Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006691.1 Hibiscus syriacus cultivar Beakdansim tig00016637_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: 1195339
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:1039577 original size:105 final size:105
Alignment explanation
Indices: 1039365--1040098 Score: 737
Period size: 105 Copynumber: 7.2 Consensus size: 105
1039355 CAAAGCCAAA
* * * * * *
1039365 GATATTGGACTCAAGACGACACAAGCTCAACTCCACAGCGAAGGGGCGGCTGACTGTCAACAAAC
1 GATATTGGACCCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAA-AAAC
1039430 AATTT-C--G----A-AGCCAATCTCAACTTCACAGCGAAG
65 AATTTCCTAGTTTCAGAGCCAATCTCAACTTCACAGCGAAG
* * ** *
1039463 GATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAATAACA
1 GATATTGGACCCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAAAAACA
* * *
1039528 ATTTCCTAGTTTCAGGGCCAATTTCAACTTCACAGCGAAT
66 ATTTCCTAGTTTCAGAGCCAATCTCAACTTCACAGCGAAG
* * * *
1039568 GATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCGAAAAAC
1 GATATTGGACCCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTC-AAAAAC
*
1039633 AATTT-C--G-----GAGCCAATCTCAACTTCATAGCGAAG
65 AATTTCCTAGTTTCAGAGCCAATCTCAACTTCACAGCGAAG
* * * ** * *
1039666 TATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAATA
1 GATATTGGACCCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAAAAACA
* * * *
1039731 ATTTCCTAGTTTTAGGGTCAATTTCAACTTCACAGCGAAG
66 ATTTCCTAGTTTCAGAGCCAATCTCAACTTCACAGCGAAG
* *
1039771 GATATTGGACCCAAGACAGA-ACAAGCTCAACTTCACAACGAAGGGGCGGCTGACTGTCAACAAA
1 GATATTGGACCCGAGACA-ACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAA-AAA
* *
1039835 CAATTT-C-A-----A-AGCCAATCTCGACTTCACAGCGAAT
64 CAATTTCCTAGTTTCAGAGCCAATCTCAACTTCACAGCGAAG
* * * * ** **
1039869 GATATTGGACTCGAGACAGCACAAGCTCAACTTCACAGCGAAGGGACGTCTGGTTGTCACCAACA
1 GATATTGGACCCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAAAAACA
* *
1039934 ATTTCTTAGTTTCAG-GACCAATTTCAACTTCACAGCGAAG
66 ATTTCCTAGTTTCAGAG-CCAATCTCAACTTCACAGCGAAG
* * * * *
1039974 GATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCCGACTGTCAACAAAC
1 GATATTGGACCCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAA-AAAC
** * * *
1040039 AATTTCCCGGTTCCAGAACCAATCTCAACTTCACAGCGGAG
65 AATTTCCTAGTTTCAGAGCCAATCTCAACTTCACAGCGAAG
*
1040080 GATATTGGACCCGAAACAA
1 GATATTGGACCCGAGACAA
1040099 TATTTGGATT
Statistics
Matches: 518, Mismatches: 87, Indels: 54
0.79 0.13 0.08
Matches are distributed among these distances:
97 25 0.05
98 195 0.38
99 2 0.00
100 2 0.00
103 1 0.00
104 4 0.01
105 219 0.42
106 70 0.14
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.20
Consensus pattern (105 bp):
GATATTGGACCCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAAAAACA
ATTTCCTAGTTTCAGAGCCAATCTCAACTTCACAGCGAAG
Found at i:1039607 original size:203 final size:203
Alignment explanation
Indices: 1039365--1040098 Score: 1121
Period size: 203 Copynumber: 3.6 Consensus size: 203
1039355 CAAAGCCAAA
* *
1039365 GATATTGGACTCAAGAC-GACACAAGCTCAACTCCACAGCGAAGGGGCGGCTGACTGTCAACAAA
1 GATATTGGACCCAAGACAG-CACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAA
1039429 CAATTTCGAAGCCAATCTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAAC
65 CAATTTCGAAGCCAATCTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAAC
*
1039494 TTCACAACGAAGGGACGGCTGGTTGTCAATAACAATTTCCTAGTTTCAGGGCCAATTTCAACTTC
130 TTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCTAGTTTCAGGGCCAATTTCAACTTC
*
1039559 ACAGCGAAT
195 ACAGCGAAG
1039568 GATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCGAA-AAA
1 GATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTC-AACAAA
* * *
1039632 CAATTTCGGAGCCAATCTCAACTTCATAGCGAAGTATATTGGACTCGAGACAACACAAGTTCAAC
65 CAATTTCGAAGCCAATCTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAAC
* * *
1039697 TTCACAACGAAGGGACGGCTGGTTGTCAACAATAATTTCCTAGTTTTAGGGTCAATTTCAACTTC
130 TTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCTAGTTTCAGGGCCAATTTCAACTTC
1039762 ACAGCGAAG
195 ACAGCGAAG
* *
1039771 GATATTGGACCCAAGACAGAACAAGCTCAACTTCACAACGAAGGGGCGGCTGACTGTCAACAAAC
1 GATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAAC
* * * * *
1039836 AATTTCAAAGCCAATCTCGACTTCACAGCGAATGATATTGGACTCGAGACAGCACAAGCTCAACT
66 AATTTCGAAGCCAATCTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACT
* * * * *
1039901 TCACAGCGAAGGGACGTCTGGTTGTCACCAACAATTTCTTAGTTTCAGGACCAATTTCAACTTCA
131 TCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCTAGTTTCAGGGCCAATTTCAACTTCA
1039966 CAGCGAAG
196 CAGCGAAG
*
1039974 GATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCCGACTGTCAACAAAC
1 GATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAAC
* * * *
1040039 AATTTCCCGGTTCCAGAACCAATCTCAACTTCACAGCGGAGGATATTGGACCCGAAACAA
66 AATTT--C-G----A-AGCCAATCTCAACTTCACAGCGAAGGATATTGGACTCGAGACAA
1040099 TATTTGGATT
Statistics
Matches: 481, Mismatches: 39, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
202 2 0.00
203 437 0.91
204 3 0.01
205 1 0.00
210 1 0.00
211 37 0.08
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.20
Consensus pattern (203 bp):
GATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAAC
AATTTCGAAGCCAATCTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACT
TCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCTAGTTTCAGGGCCAATTTCAACTTCA
CAGCGAAG
Found at i:1040568 original size:3 final size:3
Alignment explanation
Indices: 1040560--1040587 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1040550 TTTCATCTGA
1040560 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1040588 TACAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1046519 original size:23 final size:23
Alignment explanation
Indices: 1046493--1046538 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1046483 AAGAACCAAG
*
1046493 ATAAA-CTTAAATATACCATTAAA
1 ATAAAGCTTAAACAT-CCATTAAA
*
1046516 ATAAAGTTTAAACATCCATTAAA
1 ATAAAGCTTAAACATCCATTAAA
1046539 CCAACCACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.30
Consensus pattern (23 bp):
ATAAAGCTTAAACATCCATTAAA
Found at i:1055394 original size:21 final size:21
Alignment explanation
Indices: 1055376--1055417 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1055366 ATTGCGATTT
*
1055376 TCCAAATTCGCAATGCGATAG
1 TCCAAAATCGCAATGCGATAG
* *
1055397 TCCAAAATCGCATTGTGATAG
1 TCCAAAATCGCAATGCGATAG
1055418 CACTGTTCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (21 bp):
TCCAAAATCGCAATGCGATAG
Found at i:1055437 original size:21 final size:21
Alignment explanation
Indices: 1055413--1055480 Score: 118
Period size: 21 Copynumber: 3.2 Consensus size: 21
1055403 ATCGCATTGT
*
1055413 GATAGCACTGTTCACCGTTAC
1 GATAGCACTGTTCACCGTTGC
*
1055434 GATAGCACTATTCACCGTTGC
1 GATAGCACTGTTCACCGTTGC
1055455 GATAGCACTGTTCACCGTTGC
1 GATAGCACTGTTCACCGTTGC
1055476 GATAG
1 GATAG
1055481 TGATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (21 bp):
GATAGCACTGTTCACCGTTGC
Found at i:1055437 original size:42 final size:43
Alignment explanation
Indices: 1055391--1055481 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 43
1055381 ATTCGCAATG
* *
1055391 CGATAGTC-CAAAATC-GCATTGTGATAGCACTGTTCACCGTTA
1 CGATAGTCAC-AAATCACCATTGCGATAGCACTGTTCACCGTTA
* * * *
1055433 CGATAG-CACTATTCACCGTTGCGATAGCACTGTTCACCGTTG
1 CGATAGTCACAAATCACCATTGCGATAGCACTGTTCACCGTTA
1055475 CGATAGT
1 CGATAGT
1055482 GATCAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
41 4 0.10
42 36 0.90
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (43 bp):
CGATAGTCACAAATCACCATTGCGATAGCACTGTTCACCGTTA
Found at i:1056187 original size:21 final size:21
Alignment explanation
Indices: 1056154--1056223 Score: 124
Period size: 21 Copynumber: 3.4 Consensus size: 21
1056144 TATCGCAAAT
1056154 TCGCAAT-GTGAACAGTGCTA
1 TCGCAATGGTGAACAGTGCTA
1056174 TCGCAATGGTGAACAGTGCTA
1 TCGCAATGGTGAACAGTGCTA
*
1056195 TCGCAACGGTGAACAGTGCTA
1 TCGCAATGGTGAACAGTGCTA
1056216 TCGCAATG
1 TCGCAATG
1056224 CGATTTTGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
20 7 0.15
21 40 0.85
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (21 bp):
TCGCAATGGTGAACAGTGCTA
Found at i:1056237 original size:21 final size:21
Alignment explanation
Indices: 1056213--1056269 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
1056203 GTGAACAGTG
1056213 CTATCGCAATGCGATTTTGGA
1 CTATCGCAATGCGATTTTGGA
* *
1056234 CTATCGCAACGCGAATTTGGA
1 CTATCGCAATGCGATTTTGGA
**
1056255 AAATCGCAATGCGAT
1 CTATCGCAATGCGAT
1056270 AGTCAGAATC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (21 bp):
CTATCGCAATGCGATTTTGGA
Found at i:1064288 original size:18 final size:18
Alignment explanation
Indices: 1064265--1064301 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1064255 TATTGATTTA
1064265 TTTATGCATGCATTATAT
1 TTTATGCATGCATTATAT
1064283 TTTATGCATGCATTATAT
1 TTTATGCATGCATTATAT
1064301 T
1 T
1064302 GTGTTCAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTATGCATGCATTATAT
Found at i:1067472 original size:26 final size:27
Alignment explanation
Indices: 1067434--1067492 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
1067424 TATTTAGAAA
* * *
1067434 ATTTT-AGGATTTTAAAAAAAAATGAT
1 ATTTTAAGTATTTTAAAAAATAAAGAT
*
1067460 ATTTTAAGTTTTTTAAAAAATAAAGAT
1 ATTTTAAGTATTTTAAAAAATAAAGAT
1067487 -TTTTAA
1 ATTTTAA
1067493 AAAAATAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (27 bp):
ATTTTAAGTATTTTAAAAAATAAAGAT
Found at i:1067491 original size:17 final size:16
Alignment explanation
Indices: 1067469--1067511 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
1067459 TATTTTAAGT
1067469 TTTTTAAAAAATAAAG
1 TTTTTAAAAAATAAAG
*
1067485 ATTTTTAAAAAAATAATG
1 -TTTTT-AAAAAATAAAG
1067503 TTTTTAAAA
1 TTTTTAAAA
1067512 TTATATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 10 0.42
18 10 0.42
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (16 bp):
TTTTTAAAAAATAAAG
Found at i:1067495 original size:18 final size:17
Alignment explanation
Indices: 1067465--1067511 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
1067455 ATGATATTTT
*
1067465 AAGTTTTTTAAAAAATA
1 AAGTTTTTAAAAAAATA
1067482 AAGATTTTTAAAAAAATA
1 AAG-TTTTTAAAAAAATA
*
1067500 ATGTTTTTAAAA
1 AAGTTTTTAAAA
1067512 TTATATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (17 bp):
AAGTTTTTAAAAAAATA
Found at i:1069660 original size:2 final size:2
Alignment explanation
Indices: 1069655--1069686 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1069645 TTTATAATCA
1069655 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
1069687 GTAGTGGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1070738 original size:15 final size:15
Alignment explanation
Indices: 1070720--1070750 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1070710 AAATTCTAAA
1070720 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
1070735 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
1070750 T
1 T
1070751 CTATCAGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:1071627 original size:24 final size:24
Alignment explanation
Indices: 1071563--1071619 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
1071553 AGCTTGGATG
* *
1071563 AAGCA-CATGCAACAACAGTGATC
1 AAGCAGCATGCAACAGCAATGATC
1071586 AAGCAGCATGCAACAGCAATGATC
1 AAGCAGCATGCAACAGCAATGATC
1071610 AAGCAGCATG
1 AAGCAGCATG
1071620 TTGCAGCAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 5 0.16
24 26 0.84
ACGTcount: A:0.42, C:0.25, G:0.21, T:0.12
Consensus pattern (24 bp):
AAGCAGCATGCAACAGCAATGATC
Found at i:1073217 original size:29 final size:30
Alignment explanation
Indices: 1073175--1073246 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 30
1073165 CCCGAAGGAC
1073175 CTATCCAGAGGTCACAAAGA-CCCCGGTAA
1 CTATCCAGAGGTCACAAAGATCCCCGGTAA
* *
1073204 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCACAAAGATCCCCGGTAA
* *
1073234 CTGTCCATAGGTC
1 CTATCCAGAGGTC
1073247 CCGAAAAACC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
29 19 0.50
30 19 0.50
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGATCCCCGGTAA
Found at i:1073270 original size:31 final size:31
Alignment explanation
Indices: 1073232--1073296 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
1073222 GATCCTCGGT
*
1073232 AACTGTCCATAGGTCCCGAAAAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAAAACATAGGTA
* * *
1073263 AACTGTCCATATGTCTCGAAAGACATAGGTA
1 AACTGTCCATAGGTCCCGAAAAACATAGGTA
1073294 AAC
1 AAC
1073297 CCTCGACTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCGAAAAACATAGGTA
Found at i:1078529 original size:30 final size:30
Alignment explanation
Indices: 1078470--1078571 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
1078460 CCCGAAGGAC
* * *
1078470 CTATCAAGAGGTCACAAAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1078499 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
1078529 CTGTCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
1078559 CTGTCCATAGGTC
1 CTATCCAGAGGTC
1078572 CCGAAGAACC
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
29 18 0.27
30 49 0.73
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:1078588 original size:30 final size:30
Alignment explanation
Indices: 1078478--1078607 Score: 118
Period size: 30 Copynumber: 4.3 Consensus size: 30
1078468 ACCTATCAAG
* * * *
1078478 AGGTCACAAAGA-CCCCGGTAACTATCCAG
1 AGGTCACGAAGATCCTCGGTAACTGTCCAT
** *
1078507 AGGTCATAAAGATCCTCGGTAACTGTCCAG
1 AGGTCACGAAGATCCTCGGTAACTGTCCAT
**
1078537 AGGTCATAAAGATCCTCGGTAACTGTCCAT
1 AGGTCACGAAGATCCTCGGTAACTGTCCAT
* * *
1078567 AGGTCCCGAAGAACCTAGGTAAACTGTCCAT
1 AGGTCACGAAGATCCTCGGT-AACTGTCCAT
* *
1078598 ATGTCTCGAA
1 AGGTCACGAA
1078608 AGACATAGGT
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 11 0.12
30 59 0.67
31 18 0.20
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (30 bp):
AGGTCACGAAGATCCTCGGTAACTGTCCAT
Found at i:1078588 original size:60 final size:60
Alignment explanation
Indices: 1078476--1078596 Score: 145
Period size: 60 Copynumber: 2.0 Consensus size: 60
1078466 GGACCTATCA
* * *
1078476 AGAGGTCACAAAGACCCCGGTAACTATCCAGAGGTCATAAAGATCCTCGGT-AACTGTCC
1 AGAGGTCACAAAGACCCCGGTAACTATCCAGAGGTCACAAAGAACCTAGGTAAACTGTCC
* * * * * *
1078535 AGAGGTCATAAAGATCCTCGGTAACTGTCCATAGGTCCCGAAGAACCTAGGTAAACTGTCC
1 AGAGGTCACAAAGA-CCCCGGTAACTATCCAGAGGTCACAAAGAACCTAGGTAAACTGTCC
1078596 A
1 A
1078597 TATGTCTCGA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 13 0.25
60 29 0.57
61 9 0.18
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (60 bp):
AGAGGTCACAAAGACCCCGGTAACTATCCAGAGGTCACAAAGAACCTAGGTAAACTGTCC
Found at i:1078595 original size:31 final size:31
Alignment explanation
Indices: 1078557--1078621 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
1078547 GATCCTCGGT
*
1078557 AACTGTCCATAGGTCCCG-AAGAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAAG-ACATAGGTA
* *
1078588 AACTGTCCATATGTCTCGAAAGACATAGGTA
1 AACTGTCCATAGGTCCCGAAAGACATAGGTA
1078619 AAC
1 AAC
1078622 CCTCGACTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 27 0.90
32 3 0.10
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCGAAAGACATAGGTA
Found at i:1085594 original size:22 final size:22
Alignment explanation
Indices: 1085568--1085632 Score: 114
Period size: 22 Copynumber: 3.0 Consensus size: 22
1085558 TGGATATATC
1085568 TCAGTGCTAAGGAACTTTAGTA
1 TCAGTGCTAAGGAACTTTAGTA
1085590 TCAGTGCTAAGGAACTTTAGTA
1 TCAGTGCTAAGGAACTTTAGTA
1085612 TCAGTGCTAA-GACACTTTAGT
1 TCAGTGCTAAGGA-ACTTTAGT
1085633 TGTTCTTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 2 0.05
22 40 0.95
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (22 bp):
TCAGTGCTAAGGAACTTTAGTA
Found at i:1089883 original size:52 final size:52
Alignment explanation
Indices: 1089803--1089904 Score: 195
Period size: 52 Copynumber: 2.0 Consensus size: 52
1089793 ATCAACCATC
*
1089803 GATCCATACGTTACCATCAGACAGAATTGGAAATTTCTTCACTATATATATA
1 GATCCATACGTTACCATCAGACAAAATTGGAAATTTCTTCACTATATATATA
1089855 GATCCATACGTTACCATCAGACAAAATTGGAAATTTCTTCACTATATATA
1 GATCCATACGTTACCATCAGACAAAATTGGAAATTTCTTCACTATATATA
1089905 ACGGTTGAGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (52 bp):
GATCCATACGTTACCATCAGACAAAATTGGAAATTTCTTCACTATATATATA
Found at i:1092307 original size:20 final size:20
Alignment explanation
Indices: 1092282--1092332 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
1092272 CTTTACACAG
*
1092282 TAATATTGATACCATGATCA
1 TAATATTGATACCATAATCA
1092302 TAATATTGATACCATAATCA
1 TAATATTGATACCATAATCA
*
1092322 TAGTATTGATA
1 TAATATTGATA
1092333 TTGGTCAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (20 bp):
TAATATTGATACCATAATCA
Found at i:1093457 original size:22 final size:22
Alignment explanation
Indices: 1093432--1093476 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
1093422 GAAGAGCTTG
1093432 AGGTATCTTCTAACTCTAGTGA
1 AGGTATCTTCTAACTCTAGTGA
1093454 AGGTATCTTCTAACTCTAGTGA
1 AGGTATCTTCTAACTCTAGTGA
1093476 A
1 A
1093477 TCTAATTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (22 bp):
AGGTATCTTCTAACTCTAGTGA
Found at i:1095105 original size:18 final size:18
Alignment explanation
Indices: 1095082--1095129 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 18
1095072 TACAAAATAG
1095082 GTATTGATACTCAAAGGA
1 GTATTGATACTCAAAGGA
1095100 GTATTGATAATACTCAAAGGA
1 GTATTG---ATACTCAAAGGA
1095121 GTATTGATA
1 GTATTGATA
1095130 ATACTTTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 9 0.33
21 18 0.67
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (18 bp):
GTATTGATACTCAAAGGA
Found at i:1095114 original size:21 final size:21
Alignment explanation
Indices: 1095088--1095134 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
1095078 ATAGGTATTG
1095088 ATACTCAAAGGAGTATTGATA
1 ATACTCAAAGGAGTATTGATA
1095109 ATACTCAAAGGAGTATTGATA
1 ATACTCAAAGGAGTATTGATA
1095130 ATACT
1 ATACT
1095135 TTACATAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.30
Consensus pattern (21 bp):
ATACTCAAAGGAGTATTGATA
Found at i:1100821 original size:27 final size:28
Alignment explanation
Indices: 1100783--1100843 Score: 97
Period size: 27 Copynumber: 2.2 Consensus size: 28
1100773 GAAAGGACTG
1100783 AAATACTCTTAAACTGTAAAAT-AACCA
1 AAATACTCTTAAACTGTAAAATGAACCA
* *
1100810 AAATACTCTTAAAGTGTAAAATGACCCA
1 AAATACTCTTAAACTGTAAAATGAACCA
1100838 AAATAC
1 AAATAC
1100844 CCCAAACCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 21 0.68
28 10 0.32
ACGTcount: A:0.51, C:0.18, G:0.07, T:0.25
Consensus pattern (28 bp):
AAATACTCTTAAACTGTAAAATGAACCA
Found at i:1101964 original size:32 final size:31
Alignment explanation
Indices: 1101927--1102032 Score: 95
Period size: 32 Copynumber: 3.3 Consensus size: 31
1101917 TAAGGTGACA
*
1101927 CTTGGGTAGGTTTTGAGGCCCCAAGGTATTTC
1 CTTGGGTAGGTTTT-AGGCCCCAAGGTATTCC
* * * *
1101959 TTTGGGTAGGCTCTAAGTCCCCAAGGTATTCC
1 CTTGGGTAGG-TTTTAGGCCCCAAGGTATTCC
* * ** *
1101991 CTTGGGTAGGCTCTTAGGCCTCAAGGTACACT
1 CTTGGGTAGG-TTTTAGGCCCCAAGGTATTCC
1102023 CTTGGGTAGG
1 CTTGGGTAGG
1102033 CTCTCAAGCC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
32 59 0.97
33 2 0.03
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.31
Consensus pattern (31 bp):
CTTGGGTAGGTTTTAGGCCCCAAGGTATTCC
Found at i:1102033 original size:32 final size:31
Alignment explanation
Indices: 1101960--1102078 Score: 114
Period size: 32 Copynumber: 3.7 Consensus size: 31
1101950 AGGTATTTCT
* ** *
1101960 TTGGGTAGGCTCTAAGTCCCCAAGGTATTCCC
1 TTGGGTAGGCTCTAAG-GCCCAAGGTACACTC
*
1101992 TTGGGTAGGCTCTTAGGCCTCAAGGTACACTC
1 TTGGGTAGGCTCTAAGGCC-CAAGGTACACTC
1102024 TTGGGTAGGCTCTCAA-GCCCTAAGGTACACTC
1 TTGGGTAGGCTCT-AAGGCCC-AAGGTACACTC
** *
1102056 TTATGTAGGCTCTCAAGCCCCAA
1 TTGGGTAGGCTCT-AAGGCCCAA
1102079 AACAATCCCT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
31 3 0.04
32 67 0.91
33 4 0.05
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (31 bp):
TTGGGTAGGCTCTAAGGCCCAAGGTACACTC
Found at i:1103398 original size:15 final size:14
Alignment explanation
Indices: 1103353--1103423 Score: 54
Period size: 15 Copynumber: 4.9 Consensus size: 14
1103343 AGTAATATAA
*
1103353 TTATATAAATATTTT
1 TTAT-TAAATATTAT
*
1103368 TTATTAAAATAATAT
1 TTATT-AAATATTAT
*
1103383 TTATATAATTATTAT
1 TTAT-TAAATATTAT
1103398 TTATTTAAAT-TTAT
1 TTA-TTAAATATTAT
* *
1103412 TAATTAATTATT
1 TTATTAAATATT
1103424 TTTTGTGCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
13 5 0.11
14 9 0.20
15 29 0.64
16 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATTAAATATTAT
Found at i:1107505 original size:10 final size:10
Alignment explanation
Indices: 1107490--1107526 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
1107480 ATAAAAATTA
1107490 AATATATAAT
1 AATATATAAT
*
1107500 AATATATGAT
1 AATATATAAT
1107510 AATATA-AAT
1 AATATATAAT
1107519 -ATATATAA
1 AATATATAA
1107527 CATTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 5 0.21
9 4 0.17
10 15 0.62
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (10 bp):
AATATATAAT
Found at i:1107581 original size:22 final size:22
Alignment explanation
Indices: 1107556--1107599 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1107546 AGATATTTTT
1107556 TAAAATTA-AAATAATAAATATG
1 TAAAATTATAAATAA-AAATATG
1107578 TAAAATTATTAAATAAAAATAT
1 TAAAATTA-TAAATAAAAATAT
1107600 ATTTGTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 6 0.30
24 6 0.30
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
TAAAATTATAAATAAAAATATG
Found at i:1109103 original size:30 final size:29
Alignment explanation
Indices: 1109063--1109120 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
1109053 AAACTTTTGG
*
1109063 AGGACAAAATT-GATTTTTTTTAAATTTTA
1 AGGACAAAATTAGA-TTTTTTAAAATTTTA
1109092 AGGATCAAAATTAGATTTTTTAAAATTTT
1 AGGA-CAAAATTAGATTTTTTAAAATTTT
1109121 GGGGACTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 4 0.15
30 20 0.77
31 2 0.08
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (29 bp):
AGGACAAAATTAGATTTTTTAAAATTTTA
Found at i:1109419 original size:3 final size:3
Alignment explanation
Indices: 1109411--1109450 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
1109401 ACACACATAT
*
1109411 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1109451 ACAAAAGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1111272 original size:21 final size:21
Alignment explanation
Indices: 1111246--1111342 Score: 142
Period size: 21 Copynumber: 4.7 Consensus size: 21
1111236 GCGAATAAGT
1111246 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
1111267 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* ** *
1111288 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
1111308 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
*
1111329 AAATCGCAATGCGA
1 AAATCGCAACGCGA
1111343 TACTGACTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
20 16 0.24
21 50 0.76
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:1111355 original size:41 final size:41
Alignment explanation
Indices: 1111269--1111403 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
1111259 AATTGGGAAA
* *
1111269 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
1111310 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
1111351 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
1111392 TTCGCAACGCGA
1 ATCGCAACGCGA
1111404 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:1111356 original size:20 final size:20
Alignment explanation
Indices: 1111331--1111465 Score: 112
Period size: 20 Copynumber: 6.7 Consensus size: 20
1111321 AATTGGGAAA
1111331 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
1111351 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* * *
1111372 ATCGCAACGAGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
1111392 TTCGCAACGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
1111412 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* *
1111432 TTCGCAATGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
1111452 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
1111466 TTTCAAAGCG
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.04
20 65 0.68
21 25 0.26
22 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:1111374 original size:62 final size:60
Alignment explanation
Indices: 1111229--1111380 Score: 191
Period size: 62 Copynumber: 2.5 Consensus size: 60
1111219 TTTTCCCAAT
*
1111229 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAG-AAATCGCAACGCGAATTGGGAAAATCGCAACGCGAACT-GGAAAA
* **
1111291 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGCAATGCGATACT-GACTA
1 TCGCAATGCGAATAAG-AAATCGCAACGCGAATTGGGAAAATCGCAACGCGA-ACTGGAAAA
1111352 TCGCAATGCGATAATACA-AAATCGCAACG
1 TCGCAATGCG--AATA-AGAAATCGCAACG
1111381 AGATACTTAC
Statistics
Matches: 82, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
61 13 0.16
62 62 0.76
63 6 0.07
64 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (60 bp):
TCGCAATGCGAATAAGAAATCGCAACGCGAATTGGGAAAATCGCAACGCGAACTGGAAAA
Found at i:1111404 original size:41 final size:41
Alignment explanation
Indices: 1111328--1111465 Score: 154
Period size: 41 Copynumber: 3.4 Consensus size: 41
1111318 GCGAATTGGG
* *
1111328 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAATGCGATAATAC
* * * *
1111369 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAATGCGATAAT-AC
** *
1111411 --TTTCGCAACGCGATTCTGACTTTCGCAATGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAATGCGATAATAC
* *
1111450 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
1111466 TTTCAAAGCG
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
39 2 0.03
40 30 0.38
41 44 0.56
42 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAATGCGATAATAC
Found at i:1111661 original size:22 final size:22
Alignment explanation
Indices: 1111633--1111676 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1111623 CACTCTCTCA
1111633 CCCATCTCCGACAAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
* *
1111655 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
1111677 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACAAAATCCGTC
Found at i:1111976 original size:20 final size:20
Alignment explanation
Indices: 1111917--1111980 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
1111907 GCGATTTTAG
* *
1111917 TTTCTCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATAGTCAT
*
1111937 ATTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
1111957 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
1111977 TTTC
1 TTTC
1111981 AGAAACTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.16, C:0.19, G:0.20, T:0.45
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:1113339 original size:18 final size:18
Alignment explanation
Indices: 1113295--1113339 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1113285 TCCACTTCGG
*
1113295 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
1113313 GATCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
1113331 GAGCCATCA
1 GAGCCATCA
1113340 TCTGATCGAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.44, G:0.13, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:1113850 original size:20 final size:20
Alignment explanation
Indices: 1113825--1113877 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1113815 TAGTTTACTT
*
1113825 TCGCAATACGAAAATGACTA
1 TCGCAATGCGAAAATGACTA
* * *
1113845 TCGCAACGCGGAAATGGCTA
1 TCGCAATGCGAAAATGACTA
1113865 TCGCAATGCGAAA
1 TCGCAATGCGAAA
1113878 TGAAAATTGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (20 bp):
TCGCAATGCGAAAATGACTA
Found at i:1113889 original size:19 final size:19
Alignment explanation
Indices: 1113844--1113946 Score: 99
Period size: 19 Copynumber: 5.6 Consensus size: 19
1113834 GAAAATGACT
***
1113844 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGAAA
*
1113864 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
* *
1113883 ATTGCAA--CG--A-CAAA
1 ATCGCAACGCGAAATGAAA
1113897 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
1113916 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
1113935 ATCGCAATGCGA
1 ATCGCAACGCGA
1113947 TTTTTGTTTC
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
14 9 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 45 0.65
20 9 0.13
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:1113977 original size:14 final size:14
Alignment explanation
Indices: 1113958--1114015 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1113948 TTTTGTTTCG
1113958 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1113972 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
1113988 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
1114004 CGTTGCGATTTT
1 CGTTGCGATTTT
1114016 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1114022 original size:33 final size:33
Alignment explanation
Indices: 1113942--1114031 Score: 146
Period size: 32 Copynumber: 2.8 Consensus size: 33
1113932 AAAATCGCAA
**
1113942 TGCGATTTTTGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTTTGTCGT
1113975 TGCGA-TTTCATTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTTTGTCGT
*
1114007 TGCGATTTTCATTTCGCATTGCGAT
1 TGCGATTTTCATTTCGCGTTGCGAT
1114032 AGCCATTTTC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
32 30 0.57
33 23 0.43
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTTTGTCGT
Found at i:1114030 original size:19 final size:17
Alignment explanation
Indices: 1113953--1114031 Score: 62
Period size: 14 Copynumber: 4.8 Consensus size: 17
1113943 GCGATTTTTG
1113953 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
1113969 TGTCG-TTGCGATTTCA
1 TTTCGCTTGCGATTTCA
1113985 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
1114001 TGTCG-TTGCGATTTTCA
1 TTTCGCTTGCGA-TTTCA
1114018 TTTCGCATTGCGAT
1 TTTCGC-TTGCGAT
1114032 AGCCATTTTC
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
14 15 0.30
15 3 0.06
16 12 0.24
17 4 0.08
18 10 0.20
19 6 0.12
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (17 bp):
TTTCGCTTGCGATTTCA
Found at i:1114048 original size:20 final size:20
Alignment explanation
Indices: 1114018--1114071 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1114008 GCGATTTTCA
*
1114018 TTTCGCATTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
* *
1114038 TTTCGTGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGCCAT
1114058 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
1114072 TTTAAGTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:1115946 original size:14 final size:14
Alignment explanation
Indices: 1115927--1115962 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1115917 ATTGTTTAAT
1115927 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1115941 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1115955 TGATTTGT
1 TGATTTGT
1115963 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1116101 original size:19 final size:19
Alignment explanation
Indices: 1116079--1116146 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
1116069 ATCGCAACGA
*
1116079 GAAAAGCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
1116098 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
1116117 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
1116131 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
1116147 TTTTCATTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 29 0.64
ACGTcount: A:0.47, C:0.18, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:1116190 original size:20 final size:20
Alignment explanation
Indices: 1116165--1116222 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
1116155 TCGCATTGCG
*
1116165 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
1116185 ATTTTCGCGTTACGATAGCC
1 ATTTTCGCGTTGCGATAGCC
1116205 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
1116223 TCAAATGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:1117524 original size:12 final size:12
Alignment explanation
Indices: 1117507--1117531 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1117497 ATATAATCCT
1117507 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1117519 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1117531 G
1 G
1117532 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1119848 original size:19 final size:19
Alignment explanation
Indices: 1119826--1119953 Score: 88
Period size: 19 Copynumber: 7.5 Consensus size: 19
1119816 AATTACTATT
1119826 GCAATGCGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
*
1119845 GCAA--CG--A-GAGAATC
1 GCAATGCGAAATGAAAATC
1119859 GCAATGCGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
* **
1119878 GCAA--CG--CT-AATTTC
1 GCAATGCGAAATGAAAATC
1119892 GCAATGCGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
**
1119911 GCAAT--G--A-GGGAATC
1 GCAATGCGAAATGAAAATC
1119925 GCAATGCGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
*
1119944 GCAACGCGAA
1 GCAATGCGAA
1119954 TTTAATTTCG
Statistics
Matches: 81, Mismatches: 13, Indels: 30
0.65 0.10 0.24
Matches are distributed among these distances:
14 28 0.35
15 3 0.04
16 5 0.06
17 5 0.06
18 3 0.04
19 37 0.46
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (19 bp):
GCAATGCGAAATGAAAATC
Found at i:1119868 original size:33 final size:33
Alignment explanation
Indices: 1119826--1119949 Score: 187
Period size: 33 Copynumber: 3.8 Consensus size: 33
1119816 AATTACTATT
1119826 GCAATGCGAAATGAAAATCGCAACGAGAGAATC
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATC
** *
1119859 GCAATGCGAAATGAAAATCGCAACGCTA-ATTTC
1 GCAATGCGAAATGAAAATCGCAACGAGAGA-ATC
* *
1119892 GCAATGCGAAATGAAAATCGCAATGAGGGAATC
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATC
1119925 GCAATGCGAAATGAAAATCGCAACG
1 GCAATGCGAAATGAAAATCGCAACG
1119950 CGAATTTAAT
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
32 1 0.01
33 78 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (33 bp):
GCAATGCGAAATGAAAATCGCAACGAGAGAATC
Found at i:1119932 original size:66 final size:66
Alignment explanation
Indices: 1119826--1119956 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 66
1119816 AATTACTATT
*
1119826 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAATTT
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
1119891 C
66 C
* *
1119892 GCAATGCGAAATGAAAATCGCAATGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
1119957 AATTTCGCGT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (66 bp):
GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
C
Found at i:1119981 original size:14 final size:14
Alignment explanation
Indices: 1119964--1120020 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1119954 TTTAATTTCG
1119964 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1119978 CGTTGCGATTTTCATTTCA
1 CGTTGCGA--TTC---TCT
1119997 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1120011 CGTTGCGATT
1 CGTTGCGATT
1120021 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1120001 original size:33 final size:33
Alignment explanation
Indices: 1119949--1120038 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
1119939 AAATCGCAAC
* *
1119949 GCGAATTTAATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
1119982 GCGATTTTCATTTCACGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
1120015 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
1120039 AGTACTTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.43
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Found at i:1120002 original size:19 final size:19
Alignment explanation
Indices: 1119978--1120038 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
1119968 GCGATTCTCT
1119978 CGTTGCGATTTTCATTTCA
1 CGTTGCGATTTTCATTTCA
*
1119997 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCA
*
1120011 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCA
*
1120030 CATTGCGAT
1 CGTTGCGAT
1120039 AGTACTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
16 3 0.09
17 3 0.09
19 18 0.53
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCA
Found at i:1120164 original size:14 final size:14
Alignment explanation
Indices: 1120145--1120181 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1120135 CATCAATTAA
1120145 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1120159 ACAAATCACCTTTT
1 ACAAATCAACTTTT
1120173 ACAAATCAA
1 ACAAATCAA
1120182 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1121622 original size:42 final size:42
Alignment explanation
Indices: 1121576--1121655 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
1121566 CGATGACAGT
* * *
1121576 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
1121618 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
1121656 CAGGCAAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:1123688 original size:20 final size:19
Alignment explanation
Indices: 1123657--1123835 Score: 144
Period size: 19 Copynumber: 9.8 Consensus size: 19
1123647 TCTTTTGGTT
1123657 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
1123676 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
1123697 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
1123716 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
** *
1123730 GAAATGACTATCGCGACGA
1 GAAATGAAAATCGCAACGA
* *
1123749 G--A-G--AATCGTAACGC
1 GAAATGAAAATCGCAACGA
*
1123763 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
* *
1123782 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
1123801 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
1123820 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1123836 TGCGATTTTT
Statistics
Matches: 131, Mismatches: 17, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
14 18 0.14
16 4 0.03
17 4 0.03
19 74 0.56
20 29 0.22
21 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:1123739 original size:33 final size:33
Alignment explanation
Indices: 1123682--1123780 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
1123672 ACGAGATAAT
1123682 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
1123716 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
* **
1123749 GAGAATCGTAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
1123781 CGAAATAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
33 46 0.77
34 14 0.23
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:1123774 original size:19 final size:19
Alignment explanation
Indices: 1123752--1123840 Score: 151
Period size: 19 Copynumber: 4.7 Consensus size: 19
1123742 GCGACGAGAG
*
1123752 AATCGTAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
1123771 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
1123790 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
1123809 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
1123828 AATCGCAATGCGA
1 AATCGCAACGCGA
1123841 TTTTTGTTTC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 66 1.00
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:1123858 original size:19 final size:20
Alignment explanation
Indices: 1123836--1123883 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
1123826 AAAATCGCAA
*
1123836 TGCGATTTTTGTTT-CGCGT
1 TGCGATTTTTATTTCCGCGT
**
1123855 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTTCCGCGT
*
1123875 TGTGATTTT
1 TGCGATTTT
1123884 CATTCTCGAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.10, C:0.15, G:0.25, T:0.50
Consensus pattern (20 bp):
TGCGATTTTTATTTCCGCGT
Found at i:1124429 original size:20 final size:20
Alignment explanation
Indices: 1124400--1124452 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1124390 GCGCTATGTA
*
1124400 AATCGCGTTGCGAAAGTCAG
1 AATCGTGTTGCGAAAGTCAG
*
1124420 AATCGTGTTGCGAAATTCAG
1 AATCGTGTTGCGAAAGTCAG
*
1124440 TATC-TCGTTGCGA
1 AATCGT-GTTGCGA
1124453 TTTTGTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (20 bp):
AATCGTGTTGCGAAAGTCAG
Found at i:1124486 original size:20 final size:20
Alignment explanation
Indices: 1124461--1124514 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
1124451 GATTTTGTAT
1124461 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
* *
1124481 TATCGCATTGTGATAGTCAG
1 TATCGCATTGCGATAGTAAG
1124501 TATCGCATTGCGAT
1 TATCGCATTGCGAT
1124515 TTTTCCAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:1125812 original size:42 final size:42
Alignment explanation
Indices: 1125753--1125894 Score: 248
Period size: 42 Copynumber: 3.4 Consensus size: 42
1125743 CGTTGCGATT
*
1125753 TTGGACTATCGCAACGAATTTGGAATAAATCTCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCACAACGCGAAC
*
1125795 TTGGACTATCGCAACGAACTTGGAATAAATCACAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCACAACGCGAAC
*
1125837 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCACAACGCGAAC
*
1125879 TTCGACTATCGCAACG
1 TTGGACTATCGCAACG
1125895 CGAACTTGGA
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 95 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (42 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCACAACGCGAAC
Found at i:1125869 original size:63 final size:61
Alignment explanation
Indices: 1125802--1125969 Score: 214
Period size: 63 Copynumber: 2.7 Consensus size: 61
1125792 AACTTGGACT
* *
1125802 ATCGCAACGAACTTGGAATAAATCACAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTCGAAT--ATCACAACGCGAACTTGGACTATCGCAACGAATTTGAAATAA
* *
1125865 ATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTGGACTATCGCAACGAATTTGAAATAA
1 ATCGCAA--CGAACTTCGAATATCACAACGCGAACTTGGACTATCGCAACGAATTTGAAATAA
* *
1125928 ATCGCAACGCGAACTTCGACTATCGCAA--CGAACTTGGACTAT
1 ATCGCAA--CGAACTTCGAATATCACAACGCGAACTTGGACTAT
1125970 TTAGTTGGTC
Statistics
Matches: 99, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
61 14 0.14
63 75 0.76
65 10 0.10
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (61 bp):
ATCGCAACGAACTTCGAATATCACAACGCGAACTTGGACTATCGCAACGAATTTGAAATAA
Found at i:1125911 original size:42 final size:41
Alignment explanation
Indices: 1125753--1125915 Score: 220
Period size: 42 Copynumber: 3.9 Consensus size: 41
1125743 CGTTGCGATT
* *
1125753 TTGGACTATCGCAACGAATTTGGAATAAATCTCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAAT-AATCGCAACGCGAAC
*
1125795 TTGGACTATCGCAACGAACTTGGAATAAATCACAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAAT-AATCGCAACGCGAAC
*
1125837 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAAT-AATCGCAACGCGAAC
* *
1125879 TTCGACTATCGCAACGCGAACTTGGACT-ATCGCAACG
1 TTGGACTATCGCAA--CGAACTTGGAATAATCGCAACG
1125916 AATTTGAAAT
Statistics
Matches: 112, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
42 102 0.91
44 10 0.09
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.21
Consensus pattern (41 bp):
TTGGACTATCGCAACGAACTTGGAATAATCGCAACGCGAAC
Found at i:1133981 original size:17 final size:17
Alignment explanation
Indices: 1133959--1133992 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1133949 GATGAAAATA
*
1133959 TTTCTTCTTCTTCTTCC
1 TTTCTTCTTCCTCTTCC
1133976 TTTCTTCTTCCTCTTCC
1 TTTCTTCTTCCTCTTCC
1133993 CGTAAGAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTCTTCTTCCTCTTCC
Found at i:1135337 original size:22 final size:22
Alignment explanation
Indices: 1135307--1135367 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
1135297 GGGTTTATGC
* * *
1135307 GGTCCTTCGAGACATATACAGT-
1 GGTCTTTCGGGACAAATACA-TA
1135329 GGTCTTTCGGGACAAATACATA
1 GGTCTTTCGGGACAAATACATA
1135351 GGTCTTTCGGGACAAAT
1 GGTCTTTCGGGACAAAT
1135368 TTCATATGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 1 0.03
22 34 0.97
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (22 bp):
GGTCTTTCGGGACAAATACATA
Found at i:1136214 original size:2 final size:2
Alignment explanation
Indices: 1136202--1136238 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1136192 TAAGAATGAG
1136202 AT AT A- 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
1136239 GATAATAGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1136887 original size:24 final size:22
Alignment explanation
Indices: 1136840--1136897 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
1136830 GCATGTGAAC
* *
1136840 TATGTCCCAAAGGACCTATGCA
1 TATGTCCCGAAGGACCTATCCA
1136862 TATGTCCCGAAGGACCACTATCCA
1 TATGTCCCGAAGGA-C-CTATCCA
*
1136886 TATGTTCCGAAG
1 TATGTCCCGAAG
1136898 AACATAGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 13 0.42
23 1 0.03
24 17 0.55
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (22 bp):
TATGTCCCGAAGGACCTATCCA
Found at i:1142476 original size:3 final size:3
Alignment explanation
Indices: 1142468--1142497 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1142458 AATGAAGATT
1142468 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1142498 ACAGTGAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:1150813 original size:12 final size:12
Alignment explanation
Indices: 1150796--1150829 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
1150786 CTAACATTCG
1150796 CAATTCTTCCCC
1 CAATTCTTCCCC
1150808 CAATTCTTCCCC
1 CAATTCTTCCCC
1150820 CAATTCTTCC
1 CAATTCTTCC
1150830 TCGCGTTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.18, C:0.47, G:0.00, T:0.35
Consensus pattern (12 bp):
CAATTCTTCCCC
Found at i:1155942 original size:12 final size:12
Alignment explanation
Indices: 1155925--1155958 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
1155915 CTAACATTCG
1155925 CAATTCTTCCCC
1 CAATTCTTCCCC
1155937 CAATTCTTCCCC
1 CAATTCTTCCCC
*
1155949 CAATCCTTCC
1 CAATTCTTCC
1155959 TCGCGTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.50, G:0.00, T:0.32
Consensus pattern (12 bp):
CAATTCTTCCCC
Found at i:1160763 original size:12 final size:13
Alignment explanation
Indices: 1160738--1160767 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
1160728 CGAGAAGAGG
1160738 AAGAGAGTGAAGA
1 AAGAGAGTGAAGA
1160751 AAGAGAG-GAAGA
1 AAGAGAGTGAAGA
1160763 AAGAG
1 AAGAG
1160768 GACCTGCAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.03
Consensus pattern (13 bp):
AAGAGAGTGAAGA
Found at i:1162491 original size:23 final size:23
Alignment explanation
Indices: 1162465--1162516 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
1162455 AACACAAACG
* *
1162465 AACGAACATAATAAATGAACATA
1 AACGAACACAATAAACGAACATA
1162488 AACGAACACAATAAACGAACATA
1 AACGAACACAATAAACGAACATA
1162511 AACGAA
1 AACGAA
1162517 TAACACAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.62, C:0.17, G:0.10, T:0.12
Consensus pattern (23 bp):
AACGAACACAATAAACGAACATA
Found at i:1162501 original size:13 final size:13
Alignment explanation
Indices: 1162448--1162508 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
1162438 TATTTCAATG
1162448 ATAAACGAACACA
1 ATAAACGAACACA
*
1162461 A-ACGAACGAACATA
1 ATA--AACGAACACA
*
1162475 ATAAATG-A-AC-
1 ATAAACGAACACA
1162485 ATAAACGAACACA
1 ATAAACGAACACA
1162498 ATAAACGAACA
1 ATAAACGAACA
1162509 TAAACGAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
10 6 0.16
11 2 0.05
12 4 0.11
13 15 0.39
14 10 0.26
15 1 0.03
ACGTcount: A:0.61, C:0.20, G:0.10, T:0.10
Consensus pattern (13 bp):
ATAAACGAACACA
Found at i:1162526 original size:23 final size:23
Alignment explanation
Indices: 1162481--1162526 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1162471 CATAATAAAT
* *
1162481 GAACATAAACGAACACAATAAAC
1 GAACATAAACGAAAACAACAAAC
1162504 GAACATAAACGAATAAC-ACAAAC
1 GAACATAAACGAA-AACAACAAAC
1162527 ACAAAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.61, C:0.22, G:0.09, T:0.09
Consensus pattern (23 bp):
GAACATAAACGAAAACAACAAAC
Found at i:1167811 original size:2 final size:2
Alignment explanation
Indices: 1167806--1167830 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1167796 AAAAAGTGTT
1167806 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 T
1167831 TACTCTGCAC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1170883 original size:21 final size:21
Alignment explanation
Indices: 1170810--1170884 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 21
1170800 AAATATATAG
1170810 ATATTTTAGATAATTTAAATAAT
1 ATATTTTA-ATAA-TTAAATAAT
**
1170833 ATATTTT-ATAATTATTTACA-
1 ATATTTTAATAATTAAATA-AT
*
1170853 ATATTATAATAATTAAATAAT
1 ATATTTTAATAATTAAATAAT
1170874 ATATTTTAATA
1 ATATTTTAATA
1170885 TTATAAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
20 12 0.28
21 24 0.56
23 7 0.16
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (21 bp):
ATATTTTAATAATTAAATAAT
Found at i:1170895 original size:21 final size:22
Alignment explanation
Indices: 1170810--1170895 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 22
1170800 AAATATATAG
1170810 ATATTTTAGATAATT-TAAATAAT
1 ATATTTTA-ATAATTATAAA-AAT
** *
1170833 ATATTTT-ATAATTATTTACA-
1 ATATTTTAATAATTATAAAAAT
* *
1170853 ATATTATAATAATTA-AATAAT
1 ATATTTTAATAATTATAAAAAT
1170874 ATATTTTAAT-ATTATAAAAAT
1 ATATTTTAATAATTATAAAAAT
1170895 A
1 A
1170896 AAAATATATA
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
20 11 0.22
21 29 0.59
22 2 0.04
23 7 0.14
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (22 bp):
ATATTTTAATAATTATAAAAAT
Found at i:1170912 original size:32 final size:29
Alignment explanation
Indices: 1170852--1170914 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
1170842 AATTATTTAC
* * *
1170852 AATATTATAATAATTAAATAATATATTTT
1 AATATTATAAAAATAAAATAATAAATTTT
1170881 AATATTATAAAAATAAAAATATATAAAATTTT
1 AATATTATAAAAAT-AAAATA-AT-AAATTTT
1170913 AA
1 AA
1170915 ATATATTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 13 0.46
30 5 0.18
31 2 0.07
32 8 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
AATATTATAAAAATAAAATAATAAATTTT
Found at i:1172684 original size:9 final size:9
Alignment explanation
Indices: 1172663--1172715 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
1172653 GAAAAGAAGG
*
1172663 ACAAACATC
1 ACAAAGATC
*
1172672 ACAAAGATA
1 ACAAAGATC
*
1172681 ACAAGGATC
1 ACAAAGATC
1172690 AC-AAGCATC
1 ACAAAG-ATC
*
1172699 ACAAAGACC
1 ACAAAGATC
1172708 ACAAAGAT
1 ACAAAGAT
1172716 GAAGGGATGG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
8 2 0.06
9 30 0.86
10 3 0.09
ACGTcount: A:0.55, C:0.25, G:0.11, T:0.09
Consensus pattern (9 bp):
ACAAAGATC
Found at i:1172788 original size:27 final size:27
Alignment explanation
Indices: 1172758--1172846 Score: 97
Period size: 27 Copynumber: 3.1 Consensus size: 27
1172748 CCACGGTGAC
* *
1172758 AAAGACAACGACGACAAACACCACAAG
1 AAAGACAAAGACGACAAACATCACAAG
1172785 AAAGACAAAGACAAAGACGATAAGCATCACAAG
1 AAAGACAAAGAC---GAC-A-AA-CATCACAAG
*
1172818 AAAGACAAAGACGACAAGCATCACAAG
1 AAAGACAAAGACGACAAACATCACAAG
1172845 AA
1 AA
1172847 GGATAAGGAC
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
27 22 0.42
28 1 0.02
29 1 0.02
30 6 0.11
31 1 0.02
32 2 0.04
33 20 0.38
ACGTcount: A:0.57, C:0.22, G:0.17, T:0.03
Consensus pattern (27 bp):
AAAGACAAAGACGACAAACATCACAAG
Found at i:1172797 original size:33 final size:33
Alignment explanation
Indices: 1172755--1172829 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
1172745 GATCCACGGT
*
1172755 GACAAAGACAACGACGACAAACACCACAAGAAA
1 GACAAAGACAAAGACGACAAACACCACAAGAAA
* * *
1172788 GACAAAGACAAAGACGATAAGCATCACAAGAAA
1 GACAAAGACAAAGACGACAAACACCACAAGAAA
1172821 GACAAAGAC
1 GACAAAGAC
1172830 GACAAGCATC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.57, C:0.23, G:0.17, T:0.03
Consensus pattern (33 bp):
GACAAAGACAAAGACGACAAACACCACAAGAAA
Found at i:1172858 original size:27 final size:27
Alignment explanation
Indices: 1172791--1172846 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
1172781 CAAGAAAGAC
*
1172791 AAAGACAAAGACGATAAGCATCACAAG
1 AAAGACAAAGACGACAAGCATCACAAG
1172818 AAAGACAAAGACGACAAGCATCACAAG
1 AAAGACAAAGACGACAAGCATCACAAG
1172845 AA
1 AA
1172847 GGATAAGGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.57, C:0.20, G:0.18, T:0.05
Consensus pattern (27 bp):
AAAGACAAAGACGACAAGCATCACAAG
Found at i:1177574 original size:42 final size:39
Alignment explanation
Indices: 1177480--1177574 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 39
1177470 GGTTTATGGT
* **
1177480 TTACAACCGAAAATGTTTTGAAGAATATAATATTTTCGG
1 TTACAATCGAAAATGTTACGAAGAATATAATATTTTCGG
**
1177519 TTGTAATCGAAAATGTTACGAAGAATATAATATTTTCGTCGG
1 TTACAATCGAAAATGTTACGAAGAATATAATA-TTT--TCGG
*
1177561 TTACAATTGAAAAT
1 TTACAATCGAAAAT
1177575 ATTATTTTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
39 27 0.60
40 3 0.07
42 15 0.33
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (39 bp):
TTACAATCGAAAATGTTACGAAGAATATAATATTTTCGG
Found at i:1180268 original size:43 final size:43
Alignment explanation
Indices: 1180195--1180463 Score: 135
Period size: 43 Copynumber: 6.2 Consensus size: 43
1180185 TTTCAACAAA
** * *
1180195 AAAACGCCGCAATAGGT-TACAACATATAGCGGCGATTGT-TCA-
1 AAAACGCCGCAATAGGTAT-TGATATTTAGCGGCGATT-TATCAT
*
1180237 ACAAACGCCGCAAAAGGTATTGATATTTAGCGGCG-TTTATCATT
1 A-AAACGCCGCAATAGGTATTGATATTTAGCGGCGATTTATCA-T
* * ** *
1180281 AAAACGCCGCAATAGGTTTTGATATTTAACGGC-ATTTGGCAG
1 AAAACGCCGCAATAGGTATTGATATTTAGCGGCGATTTATCAT
* * ** *
1180323 ACAAACGCCGCAATA-GTCGTTGATGTTTAGCGGCTTTTTTTTCA-
1 A-AAACGCCGCAATAGGT-ATTGATATTTAGCGGC-GATTTATCAT
** * * * * *
1180367 AAAACGCCGCAATAAATTTTTATTTTTACCGGCG-TTT-TCCT
1 AAAACGCCGCAATAGGTATTGATATTTAGCGGCGATTTATCAT
* * * *
1180408 AAAAACGCCGCAGAATATGTATTGAGATTTTGCGGCGTTTTTATCA-
1 -AAAACGCCGC--AATAGGTATTGATATTTAGCGGCG-ATTTATCAT
1180454 AAAACGCCGC
1 AAAACGCCGC
1180464 TAAATGTATG
Statistics
Matches: 176, Mismatches: 33, Indels: 33
0.73 0.14 0.14
Matches are distributed among these distances:
40 2 0.01
41 4 0.02
42 19 0.11
43 111 0.63
44 20 0.11
45 15 0.09
46 3 0.02
47 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (43 bp):
AAAACGCCGCAATAGGTATTGATATTTAGCGGCGATTTATCAT
Found at i:1180864 original size:21 final size:21
Alignment explanation
Indices: 1180800--1180908 Score: 103
Period size: 21 Copynumber: 5.2 Consensus size: 21
1180790 TGATATATTA
* * *
1180800 CTTCTCTCTGTTCTACCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* * *
1180821 CCTCTCTCTGTGCTGCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
1180842 CTTCTCTCTCTGCTTCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* **
1180863 CTGCTCTAGCTGCTTCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* *
1180884 CTGCTCTCTCTGTTTCC-CTTG
1 CTTCTCTCTCTGCTTCCGC-TG
1180905 CTTC
1 CTTC
1180909 ATTTTCCGCT
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
20 1 0.01
21 73 0.99
ACGTcount: A:0.02, C:0.40, G:0.17, T:0.40
Consensus pattern (21 bp):
CTTCTCTCTCTGCTTCCGCTG
Found at i:1190641 original size:41 final size:41
Alignment explanation
Indices: 1190575--1190735 Score: 213
Period size: 41 Copynumber: 4.0 Consensus size: 41
1190565 CGTTTATACA
1190575 AAAAAACGCCACTATTGATTA-CACTATT-CTGGCGTTTGTT
1 AAAAAACGCCACTATTGATTATCACTATTGC-GGCGTTTGTT
1190615 AAAAAACGCCACTATTGATTATCACTATTGCGGCGTTT-TT
1 AAAAAACGCCACTATTGATTATCACTATTGCGGCGTTTGTT
* * * **
1190655 CTAAAAACGCCATTATTGATTAACACTATTATGGCGTTTGTCT
1 -AAAAAACGCCACTATTGATTATCACTATTGCGGCGTTTGT-T
*
1190698 -AAAAACACCACTATTGATTATCACTATTGCGGCGTTTG
1 AAAAAACGCCACTATTGATTATCACTATTGCGGCGTTTG
1190736 AGGAATAAAC
Statistics
Matches: 106, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
40 23 0.22
41 80 0.75
42 2 0.02
43 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (41 bp):
AAAAAACGCCACTATTGATTATCACTATTGCGGCGTTTGTT
Found at i:1190693 original size:82 final size:81
Alignment explanation
Indices: 1190576--1190734 Score: 266
Period size: 82 Copynumber: 2.0 Consensus size: 81
1190566 GTTTATACAA
* *
1190576 AAAAACGCCACTATTGATTACACTATTCTGGCGTTTGT-TAAAAAACGCCACTATTGATTATCAC
1 AAAAACGCCACTATTGATTACACTATTATGGCGTTTGTCT-AAAAACACCACTATTGATTATCAC
1190640 TATTGCGGCGTTTTTCT
65 TATTGCGGCGTTTTTCT
*
1190657 AAAAACGCCATTATTGATTAACACTATTATGGCGTTTGTCTAAAAACACCACTATTGATTATCAC
1 AAAAACGCCACTATTGATT-ACACTATTATGGCGTTTGTCTAAAAACACCACTATTGATTATCAC
1190722 TATTGCGGCGTTT
65 TATTGCGGCGTTT
1190735 GAGGAATAAA
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
81 18 0.25
82 54 0.74
83 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.35
Consensus pattern (81 bp):
AAAAACGCCACTATTGATTACACTATTATGGCGTTTGTCTAAAAACACCACTATTGATTATCACT
ATTGCGGCGTTTTTCT
Found at i:1190810 original size:42 final size:42
Alignment explanation
Indices: 1190764--1190959 Score: 166
Period size: 42 Copynumber: 4.7 Consensus size: 42
1190754 ATGTGTAATA
* *
1190764 TATTGCGGCGTTTGTGGTATAAACGCCACGAATTTACCACTC
1 TATTGCGGCGTTTGTGGTATAAACGCCGCAAATTTACCACTC
* * *
1190806 TATTGCGGCGTTT-TGGCT-CAATCGCCGCAAAATTTA-TACTC
1 TATTGCGGCGTTTGTGG-TATAAACGCCGC-AAATTTACCACTC
* * *
1190847 TATTGTGGCGTTTGTGGTATAAACGCCGCTAATTTACCACCC
1 TATTGCGGCGTTTGTGGTATAAACGCCGCAAATTTACCACTC
* * * * * * *
1190889 TATTGCGGCATTTTTTGTAAAAACGCCGCTATATGT-CAACTC
1 TATTGCGGCGTTTGTGGTATAAACGCCGC-AAATTTACCACTC
* ** *
1190931 TATTGCAGCGTTTGTACTAAAAACGCCGC
1 TATTGCGGCGTTTGTGGTATAAACGCCGC
1190960 TAAAGTATCA
Statistics
Matches: 122, Mismatches: 26, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
41 33 0.27
42 86 0.70
43 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (42 bp):
TATTGCGGCGTTTGTGGTATAAACGCCGCAAATTTACCACTC
Found at i:1191228 original size:25 final size:25
Alignment explanation
Indices: 1191194--1191245 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
1191184 AAGAAAAACA
1191194 ATCTGCCGCTAATATTAGTAATATC
1 ATCTGCCGCTAATATTAGTAATATC
1191219 ATCTGCCGCTAATATTAGTAATATC
1 ATCTGCCGCTAATATTAGTAATATC
1191244 AT
1 AT
1191246 GCCCACTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (25 bp):
ATCTGCCGCTAATATTAGTAATATC
Found at i:1191538 original size:130 final size:131
Alignment explanation
Indices: 1191298--1191560 Score: 519
Period size: 130 Copynumber: 2.0 Consensus size: 131
1191288 ATACTTTATG
1191298 TAGATAATATGAATTTATCAAAGCCAAATGCCCCTTATAATAAAATAACTGATTTTTTTATTATA
1 TAGATAATATGAATTTATCAAAGCCAAATGCCCCTTATAATAAAATAACTGATTTTTTTATTATA
1191363 ATGTTGAATGATGATTTTAAAAGTTGAAATAATAATGATGAGATTAATATATATGAGGGTAAAGT
66 ATGTTGAATGATGATTTTAAAAGTTGAAATAATAATGATGAGATTAATATATATGAGGGTAAAGT
1191428 A
131 A
1191429 TAGATAATATGAATTTATCAAAGCCAAATGCCCCTTATAATAAAATAACTGA-TTTTTTATTATA
1 TAGATAATATGAATTTATCAAAGCCAAATGCCCCTTATAATAAAATAACTGATTTTTTTATTATA
1191493 ATGTTGAATGATGATTTTAAAAGTTGAAATAATAATGATGAGATTAATATATATGAGGGTAAAGT
66 ATGTTGAATGATGATTTTAAAAGTTGAAATAATAATGATGAGATTAATATATATGAGGGTAAAGT
1191558 A
131 A
1191559 TA
1 TA
1191561 ATGGTATTAT
Statistics
Matches: 132, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
130 80 0.61
131 52 0.39
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (131 bp):
TAGATAATATGAATTTATCAAAGCCAAATGCCCCTTATAATAAAATAACTGATTTTTTTATTATA
ATGTTGAATGATGATTTTAAAAGTTGAAATAATAATGATGAGATTAATATATATGAGGGTAAAGT
A
Done.