:23
Alignment explanation
Indices: 53959--54019 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
53949 CATTATTATA
*
53959 TGGCACTACGATGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* *
53982 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTACG
*
54005 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
54020 TTTATATGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:54027 original size:23 final size:23
Alignment explanation
Indices: 53950--54027 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
53940 CCTTATGGAC
* *
53950 ATTATTATATGGCACTACGATGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * *
53974 ATTCTACGCGGCACTACGGTGCA
1 ATTATATGTGGCACTACGGTGCA
* *
53997 ATTCTATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
54020 TTTATATG
1 ATTATATG
54028 AGCTGTGGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:60165 original size:17 final size:17
Alignment explanation
Indices: 60126--60159 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
60116 CTTAGTGACA
60126 TGGTCTCTAATGAAGTG
1 TGGTCTCTAATGAAGTG
60143 TGGTCTCTAATGAAGTG
1 TGGTCTCTAATGAAGTG
60160 ATGTCTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (17 bp):
TGGTCTCTAATGAAGTG
Found at i:72182 original size:45 final size:47
Alignment explanation
Indices: 72116--72218 Score: 147
Period size: 45 Copynumber: 2.2 Consensus size: 47
72106 TGTTATTCAC
*
72116 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGC-TTGTTCG
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCG
* *
72162 AAAAATAAA-CCTAACTGCATGATATCTAATTCGCATGCATTTATTCG
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCA-TTATTCG
72209 AAAAACGAAA
1 AAAAA-GAAA
72219 ATAAATGACT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
45 28 0.56
46 8 0.16
47 11 0.22
48 3 0.06
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (47 bp):
AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCG
Found at i:76071 original size:82 final size:82
Alignment explanation
Indices: 75976--76129 Score: 254
Period size: 82 Copynumber: 1.9 Consensus size: 82
75966 AGACAATGAG
* *
75976 TTTTTGTGAATATTATTGGGTTCTTTTGATGTTAGTCATCATTCTCAAGAGAATGTTTCGTTTTT
1 TTTTTATGAATATTAATGGGTTCTTTTGATGTTAGTCATCATTCTCAAGAGAATGTTTCGTTTTT
76041 CTTCATAGATAATAGGT
66 CTTCATAGATAATAGGT
* * * *
76058 TTTTTATGAATATTAATGGGTTCTTTTGATGTTAGTCATCGTTCTTAAGATAATGTTTTGTTTTT
1 TTTTTATGAATATTAATGGGTTCTTTTGATGTTAGTCATCATTCTCAAGAGAATGTTTCGTTTTT
76123 CTTCATA
66 CTTCATA
76130 TATTTGGATT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 66 1.00
ACGTcount: A:0.23, C:0.09, G:0.17, T:0.51
Consensus pattern (82 bp):
TTTTTATGAATATTAATGGGTTCTTTTGATGTTAGTCATCATTCTCAAGAGAATGTTTCGTTTTT
CTTCATAGATAATAGGT
Found at i:77179 original size:3 final size:3
Alignment explanation
Indices: 77171--77201 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
77161 TAAAAAGTCT
77171 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
77202 AAGAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:77218 original size:32 final size:31
Alignment explanation
Indices: 77182--77270 Score: 85
Period size: 31 Copynumber: 2.8 Consensus size: 31
77172 TAATAATAAT
*
77182 AATAATAATAATAATAATAAAAGAAAA-AAAGA
1 AATAA-AATAATAA-AATAAAACAAAAGAAAGA
*
77214 AATAAAACTAA-AAAACTAAAACAAAAGAAATA
1 AATAAAA-TAATAAAA-TAAAACAAAAGAAAGA
*
77246 AATAAAAAAATAAGAAT-AAACAAAA
1 AATAAAATAATAA-AATAAAACAAAA
77271 ATAAATAAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
30 2 0.04
31 23 0.47
32 22 0.45
33 2 0.04
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.15
Consensus pattern (31 bp):
AATAAAATAATAAAATAAAACAAAAGAAAGA
Found at i:77247 original size:14 final size:15
Alignment explanation
Indices: 77208--77258 Score: 58
Period size: 13 Copynumber: 3.7 Consensus size: 15
77198 ATAAAAGAAA
77208 AAAAGAAATAAAACT
1 AAAAGAAATAAAACT
*
77223 AAAA-AACTAAAAC-
1 AAAAGAAATAAAACT
77236 AAAAGAAAT-AAA-T
1 AAAAGAAATAAAACT
77249 AAAA-AAATAA
1 AAAAGAAATAA
77259 GAATAAACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
12 4 0.13
13 12 0.39
14 11 0.35
15 4 0.13
ACGTcount: A:0.78, C:0.06, G:0.04, T:0.12
Consensus pattern (15 bp):
AAAAGAAATAAAACT
Found at i:77255 original size:28 final size:29
Alignment explanation
Indices: 77202--77285 Score: 77
Period size: 28 Copynumber: 3.0 Consensus size: 29
77192 ATAATAATAA
* *
77202 AAGAAAAAAAGAAATAAA-ACTAAAAAACT
1 AAGAACAAAAGAAATAAATA-AAAAAAACT
77231 AA-AACAAAAGAAATAAAT-AAAAAAA-T
1 AAGAACAAAAGAAATAAATAAAAAAAACT
* * *
77257 AAGAATAAACAAAAATAAATAAACAAAAC
1 AAGAACAAA-AGAAATAAATAAAAAAAAC
77286 AGATACTAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
26 3 0.07
27 11 0.24
28 23 0.51
29 8 0.18
ACGTcount: A:0.77, C:0.07, G:0.05, T:0.11
Consensus pattern (29 bp):
AAGAACAAAAGAAATAAATAAAAAAAACT
Found at i:77277 original size:14 final size:14
Alignment explanation
Indices: 77241--77284 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
77231 AAAACAAAAG
77241 AAATAAAT-AA-AA
1 AAATAAATAAACAA
77253 AAATAAGAATAAACAA
1 AAAT-A-AATAAACAA
77269 AAATAAATAAACAA
1 AAATAAATAAACAA
77283 AA
1 AA
77285 CAGATACTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 4 0.14
13 1 0.04
14 14 0.50
15 3 0.11
16 6 0.21
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.14
Consensus pattern (14 bp):
AAATAAATAAACAA
Found at i:77442 original size:4 final size:4
Alignment explanation
Indices: 77433--77596 Score: 56
Period size: 4 Copynumber: 40.0 Consensus size: 4
77423 AAACAATAAG
*
77433 AATA AATA AATAA AATA AATAA AATAA AATAA AATAA AATA AATA TATA
1 AATA AATA AAT-A AATA AAT-A AAT-A AAT-A AAT-A AATA AATA AATA
* * * * * *
77482 TATA TATA TATA TATA TATA TAATA GAATA AA-A TATTA AA-A AAGT-
1 AATA AATA AATA AATA AATA -AATA -AATA AATA -AATA AATA AA-TA
* * * *
77527 AAT- AATA ATAAA AATA AATA AACA GAAGGA AA-A AATA ATTA AA-A AATA
1 AATA AATA A-ATA AATA AATA AATA -AA-TA AATA AATA AATA AATA AATA
*
77575 AAT- AATA AA-A AATA ATTA AATA
1 AATA AATA AATA AATA AATA AATA
77597 TATATATTGA
Statistics
Matches: 132, Mismatches: 13, Indels: 30
0.75 0.07 0.17
Matches are distributed among these distances:
3 20 0.15
4 73 0.55
5 38 0.29
6 1 0.01
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.27
Consensus pattern (4 bp):
AATA
Found at i:77450 original size:5 final size:5
Alignment explanation
Indices: 77427--77475 Score: 68
Period size: 5 Copynumber: 10.2 Consensus size: 5
77417 ACTCAAAAAC
77427 AATAA GAAT-A AAT-A AATAA AAT-A AATAA AATAA AATAA AATAA AATAA
1 AATAA -AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
77475 A
1 A
77476 TATATATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
4 11 0.27
5 27 0.66
6 3 0.07
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:77482 original size:2 final size:2
Alignment explanation
Indices: 77475--77503 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
77465 AATAAAATAA
77475 AT AT 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 AT AT A
77504 ATAGAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:77572 original size:11 final size:11
Alignment explanation
Indices: 77556--77594 Score: 51
Period size: 11 Copynumber: 3.3 Consensus size: 11
77546 AAACAGAAGG
77556 AAAAAATAATT
1 AAAAAATAATT
77567 AAAAAATAAATAAT
1 AAAAAAT-AAT--T
77581 AAAAAATAATT
1 AAAAAATAATT
77592 AAA
1 AAA
77595 TATATATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.44
12 3 0.12
13 3 0.12
14 8 0.32
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAAATAATT
Found at i:77585 original size:14 final size:14
Alignment explanation
Indices: 77433--77589 Score: 54
Period size: 15 Copynumber: 10.4 Consensus size: 14
77423 AAACAATAAG
*
77433 AATAAATAA-ATAA
1 AATAAATAATAAAA
77446 AATAAATAA-AATAA
1 AATAAATAATAA-AA
77460 AATAAAATAA-AATAA
1 AAT-AAATAATAA-AA
* *
77475 ATATATATATATATATA
1 A-ATAAATA-ATA-AAA
* * *
77492 TATATATATATAATAG
1 AATAAATA-ATAA-AA
*
77508 AATAAAATATTAAAA
1 AAT-AAATAATAAAA
77523 AAGT-AATAATAATAAA
1 AA-TAAATAAT-A-AAA
77539 AATAAATAA-ACAGAA
1 AATAAATAATA-A-AA
*
77554 GGAAAAAATAATTAAAA
1 --AATAAATAA-TAAAA
77571 AATAAATAATAAAA
1 AATAAATAATAAAA
77585 AATAA
1 AATAA
77590 TTAAATATAT
Statistics
Matches: 113, Mismatches: 14, Indels: 33
0.71 0.09 0.21
Matches are distributed among these distances:
13 10 0.09
14 22 0.19
15 32 0.28
16 30 0.27
17 16 0.14
18 2 0.02
19 1 0.01
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (14 bp):
AATAAATAATAAAA
Found at i:78673 original size:2 final size:2
Alignment explanation
Indices: 78666--78690 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
78656 ATAAATGTAA
78666 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
78691 GTTTGTAATA
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:81974 original size:19 final size:18
Alignment explanation
Indices: 81946--81981 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
81936 TAGTATTATG
81946 AAAATAAAATAATGAAAA
1 AAAATAAAATAATGAAAA
*
81964 AAAAGTAAAATGATGAAA
1 AAAA-TAAAATAATGAAA
81982 GATAGCATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (18 bp):
AAAATAAAATAATGAAAA
Found at i:82196 original size:19 final size:19
Alignment explanation
Indices: 82172--82209 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
82162 CTTACAAAAG
82172 TTCT-AATAAAATAACTAAT
1 TTCTAAATAAAATAA-TAAT
82191 TTCTAAATAAAATAATAAT
1 TTCTAAATAAAATAATAAT
82210 AAAATAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (19 bp):
TTCTAAATAAAATAATAAT
Found at i:82809 original size:262 final size:262
Alignment explanation
Indices: 82328--83007 Score: 954
Period size: 262 Copynumber: 2.6 Consensus size: 262
82318 TTATGCCAGG
* * * *
82328 TAAATTCTAATTAAATATTCAAGTTATTAACTGGATCATTGAAATCTATTACTTTTTAGGCTAAT
1 TAAATTCTAATTAAATATTCAAGATATTGACTGGATCATCGAAATCTATTACTTTTTGGGCTAAT
* *
82393 TAATCCAATAAAGCTCATGTCCAAAATAAACTCAAAATAAAGATAAATCAGTAATATCCAATCGA
66 TAATCCAATAAAGCTCATGTCCAAAATAAACTTAAAATAAAGATAAATCAGTAATATTCAATCGA
* * *
82458 AAAATAAGGAGTAAATAACGATAAATATATGCAATATAAAACACTCATCAACGTACAAAAAGAAA
131 AAAATAAAGAGTAAATAACGATAAATATATACAATATAAAACACTCATCAACCTACAAAAAGAAA
* * * *
82523 AACAATCAGTCTCTAGTAGAGTAGCGTAATAGCCTTCCGACTGACCTACGTCATGTTTATTGTC-
196 AACAAACAGTCTCGAGTAGAGTAGCGTAATAGCCTTCCGAATGACCTACGTCATGTTGATT-TCT
82587 AAA
260 AAA
* *
82590 TAAATTCTAATTAAATATTCAAGATATTGACTGGATCATCGAAATCTGTTATTTTTTGGGCTAAT
1 TAAATTCTAATTAAATATTCAAGATATTGACTGGATCATCGAAATCTATTACTTTTTGGGCTAAT
*
82655 TAATCTAATAAAGCTCATGTCCAAAATAAACTTAAAATAAAGATAAATCAGTAATATTCAATCGA
66 TAATCCAATAAAGCTCATGTCCAAAATAAACTTAAAATAAAGATAAATCAGTAATATTCAATCGA
* * *
82720 AAAATAATGAGTAAATAACAATAAATATATACAATATAAAACACTCATCAACCTACAAAAGGAAA
131 AAAATAAAGAGTAAATAACGATAAATATATACAATATAAAACACTCATCAACCTACAAAAAGAAA
* * *
82785 AACAAACTGTCTCCGA-TGGAGTAGCGTAATAGCCTTCCGAATGACCTATGTCATGTTGATTTCT
196 AACAAACAGTCT-CGAGTAGAGTAGCGTAATAGCCTTCCGAATGACCTACGTCATGTTGATTTCT
**
82849 AGG
260 AAA
* * * * * * *
82852 TAAATT-TAAATTAAATATTTAAGATATTGATTGGACCATCGAAATATATTACTTTTCGGACTGA
1 TAAATTCT-AATTAAATATTCAAGATATTGACTGGATCATCGAAATCTATTACTTTTTGGGCTAA
* ** * * * *
82916 TTAATCCAACAAAATTCATGTCTAAAATAAACTTAAAATAAAGATAAATTAATAATATTTAATCG
65 TTAATCCAATAAAGCTCATGTCCAAAATAAACTTAAAATAAAGATAAATCAGTAATATTCAATCG
*
82981 AAAAA-AAAGAATAAATAACGATAAATA
130 AAAAATAAAGAGTAAATAACGATAAATA
83008 AATGGGTGAA
Statistics
Matches: 372, Mismatches: 43, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
261 22 0.06
262 348 0.94
263 2 0.01
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (262 bp):
TAAATTCTAATTAAATATTCAAGATATTGACTGGATCATCGAAATCTATTACTTTTTGGGCTAAT
TAATCCAATAAAGCTCATGTCCAAAATAAACTTAAAATAAAGATAAATCAGTAATATTCAATCGA
AAAATAAAGAGTAAATAACGATAAATATATACAATATAAAACACTCATCAACCTACAAAAAGAAA
AACAAACAGTCTCGAGTAGAGTAGCGTAATAGCCTTCCGAATGACCTACGTCATGTTGATTTCTA
AA
Found at i:83298 original size:32 final size:32
Alignment explanation
Indices: 83257--83335 Score: 140
Period size: 32 Copynumber: 2.5 Consensus size: 32
83247 TATACGAGGT
83257 GAGGTCGCCATGCAGACGAGCCAGCCAACGGA
1 GAGGTCGCCATGCAGACGAGCCAGCCAACGGA
* *
83289 GAGGTCGCCATGCAAACGAGCCAGCCAATGGA
1 GAGGTCGCCATGCAGACGAGCCAGCCAACGGA
83321 GAGGTCGCCATGCAG
1 GAGGTCGCCATGCAG
83336 TCTGGGCGAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.28, C:0.29, G:0.34, T:0.09
Consensus pattern (32 bp):
GAGGTCGCCATGCAGACGAGCCAGCCAACGGA
Found at i:83455 original size:29 final size:29
Alignment explanation
Indices: 83322--83445 Score: 221
Period size: 29 Copynumber: 4.3 Consensus size: 29
83312 GCCAATGGAG
* **
83322 AGGTCGCCATGCAGTCTGGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
83351 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
83380 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
83409 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
83438 AGGTCGCC
1 AGGTCGCC
83446 CCGGCGTCCC
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 92 1.00
ACGTcount: A:0.14, C:0.31, G:0.32, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:83514 original size:50 final size:50
Alignment explanation
Indices: 83472--83587 Score: 170
Period size: 50 Copynumber: 2.4 Consensus size: 50
83462 CCCGAGACCA
*
83472 TGCATG-C-ACATGCA-GCCAA-ATAACTTCACGTGCTCCTGCTCCCCGC
1 TGCATGCCTACATGCATGCCAAGATAACTTCACGTGCTCCTGCTCCCAGC
* *
83518 TGCATGCCTGCATGCATGCCAAGATAACTTCACGTGCTCCTGCTCCCCGC
1 TGCATGCCTACATGCATGCCAAGATAACTTCACGTGCTCCTGCTCCCAGC
83568 TGCATGCCTACA-GCATGCCA
1 TGCATGCCTACATGCATGCCA
83588 TGTGATCCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
46 6 0.09
47 1 0.02
48 6 0.09
49 13 0.20
50 38 0.59
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.22
Consensus pattern (50 bp):
TGCATGCCTACATGCATGCCAAGATAACTTCACGTGCTCCTGCTCCCAGC
Found at i:83823 original size:16 final size:18
Alignment explanation
Indices: 83802--83840 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
83792 GGAGATAAGG
*
83802 TAAATTTGTTTA-TATT-
1 TAAATTAGTTTATTATTA
83818 TAAATTAGTTTATTATTA
1 TAAATTAGTTTATTATTA
83836 TAAAT
1 TAAAT
83841 GTTAATTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
17 4 0.20
18 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TAAATTAGTTTATTATTA
Found at i:83988 original size:47 final size:47
Alignment explanation
Indices: 83945--84033 Score: 123
Period size: 45 Copynumber: 1.9 Consensus size: 47
83935 TTATATAGTT
83945 AAAAAA-TAATTAATTAGTTTGTT-TT-GTT-AATAGTTAGTTATATA
1 AAAAAATTAATTAATTAGTTT-TTGTTAGTTAAATAGTTAGTTATATA
*
83989 AAAAAATTATTTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTAT
1 AAAAAATTAATTAATTAGTTTTTGTTAGTTAAATAGTT-AGTTAT
84034 TTGTTTGTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
44 8 0.21
45 15 0.38
46 3 0.08
47 7 0.18
48 6 0.15
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.48
Consensus pattern (47 bp):
AAAAAATTAATTAATTAGTTTTTGTTAGTTAAATAGTTAGTTATATA
Found at i:84108 original size:32 final size:32
Alignment explanation
Indices: 84072--84147 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 32
84062 TTAGTTAGTA
84072 AGTTTATTAGTAG-TATA-TTATAATGAAAAAAT
1 AGTTTATTAGTAGTTATAGTTAT-AT-AAAAAAT
*
84104 AGTTTATTAGTTAGTTTTAGTTATATAAAAAAT
1 AGTTTATTAG-TAGTTATAGTTATATAAAAAAT
*
84137 ATTTTATTAGT
1 AGTTTATTAGT
84148 TGTTTAAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
32 11 0.28
33 19 0.49
34 5 0.13
35 4 0.10
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (32 bp):
AGTTTATTAGTAGTTATAGTTATATAAAAAAT
Found at i:84225 original size:16 final size:16
Alignment explanation
Indices: 84193--84239 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
84183 TTTAAAAAGT
*
84193 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
84209 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
84225 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
84240 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:84234 original size:15 final size:14
Alignment explanation
Indices: 84214--84244 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
84204 GTTTATTAGT
84214 TTATTATATTATAAG
1 TTATTATATTA-AAG
84229 TTATTATATTAAAG
1 TTATTATATTAAAG
84243 TT
1 TT
84245 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:86415 original size:17 final size:17
Alignment explanation
Indices: 86393--86425 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
86383 CAATGATGTT
*
86393 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
86410 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
86426 GTATTAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:86444 original size:21 final size:21
Alignment explanation
Indices: 86420--86463 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
86410 TAGTATCAAA
* *
86420 TAATTAGTATTAAATCATTAG
1 TAATAAGTAGTAAATCATTAG
*
86441 TAATAATTAGTAAATCATTAG
1 TAATAAGTAGTAAATCATTAG
86462 TA
1 TA
86464 TCAAATCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (21 bp):
TAATAAGTAGTAAATCATTAG
Found at i:86462 original size:11 final size:11
Alignment explanation
Indices: 86430--86463 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
86420 TAATTAGTAT
86430 TAAATCATTAG
1 TAAATCATTAG
*
86441 T-AATAATTAG
1 TAAATCATTAG
86451 TAAATCATTAG
1 TAAATCATTAG
86462 TA
1 TA
86464 TCAAATCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (11 bp):
TAAATCATTAG
Found at i:86471 original size:14 final size:14
Alignment explanation
Indices: 86392--86474 Score: 63
Period size: 14 Copynumber: 6.2 Consensus size: 14
86382 ACAATGATGT
86392 TTAGTATCAAATCA
1 TTAGTATCAAATCA
*
86406 TTACTAGTATCAAATAA
1 -T--TAGTATCAAATCA
*
86423 TTAGTATTAAATCA
1 TTAGTATCAAATCA
*
86437 TTAG--T--AATAA
1 TTAGTATCAAATCA
86447 TTAG--T-AAATCA
1 TTAGTATCAAATCA
86458 TTAGTATCAAATCA
1 TTAGTATCAAATCA
86472 TTA
1 TTA
86475 AATATTTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
10 9 0.16
11 8 0.14
12 1 0.02
13 1 0.02
14 24 0.42
15 1 0.02
16 1 0.02
17 12 0.21
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.39
Consensus pattern (14 bp):
TTAGTATCAAATCA
Found at i:86597 original size:14 final size:14
Alignment explanation
Indices: 86578--86617 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
86568 TAGTAATAAT
86578 TATTAAATCATTAG
1 TATTAAATCATTAG
*
86592 TATTAAATCATTAT
1 TATTAAATCATTAG
*
86606 TA-TAAATAATTA
1 TATTAAATCATTA
86618 CTAAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (14 bp):
TATTAAATCATTAG
Found at i:86667 original size:12 final size:12
Alignment explanation
Indices: 86560--86669 Score: 73
Period size: 13 Copynumber: 8.9 Consensus size: 12
86550 TTAGTATTCT
86560 ATAATTATTAGTA
1 ATAATTATTA-TA
86573 ATAATTATTA-A
1 ATAATTATTATA
* *
86584 ATCATTAGTATTAA
1 ATAATTATTA-T-A
*
86598 ATCATTATTATAA
1 ATAATTATTAT-A
*
86611 ATAATTACTA-A
1 ATAATTATTATA
**
86622 ATAA-TAACATA
1 ATAATTATTATA
86633 ATAATTATTATAAA
1 ATAATTATTAT--A
*
86647 ATCATTATTATA
1 ATAATTATTATA
*
86659 ATGATTATTAT
1 ATAATTATTAT
86670 CAAATCATTA
Statistics
Matches: 79, Mismatches: 11, Indels: 15
0.75 0.10 0.14
Matches are distributed among these distances:
10 3 0.04
11 19 0.24
12 15 0.19
13 21 0.27
14 21 0.27
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (12 bp):
ATAATTATTATA
Found at i:86674 original size:26 final size:26
Alignment explanation
Indices: 86576--86901 Score: 213
Period size: 26 Copynumber: 13.2 Consensus size: 26
86566 ATTAGTAATA
* * *
86576 ATTATTA-AATCATTAGTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
86601 ATTATTATAA--ATAATTA-CTAAAT-
1 ATTATTATAATGATTATTATC-AAATC
* ** * *
86624 AATAACATAATAATTATTATAAAATC
1 ATTATTATAATGATTATTATCAAATC
86650 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
86676 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
86699 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
86722 ATTTTTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
*
86748 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
86774 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
86797 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
86820 ATTTTTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
86846 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
*
86872 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
86898 ATTA
1 ATTA
86902 CTAAATCATC
Statistics
Matches: 231, Mismatches: 48, Indels: 43
0.72 0.15 0.13
Matches are distributed among these distances:
21 8 0.03
22 4 0.02
23 35 0.15
24 21 0.09
25 29 0.13
26 132 0.57
27 2 0.01
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTATTATAATGATTATTATCAAATC
Found at i:86740 original size:98 final size:98
Alignment explanation
Indices: 86630--86878 Score: 464
Period size: 98 Copynumber: 2.5 Consensus size: 98
86620 AAATAATAAC
*
86630 ATAATAATTATTA-TAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAAT
1 ATAATGATTATTACT-AAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAAT
86694 CATTAAATATTTAAATCATTATTAAATCATTTTT
65 CATTAAATATTTAAATCATTATTAAATCATTTTT
*
86728 ATAATGATTATTACTAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATC
1 ATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATC
86793 ATTAAATATTTAAATCATTATTAAATCATTTTT
66 ATTAAATATTTAAATCATTATTAAATCATTTTT
86826 ATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTA
1 ATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTA
86879 TAATGATTAT
Statistics
Matches: 147, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
98 146 0.99
99 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (98 bp):
ATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATC
ATTAAATATTTAAATCATTATTAAATCATTTTT
Found at i:86845 original size:124 final size:124
Alignment explanation
Indices: 86711--86959 Score: 464
Period size: 124 Copynumber: 2.0 Consensus size: 124
86701 TATTTAAATC
* *
86711 ATTATTAAATCATTTTTATAATGATTATTA-CTAAATCATTACTATAATGATTATTATCAAATCA
1 ATTACTAAATCATTATTATAATGATTATTATC-AAATCATTACTATAATGATTATTATCAAATCA
86775 TTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
65 TTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
86835 ATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1 ATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
86900 TACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
66 TACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
86959 A
1 A
86960 ATAAATACAT
Statistics
Matches: 122, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
124 121 0.99
125 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.44
Consensus pattern (124 bp):
ATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
TACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
Found at i:87463 original size:14 final size:14
Alignment explanation
Indices: 87444--87470 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
87434 CACATACACA
87444 ACAACAAAAAATAG
1 ACAACAAAAAATAG
87458 ACAACAAAAAATA
1 ACAACAAAAAATA
87471 ATAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.15, G:0.04, T:0.07
Consensus pattern (14 bp):
ACAACAAAAAATAG
Found at i:87463 original size:17 final size:17
Alignment explanation
Indices: 87441--87473 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
87431 TTACACATAC
87441 ACAACAACAAAA-AATAG
1 ACAACAA-AAAATAATAG
87458 ACAACAAAAAATAATA
1 ACAACAAAAAATAATA
87474 AATTACTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.73, C:0.15, G:0.03, T:0.09
Consensus pattern (17 bp):
ACAACAAAAAATAATAG
Found at i:88384 original size:35 final size:35
Alignment explanation
Indices: 88344--88411 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
88334 TGGATGCAAC
*
88344 GCATGCATGAGTGATACAGTTAAAGCTTGGTCGTT
1 GCATGCATGAGTGATACAGTTAAAGCTGGGTCGTT
*
88379 GCATGCATGAGTGCTACAGTTAAAGCTGGGTCG
1 GCATGCATGAGTGATACAGTTAAAGCTGGGTCG
88412 CGATGCAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (35 bp):
GCATGCATGAGTGATACAGTTAAAGCTGGGTCGTT
Found at i:88468 original size:12 final size:12
Alignment explanation
Indices: 88451--88475 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88441 TCCATGGCGA
88451 CCTACCACCTAC
1 CCTACCACCTAC
88463 CCTACCACCTAC
1 CCTACCACCTAC
88475 C
1 C
88476 ATGTCGTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.60, G:0.00, T:0.16
Consensus pattern (12 bp):
CCTACCACCTAC
Found at i:88749 original size:13 final size:13
Alignment explanation
Indices: 88731--88757 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
88721 GATGGACGAG
88731 CAACAGCGGCCAC
1 CAACAGCGGCCAC
88744 CAACAGCGGCCAC
1 CAACAGCGGCCAC
88757 C
1 C
88758 CCAAAGCAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.48, G:0.22, T:0.00
Consensus pattern (13 bp):
CAACAGCGGCCAC
Found at i:92477 original size:76 final size:75
Alignment explanation
Indices: 92392--92692 Score: 229
Period size: 74 Copynumber: 4.1 Consensus size: 75
92382 ATATACTTCA
* *
92392 AAAATATATTTTTTAAACTATATATTATACATAAAAAGTTTTCAAAACTATATATTATATAA-TT
1 AAAA-ATATTTTAT-AACTATATATTATA-A-AAAAAGTTTTTAAAACTATATATTATATAATTT
92456 TTC-AAAATGTTTT
62 TTCAAAAATGTTTT
* * * * *
92469 AAAAATATTATATAAGT-T-T-TCA-AAAAATA-TTTTTAAAACTATATATTATGTAATTTTTCC
1 AAAAATATTTTATAACTATATATTATAAAAAAAGTTTTTAAAACTATATATTATATAATTTTT-C
*
92529 AAAAATATTTTT
65 AAAAAT-GTTTT
* *
92541 AAAACTATATGTTAT-A-TA-AT-TTTTCAAAAAATA-TTTTTAAAACTATATATTATATAATTT
1 AAAA--ATATTTTATAACTATATATTAT-AAAAAA-AGTTTTTAAAACTATATATTATATAATTT
92601 TTCAAAAATGTTTT
62 TTCAAAAATGTTTT
* * ** * * *
92615 AAAAA-ACTATAT-ACTATATAAGTT-TTTAAAATGTTTTAAAAACTATATATTATATAAGTTTT
1 AAAAATATTTTATAACTATAT-A-TTATAAAAAAAGTTTTTAAAACTATATATTATATAATTTTT
92677 C-AAAATGTTTT
64 CAAAAATGTTTT
92688 AAAAA
1 AAAAA
92693 CTATATAATA
Statistics
Matches: 184, Mismatches: 23, Indels: 38
0.75 0.09 0.16
Matches are distributed among these distances:
68 22 0.12
69 8 0.04
70 2 0.01
71 11 0.06
72 14 0.08
73 21 0.11
74 48 0.26
75 16 0.09
76 38 0.21
77 4 0.02
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (75 bp):
AAAAATATTTTATAACTATATATTATAAAAAAAGTTTTTAAAACTATATATTATATAATTTTTCA
AAAATGTTTT
Found at i:92527 original size:38 final size:37
Alignment explanation
Indices: 92430--92718 Score: 319
Period size: 38 Copynumber: 7.9 Consensus size: 37
92420 ACATAAAAAG
* *
92430 TTTTCAAAACTATATATTATATAA-TTTTC-AAAATG
1 TTTTAAAAACTATATATTATATAATTTTTCAAAAATA
*
92465 TTTT--AAA--A-ATATTATATAAGTTTTCAAAAAATA
1 TTTTAAAAACTATATATTATATAATTTTTC-AAAAATA
* *
92498 TTTTTAAAACTATATATTATGTAATTTTTCCAAAAATA
1 TTTTAAAAACTATATATTATATAATTTTT-CAAAAATA
* *
92536 TTTTTAAAACTATATGTTATATAATTTTTCAAAAAATA
1 TTTTAAAAACTATATATTATATAATTTTTC-AAAAATA
* *
92574 TTTTTAAAACTATATATTATATAATTTTTCAAAAATG
1 TTTTAAAAACTATATATTATATAATTTTTCAAAAATA
* *
92611 TTTTAAAAAACTATATACTATATAAGTTTTT--AAAATG
1 TTTT-AAAAACTATATATTATATAA-TTTTTCAAAAATA
* *
92648 TTTTAAAAACTATATATTATATAAGTTTTC-AAAATG
1 TTTTAAAAACTATATATTATATAATTTTTCAAAAATA
*
92684 TTTTAAAAACTATATAATATATAAATGTTTTCAAA
1 TTTTAAAAACTATATATTATAT-AAT-TTTTCAAA
92719 CTATATATTA
Statistics
Matches: 225, Mismatches: 13, Indels: 28
0.85 0.05 0.11
Matches are distributed among these distances:
30 11 0.05
31 6 0.03
33 12 0.05
35 11 0.05
36 46 0.20
37 24 0.11
38 107 0.48
39 8 0.04
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (37 bp):
TTTTAAAAACTATATATTATATAATTTTTCAAAAATA
Found at i:92720 original size:62 final size:64
Alignment explanation
Indices: 92643--92767 Score: 175
Period size: 62 Copynumber: 2.0 Consensus size: 64
92633 TAAGTTTTTA
* * *
92643 AAATGTTTTAAAAACTATATATTATATA-AGTTTTCAAAATGTTTT-AAAAACTATATAATATAT
1 AAATGTTTTAAAAACTATATATTATATATA-TATTAAAAATATTTTCAAAAACTATATAATATAT
* *
92706 AAATGTTTT-CAAACTATATATTATATATATATTAAAAATATTTTCAAAAATTATATAATATA
1 AAATGTTTTAAAAACTATATATTATATATATATTAAAAATATTTTCAAAAACTATATAATATA
92768 CATTTTCGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
62 29 0.53
63 26 0.47
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (64 bp):
AAATGTTTTAAAAACTATATATTATATATATATTAAAAATATTTTCAAAAACTATATAATATAT
Found at i:92734 original size:28 final size:27
Alignment explanation
Indices: 92679--92732 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
92669 TAAGTTTTCA
92679 AAATGTTTTAAAAACTATATAATATAT
1 AAATGTTTTAAAAACTATATAATATAT
* *
92706 AAATGTTTT-CAAACTATATATTATAT
1 AAATGTTTTAAAAACTATATAATATAT
92732 A
1 A
92733 TATATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.43
Consensus pattern (27 bp):
AAATGTTTTAAAAACTATATAATATAT
Found at i:92761 original size:37 final size:37
Alignment explanation
Indices: 92720--92850 Score: 88
Period size: 37 Copynumber: 3.5 Consensus size: 37
92710 GTTTTCAAAC
92720 TATATATTATATATATATTAAAAATATTTTCAAAAAT
1 TATATATTATATATATATTAAAAATATTTTCAAAAAT
* * * * **
92757 TATATA--ATATACATTTTCGAAAATCGTTTTCTGGAAAT
1 TATATATTATATATATATT-AAAAAT-ATTTTC-AAAAAT
* * * * * *
92795 TATATATTATAT-TTTGTCAAAAACATTTTCACAAAC
1 TATATATTATATATATATTAAAAATATTTTCAAAAAT
92831 TATATTATTATTATATATAT
1 TATA-TATTA-TATATATAT
92851 ATATCATGAT
Statistics
Matches: 68, Mismatches: 18, Indels: 14
0.68 0.18 0.14
Matches are distributed among these distances:
35 9 0.13
36 12 0.18
37 21 0.31
38 17 0.25
39 5 0.07
40 4 0.06
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.46
Consensus pattern (37 bp):
TATATATTATATATATATTAAAAATATTTTCAAAAAT
Found at i:93902 original size:2 final size:2
Alignment explanation
Indices: 93864--93890 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
93854 AAAAACATTG
93864 AT 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 AT A
93891 AAAAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:101189 original size:2 final size:2
Alignment explanation
Indices: 101176--101234 Score: 109
Period size: 2 Copynumber: 29.0 Consensus size: 2
101166 TGAATACAAG
101176 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
101219 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
101235 GGAAGATGAA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 54 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:101304 original size:2 final size:2
Alignment explanation
Indices: 101297--101327 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
101287 GAAAATGTGA
101297 AT AT AT 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 AT AT AT A
101328 GGATAAGACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:101751 original size:23 final size:22
Alignment explanation
Indices: 101718--101785 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 22
101708 AACCTTATAT
101718 GGCACTTTGGTGCATTTCTACGC
1 GGCAC-TTGGTGCATTTCTACGC
* *
101741 GGCACTATGGTGCAATTCTACGT
1 GGCACT-TGGTGCATTTCTACGC
*
101764 GGCACTTCGGTGCATTTATACG
1 GGCACTT-GGTGCATTTCTACG
101786 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.05
23 37 0.95
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (22 bp):
GGCACTTGGTGCATTTCTACGC
Found at i:105273 original size:19 final size:19
Alignment explanation
Indices: 105249--105300 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
105239 GAATGCAATT
105249 AATGCATCGATGCATAAGG
1 AATGCATCGATGCATAAGG
105268 AATGCATCGATGCATAAGG
1 AATGCATCGATGCATAAGG
*
105287 AGTGCATCGATGCA
1 AATGCATCGATGCA
105301 CATGTTAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (19 bp):
AATGCATCGATGCATAAGG
Found at i:106385 original size:2 final size:2
Alignment explanation
Indices: 106378--106465 Score: 176
Period size: 2 Copynumber: 44.0 Consensus size: 2
106368 AGGAAAAATG
106378 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
106420 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
106462 AT AT
1 AT AT
106466 GAAGATGAAT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 86 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:106990 original size:23 final size:23
Alignment explanation
Indices: 106930--106982 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
106920 CAACCTTATA
* * *
106930 TGGCACTTCGGTGTATTTCTACG
1 TGGCACTACGGTGCAATTCTACG
106953 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
106976 TGGCACT
1 TGGCACT
106983 TGGATGCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.17, C:0.25, G:0.26, T:0.32
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:106998 original size:23 final size:22
Alignment explanation
Indices: 106930--106998 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
106920 CAACCTTATA
*
106930 TGGCACTTCGGTGTATTTCTACG
1 TGGCACTT-GGTGCATTTCTACG
* *
106953 TGGCACTACGGTGCAATTCTACG
1 TGGCACT-TGGTGCATTTCTACG
*
106976 TGGCACTTGGATGCATTTATACG
1 TGGCACTTGG-TGCATTTCTACG
106999 AGCTATGGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
22 2 0.05
23 36 0.95
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (22 bp):
TGGCACTTGGTGCATTTCTACG
Found at i:110081 original size:37 final size:37
Alignment explanation
Indices: 110031--110135 Score: 131
Period size: 37 Copynumber: 2.8 Consensus size: 37
110021 CATTTTCGTC
* * *
110031 CTACTATGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
*
110068 -TCGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CT-ACTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
* * *
110105 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
110136 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
36 1 0.02
37 56 0.97
38 1 0.02
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
Found at i:110713 original size:24 final size:24
Alignment explanation
Indices: 110686--110797 Score: 85
Period size: 24 Copynumber: 4.8 Consensus size: 24
110676 CTTTGCATTT
110686 TTATTATTACTATTATATTTATTA
1 TTATTATTACTATTATATTTATTA
* **
110710 TTATTTTTACTATTATATTT-TCC
1 TTATTATTACTATTATATTTATTA
*
110733 TT-TTATT-CTACT-TATTTA-TA
1 TTATTATTACTATTATATTTATTA
* *
110753 TTATATATGTA-TATT-TTTTTATATT
1 TTAT-TAT-TACTATTATATTTAT-TA
*
110778 TTATTATTATTATTATATTT
1 TTATTATTACTATTATATTT
110798 TTTTACTTTC
Statistics
Matches: 68, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
20 7 0.10
21 5 0.07
22 7 0.10
23 14 0.21
24 26 0.38
25 9 0.13
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (24 bp):
TTATTATTACTATTATATTTATTA
Found at i:110777 original size:10 final size:10
Alignment explanation
Indices: 110748--110798 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
110738 TTCTACTTAT
110748 TTATATTATATA
1 TTATATT-T-TA
*
110760 TGTATATTTTT
1 T-TATATTTTA
110771 TTATATTTTA
1 TTATATTTTA
*
110781 TTAT-TATTA
1 TTATATTTTA
110790 TTATATTTT
1 TTATATTTT
110799 TTTACTTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 8 0.24
10 15 0.45
11 2 0.06
12 2 0.06
13 6 0.18
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (10 bp):
TTATATTTTA
Found at i:110793 original size:37 final size:37
Alignment explanation
Indices: 110698--110795 Score: 100
Period size: 37 Copynumber: 2.7 Consensus size: 37
110688 ATTATTACTA
110698 TTATA-TTTATTATTATT-TT-TACTATTATATTTTCCT
1 TTATATTTTATTATTATTATTATA-TATTATATTTT-CT
*
110734 TT-TATTCTACTTATT-TATATTATATATGTATATTTT-T
1 TTATATTTTA-TTATTAT-TATTATATAT-TATATTTTCT
110771 TTATATTTTATTATTATTATTATAT
1 TTATATTTTATTATTATTATTATAT
110796 TTTTTTACTT
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
35 2 0.04
36 6 0.12
37 22 0.42
38 12 0.23
39 10 0.19
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (37 bp):
TTATATTTTATTATTATTATTATATATTATATTTTCT
Found at i:110840 original size:12 final size:11
Alignment explanation
Indices: 110818--110858 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
110808 TCTTTCTTTT
110818 TATTATTCTTG
1 TATTATTCTTG
110829 TATTATTACTTG
1 TATTATT-CTTG
* *
110841 TATTATTTTTA
1 TATTATTCTTG
110852 TATTATT
1 TATTATT
110859 TATTTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:112297 original size:22 final size:22
Alignment explanation
Indices: 112260--112358 Score: 171
Period size: 22 Copynumber: 4.5 Consensus size: 22
112250 GCTACCCCAT
* *
112260 CAAACCGTTGAACATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
112282 CAAACCTATGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
112304 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
112326 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
112348 CAAACCTTTGA
1 CAAACCTTTGA
112359 CCAAACATAA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 73 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:113402 original size:106 final size:106
Alignment explanation
Indices: 113184--114240 Score: 1583
Period size: 106 Copynumber: 10.0 Consensus size: 106
113174 ATATCGTGCC
* * * * * *
113184 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAA-CAACAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* *
113248 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTTG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
113289 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* *
113354 AGTTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
113395 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
113460 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
113501 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
113566 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
113607 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
113672 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
113713 ACTCCAGACAACGCAAGTTCAACTTCCCGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* * *
113778 AATTTTAGAGCCAATTTTAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
113819 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* *
113884 AATTTCAGAGCCAATTTCAACTTCATAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
113925 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* *
113990 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * *
114031 AC-CCAAGACAACACAAGCTCAACTTCACAACGAAGGGGCGGCTGATTGTCAA-CAA-AATTT--
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCC
* * *
114091 C-A-TTCAGAGTCAATTTCAACTTCATAGCAAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
114131 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
** * *
114196 GGTTCCAGAGCCAATTTCAACTTCACTA-CGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCAC-AGCGAAGGATATTGG
114237 ACTC
1 ACTC
114241 GGAACAATGC
Statistics
Matches: 869, Mismatches: 73, Indels: 19
0.90 0.08 0.02
Matches are distributed among these distances:
100 79 0.09
101 4 0.00
102 6 0.01
104 5 0.01
105 51 0.06
106 723 0.83
107 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:115025 original size:37 final size:37
Alignment explanation
Indices: 114975--115075 Score: 139
Period size: 37 Copynumber: 2.7 Consensus size: 37
114965 TTCTTCCTAT
* * *
114975 TAGGATTCAAACTCCTAAAAATATGATAGAATTTTGC
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTCTAC
*
115012 TAGGATTCAAACTCCTAAAAATAGGATAGAGTTCTAC
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTCTAC
* * *
115049 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
115076 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (37 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTCTAC
Found at i:115658 original size:24 final size:23
Alignment explanation
Indices: 115631--115739 Score: 86
Period size: 24 Copynumber: 4.8 Consensus size: 23
115621 CTTTGCATTT
115631 TTATTATTACTATTATATTTATTA
1 TTATTATTACTATT-TATTTATTA
* **
115655 TTATTTTTACTATTATATTT-TCC
1 TTATTATTACTATT-TATTTATTA
*
115678 TT-TTATT-CTACTTATTTA-TA
1 TTATTATTACTATTTATTTATTA
*
115698 TTATATATGTA-TATTTTTTTATT-
1 TTAT-TAT-TACTATTTATTTATTA
*
115721 TTATTATTATTATTTATTT
1 TTATTATTACTATTTATTT
115740 TTTTACTTTC
Statistics
Matches: 68, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
20 7 0.10
21 7 0.10
22 18 0.26
23 16 0.24
24 20 0.29
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.67
Consensus pattern (23 bp):
TTATTATTACTATTTATTTATTA
Found at i:115738 original size:26 final size:28
Alignment explanation
Indices: 115692--115744 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
115682 ATTCTACTTA
115692 TTTATATTATATATGTATATTTTTTTAT
1 TTTATATTATATATGTATATTTTTTTAT
115720 TTTATTATTAT-TAT-T-TATTTTTTTA
1 TTTA-TATTATATATGTATATTTTTTTA
115745 CTTTCTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 10 0.42
27 1 0.04
28 7 0.29
29 6 0.25
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (28 bp):
TTTATATTATATATGTATATTTTTTTAT
Found at i:115782 original size:12 final size:11
Alignment explanation
Indices: 115760--115789 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
115750 TCTTTCTTTT
115760 TATTATTCTTG
1 TATTATTCTTG
115771 TATTATTACTTG
1 TATTATT-CTTG
115783 TATTATT
1 TATTATT
115790 TTTATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:115980 original size:32 final size:34
Alignment explanation
Indices: 115917--115980 Score: 89
Period size: 32 Copynumber: 1.9 Consensus size: 34
115907 CATATTTTTC
115917 TATTAATTTTCTATATTTTTTATTATCATTATAT
1 TATTAATTTTCTATATTTTTTATTATCATTATAT
*
115951 TATTTATTTTCT-T-TTTTTTATTGAT-ATTAT
1 TATTAATTTTCTATATTTTTTATT-ATCATTAT
115981 TGTTGTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 14 0.50
33 3 0.11
34 11 0.39
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (34 bp):
TATTAATTTTCTATATTTTTTATTATCATTATAT
Found at i:116016 original size:2 final size:2
Alignment explanation
Indices: 116009--116069 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
115999 TTACTATTAT
116009 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
116051 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
116070 TCTACACAAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:116391 original size:22 final size:21
Alignment explanation
Indices: 116356--116410 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
116346 TTATTCGTAC
*
116356 TTTGTTATTA-TTATTTTGTTT
1 TTTGTT-TTATTTATTTTCTTT
116377 ATTTGTTTTATTTATTTTCTTT
1 -TTTGTTTTATTTATTTTCTTT
116399 TTAT-TTTTATTT
1 TT-TGTTTTATTT
116411 TTTATATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.78
Consensus pattern (21 bp):
TTTGTTTTATTTATTTTCTTT
Found at i:116403 original size:39 final size:39
Alignment explanation
Indices: 116316--116451 Score: 118
Period size: 39 Copynumber: 3.4 Consensus size: 39
116306 TATATATTTA
* * *
116316 CTTTTT-TT-TTATTTTATATATATATATATATTATTCGT
1 CTTTTTATTATTATTTTTTATATATAT-TTTATTATTTGT
* *
116354 ACTTTGTTATTATTATTTTGTT-TATTTGTTTTATTTATTT-T
1 -CTTT-TTATTATTATTTT-TTATATATATTTTA-TTATTTGT
*
116395 CTTTTTATTTTTATTTTTTATATATATTTTATTATTTGT
1 CTTTTTATTATTATTTTTTATATATATTTTATTATTTGT
* *
116434 TTTTTTACTTACTATTTT
1 CTTTTTA-TTATTATTTT
116452 ATCTTTGCTT
Statistics
Matches: 78, Mismatches: 11, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
38 8 0.10
39 32 0.41
40 14 0.18
41 6 0.08
42 17 0.22
43 1 0.01
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (39 bp):
CTTTTTATTATTATTTTTTATATATATTTTATTATTTGT
Found at i:116429 original size:27 final size:27
Alignment explanation
Indices: 116375--116453 Score: 78
Period size: 24 Copynumber: 3.0 Consensus size: 27
116365 ATTATTTTGT
* *
116375 TTATTTGTTTTATTTATTTTCT-TTTTA
1 TTATTTGTTTT-TTTACTTACTATTTTA
*
116402 TT-TTT-ATTTTTTA-TATA-TATTTTA
1 TTATTTGTTTTTTTACT-TACTATTTTA
116426 TTATTTGTTTTTTTACTTACTATTTTA
1 TTATTTGTTTTTTTACTTACTATTTTA
116453 T
1 T
116454 CTTTGCTTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
23 2 0.05
24 12 0.28
25 6 0.14
26 12 0.28
27 11 0.26
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.75
Consensus pattern (27 bp):
TTATTTGTTTTTTTACTTACTATTTTA
Found at i:116450 original size:79 final size:78
Alignment explanation
Indices: 116304--116451 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 78
116294 AATTTATTAA
*
116304 TTTATATATTTACTTTTTTTTTATTTTATATATATATATATATTATTCGTACTTTGTTATTATTA
1 TTTATATATTTACTTTTTTTTTATTTTATATATATATATATATTATTCGTA-TTTGTTATTACTA
116369 TTTTGTTTATTTGT
65 TTTTGTTTATTTGT
* * * * * *
116383 TTTATTTATTTTCTTTTTATTTTTATTTTTTATATATAT-TTTATTATTTGT-TTTTTTACTTAC
1 TTTATATATTTAC-TTTT-TTTTTATTTTATATATATATATATATTATTCGTATTTGTTA-TTAC
116446 TATTTT
63 TATTTT
116452 ATCTTTGCTT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 6 0.10
79 20 0.34
80 14 0.24
81 19 0.32
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.71
Consensus pattern (78 bp):
TTTATATATTTACTTTTTTTTTATTTTATATATATATATATATTATTCGTATTTGTTATTACTAT
TTTGTTTATTTGT
Found at i:116458 original size:26 final size:24
Alignment explanation
Indices: 116374--116458 Score: 61
Period size: 26 Copynumber: 3.4 Consensus size: 24
116364 TATTATTTTG
*
116374 TTTA-TTTGTTTTATTTATTTTCT-T
1 TTTATTTTGTTTT-TTTA-TTACTAT
116398 TTTATTTT-TATTTTTTATATA-TAT
1 TTTATTTTGT-TTTTTTAT-TACTAT
116422 TTTATTATTTGTTTTTTTACTTACTAT
1 TTTA-T-TTTGTTTTTTTA-TTACTAT
116449 TTTATCTTTG
1 TTTAT-TTTG
116459 CTTTCTTCAT
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
23 2 0.04
24 15 0.30
25 7 0.14
26 17 0.34
27 9 0.18
ACGTcount: A:0.18, C:0.05, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTATTTTGTTTTTTTATTACTAT
Found at i:118346 original size:18 final size:18
Alignment explanation
Indices: 118323--118384 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 18
118313 TTCAGTATTC
118323 GTCCCGTAGGACCACTAT
1 GTCCCGTAGGACCACTAT
* *
118341 GTCCCGAAGAACCACTGTATAT
1 GTCCCGTAGGACCAC----TAT
*
118363 GTCCCGTATGACCACTAT
1 GTCCCGTAGGACCACTAT
118381 GTCC
1 GTCC
118385 TGAAAGACTA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
18 20 0.57
22 15 0.43
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (18 bp):
GTCCCGTAGGACCACTAT
Found at i:120018 original size:45 final size:44
Alignment explanation
Indices: 119924--120026 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 44
119914 GCACTACACC
* *
119924 ATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGA
* *
119969 ATGCATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-TA
1 ATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATGGA
120014 ATGCATCGATGCA
1 ATGCATCGATGCA
120027 CTGCATGTGC
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
45 42 0.81
46 7 0.13
47 3 0.06
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (44 bp):
ATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGA
Found at i:120986 original size:2 final size:2
Alignment explanation
Indices: 120979--121013 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
120969 CTTTTTCCTT
120979 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
121014 TCATATCATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:123385 original size:22 final size:18
Alignment explanation
Indices: 123342--123411 Score: 86
Period size: 18 Copynumber: 3.7 Consensus size: 18
123332 TTCAGTATTC
*
123342 GTCCCGTAGGACCACTAT
1 GTCCCGAAGGACCACTAT
123360 GTCCCGAAGGACCACTGTATAT
1 GTCCCGAAGGACCAC----TAT
*
123382 GTCCCGTAGGACCACTAT
1 GTCCCGAAGGACCACTAT
123400 GTCCCGAAGGAC
1 GTCCCGAAGGAC
123412 TACTCCTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
18 28 0.62
22 17 0.38
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.20
Consensus pattern (18 bp):
GTCCCGAAGGACCACTAT
Found at i:124235 original size:19 final size:19
Alignment explanation
Indices: 124213--124254 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
124203 TTGATATACT
124213 ATTCCCATTTCATTATATA
1 ATTCCCATTTCATTATATA
*
124232 ATTCCCATTTCATTCTATA
1 ATTCCCATTTCATTATATA
124251 ATTC
1 ATTC
124255 AATCTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTCCCATTTCATTATATA
Found at i:125055 original size:45 final size:44
Alignment explanation
Indices: 124961--125062 Score: 134
Period size: 45 Copynumber: 2.3 Consensus size: 44
124951 GCACTACACC
* *
124961 ATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGA
* *
125006 ATGCATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-TA
1 ATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATGGA
125051 ATGCATCGATGC
1 ATGCATCGATGC
125063 TCTGCATGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
45 41 0.80
46 7 0.14
47 3 0.06
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (44 bp):
ATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGA
Found at i:138963 original size:3 final size:3
Alignment explanation
Indices: 138955--139019 Score: 105
Period size: 3 Copynumber: 21.7 Consensus size: 3
138945 TCGGGTCTTG
*
138955 TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA TAA TAA TAG TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
139000 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
139020 CGCTCAGATG
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.03
3 53 0.91
4 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:139380 original size:6 final size:6
Alignment explanation
Indices: 139345--139378 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
139335 TCGAAAAAAT
*
139345 TATTAA -ATTAA TATTAA TATTAA TATTAT TATTA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTA
139379 TTTTAAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TATTAA
Found at i:143140 original size:31 final size:31
Alignment explanation
Indices: 143120--143198 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
143110 TTTCAAGCTC
143120 GACTCGAACTCAAAAGAAAATATTGAAACTT
1 GACTCGAACTCAAAAGAAAATATTGAAACTT
*
143151 GACTCGAACTCGAAAGAAAATATTGAAACTT
1 GACTCGAACTCAAAAGAAAATATTGAAACTT
143182 GACTCGAACTCGAAAAG
1 GACTCGAACTC-AAAAG
143199 GCTCGAAATC
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
31 41 0.91
32 4 0.09
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.20
Consensus pattern (31 bp):
GACTCGAACTCAAAAGAAAATATTGAAACTT
Found at i:143278 original size:23 final size:24
Alignment explanation
Indices: 143221--143286 Score: 116
Period size: 24 Copynumber: 2.8 Consensus size: 24
143211 AAAAAATCAA
143221 AAGCTCGATTGAAACTCGAGACTC
1 AAGCTCGATTGAAACTCGAGACTC
143245 AAGCTCGATTGAAACTCGAGACTC
1 AAGCTCGATTGAAACTCGAGACTC
*
143269 GA-CTCGATTGAAACTCGA
1 AAGCTCGATTGAAACTCGA
143287 TTTTGAGCTC
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
23 16 0.39
24 25 0.61
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (24 bp):
AAGCTCGATTGAAACTCGAGACTC
Found at i:145941 original size:7 final size:7
Alignment explanation
Indices: 145926--146057 Score: 94
Period size: 7 Copynumber: 18.9 Consensus size: 7
145916 GTGCATAAAT
145926 TAAACCA
1 TAAACCA
*
145933 TAAATCA
1 TAAACCA
*
145940 TAAACCC
1 TAAACCA
*
145947 TAAGCTC-
1 TAAAC-CA
*
145954 TAAACTA
1 TAAACCA
*
145961 TAAACCC
1 TAAACCA
145968 TAAACCA
1 TAAACCA
*
145975 TGAATCC-
1 T-AAACCA
145982 TAAACCA
1 TAAACCA
*
145989 TAAACCC
1 TAAACCA
145996 TAAACCA
1 TAAACCA
*
146003 TAAACCT
1 TAAACCA
146010 TAAATCC-
1 TAAA-CCA
146017 TAAATCC-
1 TAAA-CCA
*
146024 TAAATCA
1 TAAACCA
*
146031 TAAACCC
1 TAAACCA
146038 TAAAACC-
1 T-AAACCA
146045 TAAACCA
1 TAAACCA
146052 TAAACC
1 TAAACC
146058 CTATCACATA
Statistics
Matches: 100, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
6 10 0.10
7 78 0.78
8 12 0.12
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.20
Consensus pattern (7 bp):
TAAACCA
Found at i:145985 original size:21 final size:21
Alignment explanation
Indices: 145961--146060 Score: 112
Period size: 21 Copynumber: 4.8 Consensus size: 21
145951 CTCTAAACTA
* * * *
145961 TAAACCCTAAACCATGAATCC
1 TAAACCATAAACCCTAAAACC
145982 TAAACCATAAACCCT-AAACC
1 TAAACCATAAACCCTAAAACC
* * *
146002 ATAAACCTTAAATCCTAAATCC
1 -TAAACCATAAACCCTAAAACC
*
146024 TAAATCATAAACCCTAAAACC
1 TAAACCATAAACCCTAAAACC
146045 TAAACCATAAACCCTA
1 TAAACCATAAACCCTA
146061 TCACATAATT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
20 4 0.06
21 58 0.88
22 4 0.06
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.20
Consensus pattern (21 bp):
TAAACCATAAACCCTAAAACC
Found at i:146060 original size:14 final size:14
Alignment explanation
Indices: 145926--146057 Score: 124
Period size: 14 Copynumber: 9.4 Consensus size: 14
145916 GTGCATAAAT
* *
145926 TAAACCATAAATCA
1 TAAACCATAAACCC
* * *
145940 TAAACCCTAAGCTC
1 TAAACCATAAACCC
*
145954 TAAACTATAAACCC
1 TAAACCATAAACCC
* *
145968 TAAACCATGAATCC
1 TAAACCATAAACCC
145982 TAAACCATAAACCC
1 TAAACCATAAACCC
*
145996 TAAACCATAAACCT
1 TAAACCATAAACCC
*
146010 TAAATCC-TAAATCC
1 TAAA-CCATAAACCC
*
146024 TAAATCATAAACCC
1 TAAACCATAAACCC
*
146038 TAAAACC-TAAACCA
1 T-AAACCATAAACCC
146052 TAAACC
1 TAAACC
146058 CTATCACATA
Statistics
Matches: 94, Mismatches: 21, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
13 6 0.06
14 82 0.87
15 6 0.06
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.20
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:146659 original size:11 final size:11
Alignment explanation
Indices: 146640--146707 Score: 59
Period size: 11 Copynumber: 5.9 Consensus size: 11
146630 AGATCCAATC
*
146640 AGAACAAAAAG
1 AGAAAAAAAAG
146651 AGAAAAAAAAG
1 AGAAAAAAAAG
*
146662 A-AAAAGAAACAT
1 AGAAAA-AAA-AG
146674 AGCAAAAAGAAA-
1 AG-AAAAA-AAAG
146686 AGAAAAAAAAG
1 AGAAAAAAAAG
146697 AGAAAAGAAAA
1 AGAAAA-AAAA
146708 AAAGAAATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
10 7 0.15
11 25 0.52
12 8 0.17
13 2 0.04
14 6 0.12
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.01
Consensus pattern (11 bp):
AGAAAAAAAAG
Found at i:146711 original size:15 final size:15
Alignment explanation
Indices: 146640--146712 Score: 60
Period size: 15 Copynumber: 4.7 Consensus size: 15
146630 AGATCCAATC
146640 AGAACAAAAAGAGAAA
1 AGAA-AAAAAGAGAAA
*
146656 A-AAAAGAAAAAGAAA
1 AGAAAA-AAAGAGAAA
* **
146671 CATAGCAAAA-AGAAA
1 -AGAAAAAAAGAGAAA
146686 AGAAAAAAAAGAGAAA
1 AG-AAAAAAAGAGAAA
146702 AGAAAAAAAGA
1 AGAAAAAAAGA
146713 AATTAAATCT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
14 3 0.07
15 29 0.63
16 12 0.26
17 2 0.04
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.01
Consensus pattern (15 bp):
AGAAAAAAAGAGAAA
Found at i:146759 original size:33 final size:33
Alignment explanation
Indices: 146719--146895 Score: 139
Period size: 33 Copynumber: 5.3 Consensus size: 33
146709 AAGAAATTAA
146719 ATCTTTGAGTTTGTTTCCCTTGAAACAATAACC
1 ATCTTTGAGTTTGTTTCCCTTGAAACAATAACC
* ** *
146752 ATATTTGAAATTGTTTCCCTCGAAACGAATTAA--
1 ATCTTTGAGTTTGTTTCCCTTGAAAC-AA-TAACC
* * *
146785 ATCTTTGAGTCTATTTCCTTTGAAACAA-AACAAAC
1 ATCTTTGAGTTTGTTTCCCTTGAAACAATAAC---C
* * * **
146820 ATCTTTGAGATCGTTTCCCTTGAAACAAATTATT
1 ATCTTTGAGTTTGTTTCCCTTGAAAC-AATAACC
*
146854 TTCTTTGA-TATTGTTTCCCTTGAAACAAT-ACC
1 ATCTTTGAGT-TTGTTTCCCTTGAAACAATAACC
146886 ATCTTTGAGT
1 ATCTTTGAGT
146896 CATTCCCTTG
Statistics
Matches: 108, Mismatches: 25, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
30 2 0.02
32 10 0.09
33 45 0.42
34 24 0.22
35 24 0.22
36 2 0.02
37 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.40
Consensus pattern (33 bp):
ATCTTTGAGTTTGTTTCCCTTGAAACAATAACC
Found at i:146894 original size:101 final size:99
Alignment explanation
Indices: 146719--146909 Score: 233
Period size: 101 Copynumber: 1.9 Consensus size: 99
146709 AAGAAATTAA
* *
146719 ATCTTTGAGTTTGTTTCCCTTGAAACAATAACCATATTTGAAATTGTTTCCCTCGAAACGAATTA
1 ATCTTTGAGATCGTTTCCCTTGAAACAATAACCATATTTGAAATTGTTTCCCTCGAAACGAATTA
*
146784 AATCTTTGAGTCTATTTCCTTTGAAACAAAACAAAC
66 AATCTTTGAGTC-A-TTCCCTTGAAACAAAACAAAC
* *** * * *
146820 ATCTTTGAGATCGTTTCCCTTGAAACAAATTATTTTCTTTGATATTGTTTCCCTTGAAAC-AA-T
1 ATCTTTGAGATCGTTTCCCTTGAAAC-AATAACCATATTTGAAATTGTTTCCCTCGAAACGAATT
*
146883 ACCATCTTTGAGTCATTCCCTTGAAAC
65 A-AATCTTTGAGTCATTCCCTTGAAAC
146910 GAATTTTATC
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
99 11 0.14
100 3 0.04
101 37 0.48
102 26 0.34
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (99 bp):
ATCTTTGAGATCGTTTCCCTTGAAACAATAACCATATTTGAAATTGTTTCCCTCGAAACGAATTA
AATCTTTGAGTCATTCCCTTGAAACAAAACAAAC
Found at i:147002 original size:39 final size:39
Alignment explanation
Indices: 146898--147343 Score: 571
Period size: 39 Copynumber: 11.6 Consensus size: 39
146888 CTTTGAGTCA
*
146898 TTCCCTTGAAAC-G-A-ATTTTATCTCGCTTGAGGTAGT
1 TTCCCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGT
* * *
146934 TTTCCTTGAAAC--AA-ATTTTATCTCGCTTGAGGTAGC
1 TTCCCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGT
*
146970 TTCCCTTGAAACAGAAGATTTTATCTCGCTTGAGATATT
1 TTCCCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGT
* * *
147009 TTCACTTGAAACAGAATATTTTATCTCGCTTGAGGTAGT
1 TTCCCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGT
*
147048 TTCCCTTGAAACAAAAGATTTTATCTCGCTTGAGATAGT
1 TTCCCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGT
* * * *
147087 TTCTCTCGAAACAGAAAATTTTATCTCTCTTGAGATAGT
1 TTCCCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGT
*
147126 TTCCCTTGAAACAGAAGATTTTATCTCACTTGAGATAGT
1 TTCCCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGT
* * * *
147165 TTCCCTCGAAACAAAAGATTTTGTCTCTCTTGAGATAGT
1 TTCCCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGT
* *
147204 TTCCCTCGAAATAGAAGATTTTATCTCGCTTGAGATAGT
1 TTCCCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGT
* *
147243 TTCCCTCGAAACAGAAGATTTTATTTCGCTTGAGATAGT
1 TTCCCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGT
* * * * *
147282 TTCCCTCGAAATACAAGATTTTGTCTCGCTTGAAATAGT
1 TTCCCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGT
* ** *
147321 TTCTCTCAAAACAAAAGATTTTA
1 TTCCCTTGAAACAGAAGATTTTA
147344 GAAACTAAGC
Statistics
Matches: 363, Mismatches: 43, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
36 44 0.12
38 2 0.01
39 317 0.87
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (39 bp):
TTCCCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGT
Found at i:147527 original size:90 final size:89
Alignment explanation
Indices: 147336--147554 Score: 393
Period size: 90 Copynumber: 2.4 Consensus size: 89
147326 TCAAAACAAA
* *
147336 AGATTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGTGTCATCCATAAGAC
1 AGATTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTT-TAAGTCCTTCGGGCCATCCATAAGAC
147401 CTTCAGTGCAGGATGTTTTCAAATG
65 CTTCAGTGCAGGATGTTTTCAAATG
*
147426 AGATTATAGAAACTAAGCCTTCGGGGGTTTCTTGATTTTAAGTCCTTCGGGCCATCCATAAGACC
1 AGATTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTTAAGTCCTTCGGGCCATCCATAAGACC
147491 TTCAGTGCAGGATGTTTTCAAATG
66 TTCAGTGCAGGATGTTTTCAAATG
147515 AGATTTTAAGAAACTAAGCCTTCGGGGGTTTCTTGATTTT
1 AGATTTT-AGAAACTAAGCCTTCGGGGGTTTCTTGATTTT
147555 TATATCCTTC
Statistics
Matches: 124, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
89 55 0.44
90 69 0.56
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.35
Consensus pattern (89 bp):
AGATTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTTAAGTCCTTCGGGCCATCCATAAGACC
TTCAGTGCAGGATGTTTTCAAATG
Found at i:147884 original size:3 final size:3
Alignment explanation
Indices: 147876--147902 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
147866 TAATATTAAC
147876 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
147903 TTAAAATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:150002 original size:20 final size:19
Alignment explanation
Indices: 149957--150004 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
149947 CATCACACCA
* *
149957 AATTCTCTCAATTTCTCTT
1 AATTCTCTCAAATACTCTT
149976 AACTTCTCTCAAATACTCTT
1 AA-TTCTCTCAAATACTCTT
149996 ATATTCTCT
1 A-ATTCTCT
150005 GTTTAAGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 22 0.88
21 1 0.04
ACGTcount: A:0.25, C:0.27, G:0.00, T:0.48
Consensus pattern (19 bp):
AATTCTCTCAAATACTCTT
Found at i:150053 original size:9 final size:9
Alignment explanation
Indices: 150041--150074 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
150031 TAATATTTTG
150041 TATTTAATT
1 TATTTAATT
*
150050 TATTTAA-G
1 TATTTAATT
150058 TATTTAATT
1 TATTTAATT
150067 TATTTAAT
1 TATTTAAT
150075 ATTTTACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TATTTAATT
Found at i:150080 original size:17 final size:17
Alignment explanation
Indices: 150040--150078 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
150030 TTAATATTTT
150040 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
150057 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
150074 -TATTT
1 GTATTT
150079 TACTTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:150981 original size:107 final size:107
Alignment explanation
Indices: 150795--151009 Score: 403
Period size: 107 Copynumber: 2.0 Consensus size: 107
150785 TCATCTGGTT
150795 GGATCACTCAGTCGGGGCTCACCAGTTTTGGCTTTCTTGTATAGGGAGATGTGTCGAGCCATTGA
1 GGATCACTCAGTCGGGGCTCACCAGTTTTGGCTTTCTTGTATAGGGAGATGTGTCGAGCCATTGA
150860 CTACAAGAGAAATGCTATCGGCGGATGTCTCCTGCTGCTGCA
66 CTACAAGAGAAATGCTATCGGCGGATGTCTCCTGCTGCTGCA
150902 GGATCACTCAGTCGGGGCTCACCAGTTTTGGCTTTCTTGTATAGGGAGATGTGTCGAGCCATTGA
1 GGATCACTCAGTCGGGGCTCACCAGTTTTGGCTTTCTTGTATAGGGAGATGTGTCGAGCCATTGA
* * *
150967 CTATAGGAGAAATGCTATCGGCGGATGTCTCCTGTTGCTGCA
66 CTACAAGAGAAATGCTATCGGCGGATGTCTCCTGCTGCTGCA
151009 G
1 G
151010 TCTTGGGCAT
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 105 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (107 bp):
GGATCACTCAGTCGGGGCTCACCAGTTTTGGCTTTCTTGTATAGGGAGATGTGTCGAGCCATTGA
CTACAAGAGAAATGCTATCGGCGGATGTCTCCTGCTGCTGCA
Found at i:152474 original size:13 final size:13
Alignment explanation
Indices: 152434--152476 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
152424 TATTTAGTAA
*
152434 TTTTATTGTAGTT
1 TTTTATTGTAATT
* * *
152447 GTTTATTGGACTT
1 TTTTATTGTAATT
152460 TTTTATTGTAATT
1 TTTTATTGTAATT
152473 TTTT
1 TTTT
152477 TTATTTATCA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.16, C:0.02, G:0.14, T:0.67
Consensus pattern (13 bp):
TTTTATTGTAATT
Done.