Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003924.1 Hibiscus syriacus cultivar Beakdansim tig00008483_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: 1466330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
File 3 of 5
Found at i:658243 original size:132 final size:133
Alignment explanation
Indices: 657988--658252 Score: 320
Period size: 132 Copynumber: 2.0 Consensus size: 133
657978 AGGAAGTTTT
* ** *
657988 TGAAGGCTCCTTTGTTGTGTGCAAGGGTGAGACCTTACCATTTCTTAAGGCTCCTTTACTGTGTG
1 TGAAGGCTCCTCTACTGTGTGCAAGGGTGAGACCTTACCATTTCTAAAGGCTCCTTTACTGTGTG
** ** ** * * *
658053 CAAGGATGAGACCTTACAATTTTTAAAGGCTCCTCTACTGTGTGTTAGGGTGGAACCTTGCCA-T
66 CAAGGATGAGACCTTACAATTTCCAAAGGCTCCTCTACCATGTGCAAGAGTGAAACCTTACCACT
658117 TTC
131 TTC
*
658120 TGAAGGCTCCTCTACTGTGTGCAAGGGTGAGACCTTACCATTTCTAAAGGCT-CTTCTGCTGTGT
1 TGAAGGCTCCTCTACTGTGTGCAAGGGTGAGACCTTACCATTTCTAAAGGCTCCTT-TACTGTGT
* ** * *
658184 GCAAGGGTGAGACCTTACCGTTTCCATAGGCTCCTCTTCCATGTGCAAGAGT-AATACCTTACCA
65 GCAAGGATGAGACCTTACAATTTCCAAAGGCTCCTCTACCATGTGCAAGAGTGAA-ACCTTACCA
658248 CTTTC
129 CTTTC
658253 CACAGGCTAC
Statistics
Matches: 111, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
131 4 0.04
132 103 0.93
133 4 0.04
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (133 bp):
TGAAGGCTCCTCTACTGTGTGCAAGGGTGAGACCTTACCATTTCTAAAGGCTCCTTTACTGTGTG
CAAGGATGAGACCTTACAATTTCCAAAGGCTCCTCTACCATGTGCAAGAGTGAAACCTTACCACT
TTC
Found at i:670132 original size:24 final size:24
Alignment explanation
Indices: 670105--670180 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
670095 AACGGATATA
*
670105 TCAAAAATCAAAACATAATCCAGG
1 TCAAAAATCAAAACAAAATCCAGG
** * *
670129 TCAAGTATCAGATCAAAATCCAGG
1 TCAAAAATCAAAACAAAATCCAGG
** * * *
670153 TCAAGTATCATATCAAAATCCAAG
1 TCAAAAATCAAAACAAAATCCAGG
670177 TCAA
1 TCAA
670181 GTATTCGATC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.47, C:0.21, G:0.11, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAAAATCCAGG
Found at i:670181 original size:24 final size:23
Alignment explanation
Indices: 670121--670232 Score: 134
Period size: 24 Copynumber: 4.7 Consensus size: 23
670111 ATCAAAACAT
670121 AATCCAGGTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATC-GATCAA
*
670145 AATCCAGGTCAAGTATCATATCAA
1 AATCCAGGTCAAGTATC-GATCAA
* *
670169 AATCCAAGTCAAGTATTCGATCAG
1 AATCCAGGTCAAGTA-TCGATCAA
* *
670193 AATCCATGTCAAGTATCTGATCAG
1 AATCCAGGTCAAGTATC-GATCAA
*
670217 AATCCAGGTCAGGTAT
1 AATCCAGGTCAAGTAT
670233 TATAATAGAA
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 2 0.03
24 75 0.95
25 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.25
Consensus pattern (23 bp):
AATCCAGGTCAAGTATCGATCAA
Found at i:670191 original size:48 final size:49
Alignment explanation
Indices: 670121--670233 Score: 151
Period size: 48 Copynumber: 2.3 Consensus size: 49
670111 ATCAAAACAT
670121 AATCCAGGTCAAGTA-TCAGATCAAAATCCAGGTCAAGTATCAT-ATCAA
1 AATCCAGGTCAAGTATTCAGATCAAAATCCAGGTCAAGTATC-TGATCAA
* * * *
670169 AATCCAAGTCAAGTATTC-GATCAGAATCCATGTCAAGTATCTGATCAG
1 AATCCAGGTCAAGTATTCAGATCAAAATCCAGGTCAAGTATCTGATCAA
*
670217 AATCCAGGTCAGGTATT
1 AATCCAGGTCAAGTATT
670234 ATAATAGAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 1 0.02
48 54 0.95
49 2 0.04
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (49 bp):
AATCCAGGTCAAGTATTCAGATCAAAATCCAGGTCAAGTATCTGATCAA
Found at i:672732 original size:19 final size:19
Alignment explanation
Indices: 672710--672749 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
672700 TCGTGTAAAT
* *
672710 GGATCGGGGTTGGGTCAAC
1 GGATCAGGGTCGGGTCAAC
672729 GGATCAGGGTCGGGTCAAC
1 GGATCAGGGTCGGGTCAAC
672748 GG
1 GG
672750 GTTGGGAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.47, T:0.17
Consensus pattern (19 bp):
GGATCAGGGTCGGGTCAAC
Found at i:675854 original size:31 final size:31
Alignment explanation
Indices: 675819--675885 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
675809 TCATAACCCG
* * *
675819 ACCCGACCCGACCCATTTACCCGACCCGTTT
1 ACCCGACCCGACCCATTGACCCAACCCGTTA
*
675850 ACCCGACCCGACCCGTTGACCCAACCCGTTA
1 ACCCGACCCGACCCATTGACCCAACCCGTTA
675881 ACCCG
1 ACCCG
675886 TTGACCGTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.21, C:0.49, G:0.15, T:0.15
Consensus pattern (31 bp):
ACCCGACCCGACCCATTGACCCAACCCGTTA
Found at i:675858 original size:18 final size:18
Alignment explanation
Indices: 675837--675891 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
675827 CGACCCATTT
* *
675837 ACCCGACCCGTTTACCCG
1 ACCCGACCCGTTGACCCA
675855 ACCCGACCCGTTGACCCA
1 ACCCGACCCGTTGACCCA
675873 ACCCGTTAACCCGTTGACC
1 ACCCG---ACCCGTTGACC
675892 GTTGACCGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 21 0.66
21 11 0.34
ACGTcount: A:0.20, C:0.47, G:0.16, T:0.16
Consensus pattern (18 bp):
ACCCGACCCGTTGACCCA
Found at i:675871 original size:13 final size:13
Alignment explanation
Indices: 675824--675859 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
675814 ACCCGACCCG
*
675824 ACCCGACCCATTT
1 ACCCGACCCGTTT
675837 ACCCGACCCGTTT
1 ACCCGACCCGTTT
675850 ACCCGACCCG
1 ACCCGACCCG
675860 ACCCGTTGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.19, C:0.50, G:0.14, T:0.17
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:678425 original size:12 final size:12
Alignment explanation
Indices: 678405--678474 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
678395 GATACATTAC
*
678405 CTGAATTCTGTT
1 CTGATTTCTGTT
*
678417 CTGATTTCTGAT
1 CTGATTTCTGTT
678429 CTGGA-TTCTGTT
1 CT-GATTTCTGTT
* *
678441 CTGATATCTGAT
1 CTGATTTCTGTT
* * *
678453 ATGAATTCAGTT
1 CTGATTTCTGTT
*
678465 TTGATTTCTG
1 CTGATTTCTG
678475 ATATCTCCAT
Statistics
Matches: 43, Mismatches: 13, Indels: 4
0.72 0.22 0.07
Matches are distributed among these distances:
11 2 0.05
12 39 0.91
13 2 0.05
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:678436 original size:24 final size:24
Alignment explanation
Indices: 678406--678478 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
678396 ATACATTACC
*
678406 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATTTCTGATA
* *
678430 TGGATTCTGTTCTGATATCTGATA
1 TGAATTCTGTTCTGATTTCTGATA
* *
678454 TGAATTCAGTTTTGATTTCTGATA
1 TGAATTCTGTTCTGATTTCTGATA
678478 T
1 T
678479 CTCCATTTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.49
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTGATA
Found at i:680560 original size:13 final size:13
Alignment explanation
Indices: 680538--680569 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
680528 AACCCGACCC
680538 GACCCAACCCGTT
1 GACCCAACCCGTT
*
680551 GACCCGACCCGTT
1 GACCCAACCCGTT
680564 GACCCA
1 GACCCA
680570 TTGACCGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.22, C:0.47, G:0.19, T:0.12
Consensus pattern (13 bp):
GACCCAACCCGTT
Found at i:683122 original size:24 final size:24
Alignment explanation
Indices: 683094--683164 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
683084 ACATTACCTA
683094 AATTCTGTTCTGATTTCTGATCA-G
1 AATTCTGTTCTGATTTCTGAT-ATG
* * * *
683118 GATTCTGTTCTGATATATTATATG
1 AATTCTGTTCTGATTTCTGATATG
*
683142 AATTCTGTTTTGATTTCTGATAT
1 AATTCTGTTCTGATTTCTGATAT
683165 CTCCGTTTAC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
23 1 0.03
24 36 0.97
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.51
Consensus pattern (24 bp):
AATTCTGTTCTGATTTCTGATATG
Found at i:690956 original size:24 final size:24
Alignment explanation
Indices: 690929--691057 Score: 109
Period size: 24 Copynumber: 5.4 Consensus size: 24
690919 TATATCAAAA
*
690929 ATCAAAACATAAAT-CAGGTCAAGT
1 ATCAAATCA-AAATCCAGGTCAAGT
* *
690953 ATCATATCAAACTCCAGGTCAAGT
1 ATCAAATCAAAATCCAGGTCAAGT
* *
690977 ATCAGATCAAAATCCAAGTCAAGT
1 ATCAAATCAAAATCCAGGTCAAGT
* * * *
691001 ATCAGATCATAATCTATGTC-AGAT
1 ATCAAATCAAAATCCAGGTCAAG-T
* * *
691025 ATCATATCAGAATCCATGTCAAGT
1 ATCAAATCAAAATCCAGGTCAAGT
*
691049 ATCAGATCA
1 ATCAAATCA
691058 GAATTCAAAT
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
23 5 0.06
24 82 0.92
25 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (24 bp):
ATCAAATCAAAATCCAGGTCAAGT
Found at i:691058 original size:24 final size:24
Alignment explanation
Indices: 690946--691061 Score: 137
Period size: 24 Copynumber: 4.8 Consensus size: 24
690936 CATAAATCAG
* *
690946 GTCAAGTATCATATCA-AACTCCAG
1 GTCAAGTATCAGATCAGAA-TCCAT
* *
690970 GTCAAGTATCAGATCAAAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
* *
690994 GTCAAGTATCAGATCATAATCTAT
1 GTCAAGTATCAGATCAGAATCCAT
*
691018 GTC-AGATATCATATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
691042 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
691062 TCAAATAGAA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
23 2 0.03
24 74 0.93
25 4 0.05
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.27
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:697135 original size:9 final size:9
Alignment explanation
Indices: 697121--697229 Score: 56
Period size: 9 Copynumber: 11.4 Consensus size: 9
697111 GGCTGCTGGA
697121 AACCGGTTT
1 AACCGGTTT
697130 AACCGGTTTT
1 AACCGG-TTT
*
697140 CAAGCGGTTCT
1 -AACCGGTT-T
*
697151 GACCGGTTT
1 AACCGGTTT
* * *
697160 GACCAGTCTG
1 AACCGGT-TT
697170 AACCGGTTT
1 AACCGGTTT
* * * *
697179 GATCTGTCTG
1 AACCGGT-TT
697189 AACCGGTTT
1 AACCGGTTT
*
697198 AACCGGTCTG
1 AACCGGT-TT
697208 AACCGGTTT
1 AACCGGTTT
* *
697217 GACCGGTCT
1 AACCGGTTT
697226 AACC
1 AACC
697230 CGACCCGACC
Statistics
Matches: 73, Mismatches: 21, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
9 37 0.51
10 30 0.41
11 6 0.08
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.29
Consensus pattern (9 bp):
AACCGGTTT
Found at i:697176 original size:19 final size:19
Alignment explanation
Indices: 697148--697229 Score: 114
Period size: 19 Copynumber: 4.4 Consensus size: 19
697138 TTCAAGCGGT
*
697148 TCTG-ACCGGTTTGACCAG
1 TCTGAACCGGTTTGACCGG
* *
697166 TCTGAACCGGTTTGATCTG
1 TCTGAACCGGTTTGACCGG
*
697185 TCTGAACCGGTTTAACCGG
1 TCTGAACCGGTTTGACCGG
697204 TCTGAACCGGTTTGACCGG
1 TCTGAACCGGTTTGACCGG
697223 TCT-AACC
1 TCTGAACC
697230 CGACCCGACC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
18 8 0.14
19 49 0.86
ACGTcount: A:0.18, C:0.27, G:0.26, T:0.29
Consensus pattern (19 bp):
TCTGAACCGGTTTGACCGG
Found at i:697257 original size:22 final size:22
Alignment explanation
Indices: 697231--697273 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
697221 GGTCTAACCC
697231 GACCCGACCCGACCGTTGACCT
1 GACCCGACCCGACCGTTGACCT
697253 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
697274 GTTGACCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.47, G:0.23, T:0.12
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCT
Found at i:704450 original size:20 final size:20
Alignment explanation
Indices: 704425--704480 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
704415 GGCTGCTGGA
*
704425 AACCGGTTTAACCGGTTTTC-
1 AACCGGTTTGACCGG-TTTCG
704445 AACCGGTTATGACCGG-TTCG
1 AACCGGTT-TGACCGGTTTCG
704465 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
704481 CTGACCCGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 10 0.31
20 16 0.50
21 6 0.19
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.29
Consensus pattern (20 bp):
AACCGGTTTGACCGGTTTCG
Found at i:704461 original size:10 final size:9
Alignment explanation
Indices: 704426--704486 Score: 50
Period size: 10 Copynumber: 6.3 Consensus size: 9
704416 GCTGCTGGAA
*
704426 ACCGGTTTA
1 ACCGGTTTG
*
704435 ACCGGTTTTCA
1 ACCGG-TTT-G
704446 ACCGGTTATG
1 ACCGGTT-TG
*
704456 ACCGGTTCG
1 ACCGGTTTG
704465 AACCGGTTTG
1 -ACCGGTTTG
*
704475 ACCGGTCTG
1 ACCGGTTTG
704484 ACC
1 ACC
704487 CGACCGACCA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
9 17 0.39
10 20 0.45
11 7 0.16
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:704523 original size:17 final size:17
Alignment explanation
Indices: 704501--704538 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
704491 CGACCAACCC
* *
704501 GACCCGACCGGACCGTT
1 GACCCGACCCGACCATT
704518 GACCCGACCCGACCATT
1 GACCCGACCCGACCATT
704535 GACC
1 GACC
704539 ATTGACTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.21, C:0.45, G:0.24, T:0.11
Consensus pattern (17 bp):
GACCCGACCCGACCATT
Found at i:708313 original size:18 final size:18
Alignment explanation
Indices: 708290--708342 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
708280 TGACTGGTCA
*
708290 CGACCCGACCCGTTTACC
1 CGACCCGACCCGTTGACC
708308 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
* *
708326 CGACTCGATCCGTTGAC
1 CGACCCGACCCGTTGAC
708343 TCGTTGACCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.17, C:0.45, G:0.21, T:0.17
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:708325 original size:8 final size:8
Alignment explanation
Indices: 708314--708406 Score: 75
Period size: 8 Copynumber: 11.5 Consensus size: 8
708304 TACCCGACCC
708314 GACCCGTT
1 GACCCGTT
*
708322 GACCCGACTC
1 GACCCG--TT
*
708332 GATCCGTT
1 GACCCGTT
*
708340 GACTCGTT
1 GACCCGTT
708348 GA-CCGTT
1 GACCCGTT
*
708355 GACCCGACTC
1 GACCCG--TT
*
708365 GATCCGTT
1 GACCCGTT
*
708373 GACTCGTT
1 GACCCGTT
708381 GA-CCGTT
1 GACCCGTT
708388 GACCCGTT
1 GACCCGTT
708396 GA-CCGTT
1 GACCCGTT
708403 GACC
1 GACC
708407 GGTGTTGACC
Statistics
Matches: 66, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
7 19 0.29
8 35 0.53
10 12 0.18
ACGTcount: A:0.15, C:0.34, G:0.25, T:0.26
Consensus pattern (8 bp):
GACCCGTT
Found at i:708355 original size:15 final size:15
Alignment explanation
Indices: 708335--708406 Score: 90
Period size: 15 Copynumber: 4.6 Consensus size: 15
708325 CCGACTCGAT
*
708335 CCGTTGACTCGTTGA
1 CCGTTGACCCGTTGA
*
708350 CCGTTGACCCGACTCGA
1 CCGTTGACCCG--TTGA
*
708367 TCCGTTGACTCGTTGA
1 -CCGTTGACCCGTTGA
708383 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
708398 CCGTTGACC
1 CCGTTGACC
708407 GGTGTTGACC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
15 33 0.67
16 3 0.06
17 3 0.06
18 10 0.20
ACGTcount: A:0.14, C:0.33, G:0.25, T:0.28
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:708357 original size:33 final size:33
Alignment explanation
Indices: 708317--708393 Score: 154
Period size: 33 Copynumber: 2.3 Consensus size: 33
708307 CCGACCCGAC
708317 CCGTTGACCCGACTCGATCCGTTGACTCGTTGA
1 CCGTTGACCCGACTCGATCCGTTGACTCGTTGA
708350 CCGTTGACCCGACTCGATCCGTTGACTCGTTGA
1 CCGTTGACCCGACTCGATCCGTTGACTCGTTGA
708383 CCGTTGACCCG
1 CCGTTGACCCG
708394 TTGACCGTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.14, C:0.35, G:0.25, T:0.26
Consensus pattern (33 bp):
CCGTTGACCCGACTCGATCCGTTGACTCGTTGA
Found at i:708373 original size:18 final size:18
Alignment explanation
Indices: 708299--708375 Score: 88
Period size: 18 Copynumber: 4.4 Consensus size: 18
708289 ACGACCCGAC
* * *
708299 CCGTTTACCCGACCCGAC
1 CCGTTGACCCGACTCGAT
708317 CCGTTGACCCGACTCGAT
1 CCGTTGACCCGACTCGAT
* *
708335 CCGTTGACTCG--TTGA-
1 CCGTTGACCCGACTCGAT
708350 CCGTTGACCCGACTCGAT
1 CCGTTGACCCGACTCGAT
708368 CCGTTGAC
1 CCGTTGAC
708376 TCGTTGACCG
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
15 10 0.20
16 3 0.06
17 3 0.06
18 33 0.67
ACGTcount: A:0.16, C:0.39, G:0.22, T:0.23
Consensus pattern (18 bp):
CCGTTGACCCGACTCGAT
Found at i:717782 original size:25 final size:25
Alignment explanation
Indices: 717752--717801 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
717742 CTTCAATATG
717752 ATCTAGCAAATCACTCCCTTTAATA
1 ATCTAGCAAATCACTCCCTTTAATA
717777 ATCTAGCAAATCACTCCCTTTAATA
1 ATCTAGCAAATCACTCCCTTTAATA
717802 TTCAGTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.32
Consensus pattern (25 bp):
ATCTAGCAAATCACTCCCTTTAATA
Found at i:728757 original size:29 final size:29
Alignment explanation
Indices: 728716--728790 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
728706 CACATTCGAA
* *
728716 AATTACCAAAATGTCACTTTTTTCAAAAT
1 AATTCCCAAAATGTCACATTTTTCAAAAT
* *
728745 AATTCCCAGAATGTCACATTTTTCACAAT
1 AATTCCCAAAATGTCACATTTTTCAAAAT
728774 AATTCCCAAAATGTCAC
1 AATTCCCAAAATGTCAC
728791 CGAGTCGGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.33
Consensus pattern (29 bp):
AATTCCCAAAATGTCACATTTTTCAAAAT
Found at i:728813 original size:12 final size:13
Alignment explanation
Indices: 728796--728831 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
728786 GTCACCGAGT
728796 CGGGTCGGGTC-A
1 CGGGTCGGGTCAA
728808 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
728821 CGGGTCGGGTC
1 CGGGTCGGGTC
728832 GGGTCAGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.08, C:0.25, G:0.50, T:0.17
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:728860 original size:19 final size:19
Alignment explanation
Indices: 728838--728911 Score: 103
Period size: 19 Copynumber: 3.9 Consensus size: 19
728828 GGTCGGGTCA
*
728838 GACCGGTCAACCCGGTTCG
1 GACCGGTCAAACCGGTTCG
*
728857 GACCGGTCAACCCGGTTCG
1 GACCGGTCAAACCGGTTCG
* * *
728876 GACCTGTCAAATCGGTTCA
1 GACCGGTCAAACCGGTTCG
728895 GACCGGTCAAACCGGTT
1 GACCGGTCAAACCGGTT
728912 TATACCGGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.20, C:0.32, G:0.28, T:0.19
Consensus pattern (19 bp):
GACCGGTCAAACCGGTTCG
Found at i:733139 original size:17 final size:17
Alignment explanation
Indices: 733117--733158 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
733107 AGCCAACAGA
* *
733117 GGTCAACGCCGGTCAAC
1 GGTCAACACAGGTCAAC
733134 GGTCAACACAGGTCAAC
1 GGTCAACACAGGTCAAC
*
733151 AGTCAACA
1 GGTCAACA
733159 TTTGACCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.31, G:0.24, T:0.12
Consensus pattern (17 bp):
GGTCAACACAGGTCAAC
Found at i:738408 original size:5 final size:5
Alignment explanation
Indices: 738398--738435 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
738388 GAAAAGTTAA
*
738398 CCGAC CCGAC CCGAC CCGAC CCGA- CCG-C CTGAC CCGAC
1 CCGAC CCGAC CCGAC CCGAC CCGAC CCGAC CCGAC CCGAC
738436 TGCCCGACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 5 0.17
5 24 0.83
ACGTcount: A:0.18, C:0.58, G:0.21, T:0.03
Consensus pattern (5 bp):
CCGAC
Found at i:738433 original size:13 final size:13
Alignment explanation
Indices: 738398--738449 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
738388 GAAAAGTTAA
738398 CCGACCCGACCCGAC
1 CCGACCCGA-CCG-C
738413 CCGACCCGACCGC
1 CCGACCCGACCGC
* *
738426 CTGACCCGACTGC
1 CCGACCCGACCGC
*
738439 CCGACCTGACC
1 CCGACCCGACC
738450 AATTGATCGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 20 0.62
14 3 0.09
15 9 0.28
ACGTcount: A:0.17, C:0.56, G:0.21, T:0.06
Consensus pattern (13 bp):
CCGACCCGACCGC
Found at i:738446 original size:18 final size:19
Alignment explanation
Indices: 738402--738449 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
738392 AGTTAACCGA
*
738402 CCCGACCCGACCCGACCCG
1 CCCGACCTGACCCGACCCG
* *
738421 ACCG-CCTGACCCGA-CTG
1 CCCGACCTGACCCGACCCG
738438 CCCGACCTGACC
1 CCCGACCTGACC
738450 AATTGATCGT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 5 0.21
18 16 0.67
19 3 0.12
ACGTcount: A:0.17, C:0.56, G:0.21, T:0.06
Consensus pattern (19 bp):
CCCGACCTGACCCGACCCG
Found at i:742971 original size:16 final size:17
Alignment explanation
Indices: 742949--742988 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
742939 ACGACCCGAC
*
742949 CCGTTGACCATTGATCG
1 CCGTTGACCATTGAACG
*
742966 -CGTTGACCGTTGAACG
1 CCGTTGACCATTGAACG
742982 CCGTTGA
1 CCGTTGA
742989 TCGGACCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.28
Consensus pattern (17 bp):
CCGTTGACCATTGAACG
Found at i:743012 original size:10 final size:11
Alignment explanation
Indices: 742970--743019 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
742960 TGATCGCGTT
*
742970 GACCGTTGAAC
1 GACCGTTGACC
*
742981 G-CCGTTGATCG
1 GACCGTTGA-CC
*
742992 GACCTTTGACC
1 GACCGTTGACC
743003 -ACCGTTGACC
1 GACCGTTGACC
743013 GACCGTT
1 GACCGTT
743020 AACTTTTTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
10 16 0.52
11 9 0.29
12 6 0.19
ACGTcount: A:0.18, C:0.32, G:0.26, T:0.24
Consensus pattern (11 bp):
GACCGTTGACC
Found at i:771690 original size:20 final size:20
Alignment explanation
Indices: 771665--771713 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
771655 CGATATTTTT
771665 ATTTTGTTCTAATCATTCAA
1 ATTTTGTTCTAATCATTCAA
771685 ATTTTGTTCTAATCATTCAA
1 ATTTTGTTCTAATCATTCAA
771705 ATTTTGTTC
1 ATTTTGTTC
771714 AAACAAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.14, G:0.06, T:0.53
Consensus pattern (20 bp):
ATTTTGTTCTAATCATTCAA
Found at i:778587 original size:29 final size:28
Alignment explanation
Indices: 778545--778618 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
778535 GTCAAACATT
*
778545 TTACACAAATAGCACCCTTTTTAAAATAA
1 TTAC-CAAATAGCACCCTTTTCAAAATAA
* *
778574 TTACCAATATAGCACCCTTTTCGAATTAA
1 TTACCAA-ATAGCACCCTTTTCAAAATAA
*
778603 TTCCCAAAATAGCACC
1 TTACC-AAATAGCACC
778619 AAAACCAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 3 0.08
29 34 0.87
30 2 0.05
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.30
Consensus pattern (28 bp):
TTACCAAATAGCACCCTTTTCAAAATAA
Found at i:778673 original size:12 final size:13
Alignment explanation
Indices: 778648--778693 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 13
778638 GAATAGCACC
778648 GGTCAACGGGTCG
1 GGTCAACGGGTCG
778661 GGTCAACGGTCGGGTCG
1 GGTCAA----CGGGTCG
778678 GGTCAACGGGTCG
1 GGTCAACGGGTCG
778691 GGT
1 GGT
778694 TGGGTCAACG
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 16 0.55
17 13 0.45
ACGTcount: A:0.13, C:0.22, G:0.48, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:778676 original size:17 final size:17
Alignment explanation
Indices: 778654--778747 Score: 161
Period size: 17 Copynumber: 5.4 Consensus size: 17
778644 CACCGGTCAA
778654 CGGGTCGGGTCAACGGT
1 CGGGTCGGGTCAACGGT
778671 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAAC-GGT
*
778689 CGGGTTGGGTCAACGGT
1 CGGGTCGGGTCAACGGT
778706 CGGGTCGGGTCAACGGT
1 CGGGTCGGGTCAACGGT
778723 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAAC-GGT
778741 CGGGTCG
1 CGGGTCG
778748 TGACCGGTCA
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
17 47 0.64
18 26 0.36
ACGTcount: A:0.11, C:0.22, G:0.49, T:0.18
Consensus pattern (17 bp):
CGGGTCGGGTCAACGGT
Found at i:778700 original size:35 final size:34
Alignment explanation
Indices: 778654--778747 Score: 161
Period size: 35 Copynumber: 2.7 Consensus size: 34
778644 CACCGGTCAA
778654 CGGGTCGGGTCAACGGTCGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGTCGGGTCGGGTCAAC-GGT
*
778689 CGGGTTGGGTCAACGGTCGGGTCGGGTCAACGGT
1 CGGGTCGGGTCAACGGTCGGGTCGGGTCAACGGT
778723 CGGGTCGGGTCAACGGGTCGGGTCG
1 CGGGTCGGGTCAAC-GGTCGGGTCG
778748 TGACCGGTCA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
34 16 0.29
35 40 0.71
ACGTcount: A:0.11, C:0.22, G:0.49, T:0.18
Consensus pattern (34 bp):
CGGGTCGGGTCAACGGTCGGGTCGGGTCAACGGT
Found at i:786965 original size:19 final size:17
Alignment explanation
Indices: 786926--786960 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
786916 TATGCTATTT
786926 ATATAAGATTCTTCGTG
1 ATATAAGATTCTTCGTG
786943 ATATAAGATTCTTCGTG
1 ATATAAGATTCTTCGTG
786960 A
1 A
786961 AATATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (17 bp):
ATATAAGATTCTTCGTG
Found at i:788991 original size:59 final size:58
Alignment explanation
Indices: 788925--789184 Score: 198
Period size: 58 Copynumber: 4.4 Consensus size: 58
788915 ATACCATTAG
** * *
788925 TATGATTTTGTTACAATTTTAGCACATAATATGCCATATTTGGAAATCCATATTTTCAA
1 TATGATTTCCTTAC-ATTTTAGCACATAATATGCCATATCTGGAAATCCATAATTTCAA
* * ** * * *
788984 TATGATTTCCTTATCA-TTTGGCACCCT--TAGTGCTTTATCTGGAAACCCATACA-CTCAG
1 TATGATTTCCTTA-CATTTTAGCA-CATAATA-TGCCATATCTGGAAATCCATA-ATTTCAA
* *
789042 TATGATTCCCTTACTATTTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAA
1 TATGATTTCCTTAC-ATTTTAGCACATAATATGCCATATCTGGAAATCCATAATTTCAA
* *
789101 TATGATTTCCTTATCA-TTTAGCAC--AATCAGTGCTCCATA--TGGAAATCTATACA-TTCAG
1 TATGATTTCCTTA-CATTTTAGCACATAAT-A-TG--CCATATCTGGAAATCCATA-ATTTCAA
789159 TATGATTTCCTTATCATTTTAGCACA
1 TATGATTTCCTTA-CATTTTAGCACA
789185 CAAAGTGCCA
Statistics
Matches: 161, Mismatches: 23, Indels: 33
0.74 0.11 0.15
Matches are distributed among these distances:
56 3 0.02
57 4 0.02
58 83 0.52
59 63 0.39
60 8 0.05
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (58 bp):
TATGATTTCCTTACATTTTAGCACATAATATGCCATATCTGGAAATCCATAATTTCAA
Found at i:789034 original size:58 final size:58
Alignment explanation
Indices: 788965--789183 Score: 212
Period size: 58 Copynumber: 3.7 Consensus size: 58
788955 ATGCCATATT
** * * *
788965 TGGAAATCCATATTTTCAATATGATTTCCTTATCATTTGGCACCCTTAGTGCTTTATC
1 TGGAAATCCATACATTCAATATGATTTCCTTATCATTTAGCACCATTAGTGCTCTATC
* * * * *
789023 TGGAAACCCATACACTCAGTATGATTCCCTTA-CTATTTTAGCA-CATAATA-TGCCCTATC
1 TGGAAATCCATACATTCAATATGATTTCCTTATC-A-TTTAGCACCAT--TAGTGCTCTATC
* * * *
789082 TGGAAATCCATA-ATTTCAATATGATTTCCTTATCATTTAGCACAATCAGTGCTCCATA
1 TGGAAATCCATACA-TTCAATATGATTTCCTTATCATTTAGCACCATTAGTGCTCTATC
* *
789140 TGGAAATCTATACATTCAGTATGATTTCCTTATCATTTTAGCAC
1 TGGAAATCCATACATTCAATATGATTTCCTTATCA-TTTAGCAC
789184 ACAAAGTGCC
Statistics
Matches: 130, Mismatches: 21, Indels: 19
0.76 0.12 0.11
Matches are distributed among these distances:
57 2 0.02
58 74 0.57
59 51 0.39
60 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (58 bp):
TGGAAATCCATACATTCAATATGATTTCCTTATCATTTAGCACCATTAGTGCTCTATC
Found at i:789047 original size:117 final size:116
Alignment explanation
Indices: 788923--789184 Score: 353
Period size: 117 Copynumber: 2.2 Consensus size: 116
788913 GCATACCATT
** * *
788923 AGTATGATTTTGTTACAATTTTAGCACATAATATGCCATATTTGGAAATCCATATTTTCAATATG
1 AGTATGATTTCCTTAC-ATTTTAGCACATAATATGCCATATCTGGAAATCCATAATTTCAATATG
* ** * ** *
788988 ATTTCCTTATCATTTGGCACCCTTAGTGCTTTATCTGGAAACCCATACACTC
65 ATTTCCTTATCATTTAGCACAATCAGTGCTCCATATGGAAACCCATACACTC
* *
789040 AGTATGATTCCCTTACTATTTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAATATG
1 AGTATGATTTCCTTAC-ATTTTAGCACATAATATGCCATATCTGGAAATCCATAATTTCAATATG
* * *
789105 ATTTCCTTATCATTTAGCACAATCAGTGCTCCATATGGAAATCTATACATTC
65 ATTTCCTTATCATTTAGCACAATCAGTGCTCCATATGGAAACCCATACACTC
789157 AGTATGATTTCCTTATCATTTTAGCACA
1 AGTATGATTTCCTTA-CATTTTAGCACA
789185 CAAAGTGCCA
Statistics
Matches: 126, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
117 125 0.99
118 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (116 bp):
AGTATGATTTCCTTACATTTTAGCACATAATATGCCATATCTGGAAATCCATAATTTCAATATGA
TTTCCTTATCATTTAGCACAATCAGTGCTCCATATGGAAACCCATACACTC
Found at i:796901 original size:24 final size:24
Alignment explanation
Indices: 796869--796929 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
796859 GAATATTTTA
* *
796869 TCTGGTTTCTGATTTGAAATATGT
1 TCTGATTTCTGATTCGAAATATGT
* * *
796893 TCTGATTTCTAATTCGAATTCTGT
1 TCTGATTTCTGATTCGAAATATGT
*
796917 TCTGATTTATGAT
1 TCTGATTTCTGAT
796930 CTATATTCTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.51
Consensus pattern (24 bp):
TCTGATTTCTGATTCGAAATATGT
Found at i:796953 original size:7 final size:7
Alignment explanation
Indices: 796943--797309 Score: 664
Period size: 7 Copynumber: 53.9 Consensus size: 7
796933 TATTCTATTC
796943 TGATATA
1 TGATATA
796950 TGATATA
1 TGATATA
796957 TGATATA
1 TGATATA
796964 TGATATA
1 TGATATA
796971 TGATATA
1 TGATATA
796978 TGATATA
1 TGATATA
796985 TGATATA
1 TGATATA
796992 TGATATA
1 TGATATA
796999 TGATATA
1 TGATATA
797006 TGATATA
1 TGATATA
797013 TGATATA
1 TGATATA
797020 TGATATA
1 TGATATA
797027 TGATATA
1 TGATATA
797034 TGATATA
1 TGATATA
797041 TGATATA
1 TGATATA
797048 TGATATA
1 TGATATA
797055 TGATATA
1 TGATATA
797062 TGATATA
1 TGATATA
797069 TGATATA
1 TGATATA
797076 TGATATA
1 TGATATA
797083 TGATATA
1 TGATATA
797090 TGATATA
1 TGATATA
797097 TGATATA
1 TGATATA
797104 TGATATA
1 TGATATA
797111 TGATATA
1 TGATATA
797118 TGATATA
1 TGATATA
797125 TGATATA
1 TGATATA
797132 TGATATA
1 TGATATA
797139 TGATATA
1 TGATATA
797146 TGATATA
1 TGATATA
797153 TGATATA
1 TGATATA
797160 TGATATA
1 TGATATA
797167 TG--ATA
1 TGATATA
797172 T-ATATA
1 TGATATA
797178 TGATATA
1 TGATATA
797185 TG--ATA
1 TGATATA
797190 TGATATA
1 TGATATA
797197 TG--ATA
1 TGATATA
797202 T-ATATA
1 TGATATA
797208 TGATATA
1 TGATATA
797215 TGATATA
1 TGATATA
797222 TGATATA
1 TGATATA
797229 TGATATA
1 TGATATA
797236 TGATATA
1 TGATATA
797243 TGATATA
1 TGATATA
797250 TGATATA
1 TGATATA
797257 TGATATA
1 TGATATA
797264 TGATATA
1 TGATATA
797271 TGATATA
1 TGATATA
797278 TGATATA
1 TGATATA
797285 TGATATA
1 TGATATA
797292 TG--ATA
1 TGATATA
797297 TGATATA
1 TGATATA
797304 TGATAT
1 TGATAT
797310 GAATTATATT
Statistics
Matches: 350, Mismatches: 0, Indels: 20
0.95 0.00 0.05
Matches are distributed among these distances:
5 18 0.05
6 8 0.02
7 324 0.93
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (7 bp):
TGATATA
Found at i:797684 original size:13 final size:14
Alignment explanation
Indices: 797659--797689 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
797649 TGATTTCTGA
797659 ATGTTTAAAAAAAT
1 ATGTTTAAAAAAAT
797673 ATGTTT-AAAAAAT
1 ATGTTTAAAAAAAT
797686 ATGT
1 ATGT
797690 ATCTTTTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (14 bp):
ATGTTTAAAAAAAT
Found at i:800708 original size:58 final size:58
Alignment explanation
Indices: 800646--800903 Score: 200
Period size: 58 Copynumber: 4.4 Consensus size: 58
800636 ATACCATTAG
** * * *
800646 TATGATTTTGTTACCATTTTAGCACTAATATGCCCTATTTGGAAATCCATATTTTTAA
1 TATGATTTCCTTACCATTTTAGCACTAATATGCCCTATCTGGAAATCCATACTTTCAA
* *** ** * ** *
800704 TATGATTTCCTTATCA-TTTAGCACCCTTAGTGCTTTATCTGGAAACCCATACACTCAG
1 TATGATTTCCTTACCATTTTAGCACTAATA-TGCCCTATCTGGAAATCCATACTTTCAA
* *
800762 TATGATTCCCTTACCATTTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAA
1 TATGATTTCCTTACCATTTTAGCAC-TAATATGCCCTATCTGGAAATCCATACTTTCAA
* * * * * *** *
800821 AATGATTTCCTTATCA-TTTAGCAC-ACTCAGTGCTCC-ATATGGAAATCTATAGACTCAG
1 TATGATTTCCTTACCATTTTAGCACTAAT-A-TGC-CCTATCTGGAAATCCATACTTTCAA
*
800879 TATGATTTCCTTATCATTTTAGCAC
1 TATGATTTCCTTACCATTTTAGCAC
800904 ACAAAGTACC
Statistics
Matches: 155, Mismatches: 38, Indels: 13
0.75 0.18 0.06
Matches are distributed among these distances:
56 2 0.01
57 11 0.07
58 88 0.57
59 52 0.34
60 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (58 bp):
TATGATTTCCTTACCATTTTAGCACTAATATGCCCTATCTGGAAATCCATACTTTCAA
Found at i:800839 original size:117 final size:117
Alignment explanation
Indices: 800656--800904 Score: 365
Period size: 117 Copynumber: 2.1 Consensus size: 117
800646 TATGATTTTG
* * * *
800656 TTACCATTTTAGCAC-TAATATGCCCTATTTGGAAATCCATATTTTTAATATGATTTCCTTATCA
1 TTACCATTTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAAAATGATTTCCTTATCA
* * ** *
800720 TTTAGCACCCTTAGTGCTTTATCTGGAAACCCATACACTCAGTATGATTCCC
66 TTTAGCACACTCAGTGCTCCATATGGAAACCCATACACTCAGTATGATTCCC
800772 TTACCATTTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAAAATGATTTCCTTATCA
1 TTACCATTTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAAAATGATTTCCTTATCA
* * * *
800837 TTTAGCACACTCAGTGCTCCATATGGAAATCTATAGACTCAGTATGATTTCC
66 TTTAGCACACTCAGTGCTCCATATGGAAACCCATACACTCAGTATGATTCCC
*
800889 TTATCATTTTAGCACA
1 TTACCATTTTAGCACA
800905 CAAAGTACCA
Statistics
Matches: 118, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
116 15 0.13
117 103 0.87
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.37
Consensus pattern (117 bp):
TTACCATTTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAAAATGATTTCCTTATCA
TTTAGCACACTCAGTGCTCCATATGGAAACCCATACACTCAGTATGATTCCC
Found at i:808032 original size:59 final size:59
Alignment explanation
Indices: 807950--808086 Score: 177
Period size: 59 Copynumber: 2.3 Consensus size: 59
807940 CAGCAGGCTG
** * *
807950 CATATTCGGGAATACACTAAAGGATACATAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACATAGTACAGATGGTGGACACGACCTTATGTGT
* ** * *
808009 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACATAGTACAGATGGTGGACACGACCTTATGTGT
808068 CATATTCGGG-ATAGCACTA
1 CATATTCGGGAATA-CACTA
808087 CGGTGCTTAT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
58 1 0.02
59 63 0.98
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACATAGTACAGATGGTGGACACGACCTTATGTGT
Found at i:808280 original size:47 final size:47
Alignment explanation
Indices: 808187--808393 Score: 357
Period size: 47 Copynumber: 4.5 Consensus size: 47
808177 GTAAGCATAC
* * * *
808187 AAATAAGCTTACGAGCTTTTGG-A-TT-AATGGCAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
808231 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
808278 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
808325 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
808372 AAATAAGCTTACGAGCTTATGG
1 AAATAAGCTTACGAGCTTATGG
808394 TATAAATTGT
Statistics
Matches: 156, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
44 21 0.13
45 1 0.01
46 2 0.01
47 132 0.85
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (47 bp):
AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
Found at i:814039 original size:59 final size:59
Alignment explanation
Indices: 813957--814093 Score: 177
Period size: 59 Copynumber: 2.3 Consensus size: 59
813947 CAGCAGGCTG
** * *
813957 CATATTCGGGAATACACTAAAGGATACATAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACATAGTACAGATGGTGGACACGACCTTATGTGT
* ** * *
814016 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACATAGTACAGATGGTGGACACGACCTTATGTGT
814075 CATATTCGGG-ATAGCACTA
1 CATATTCGGGAATA-CACTA
814094 CGGTGCTTAT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
58 1 0.02
59 63 0.98
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACATAGTACAGATGGTGGACACGACCTTATGTGT
Found at i:814286 original size:47 final size:46
Alignment explanation
Indices: 814194--814366 Score: 226
Period size: 47 Copynumber: 3.8 Consensus size: 46
814184 GTAAGCATAC
* * * *
814194 AAATAAGCTTACGAGCTTTTGG-ATT-AATGGAAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATTTTGGTA
*
814238 AAATAAGCTTATGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA-TTAAATGGTAAGTATTTTGGTA
* *
814285 AAATAAGCTTATGAGCTTATGAAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA-TTAAATGGTAAGTATTTTGGTA
* *
814332 AAGTAAGCTTACGAGCTTATGGGA-TAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAG
814367 GGATTTTATA
Statistics
Matches: 116, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
44 20 0.17
45 12 0.10
46 2 0.02
47 82 0.71
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATTTTGGTA
Found at i:824738 original size:2 final size:2
Alignment explanation
Indices: 824731--824775 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
824721 GATGGGGGTG
824731 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
824773 TA T
1 TA T
824776 GTTTTAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:826759 original size:17 final size:17
Alignment explanation
Indices: 826739--826772 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
826729 CTATTGACTG
*
826739 TTGACCTACATTGACCA
1 TTGACCGACATTGACCA
*
826756 TTGATCGACATTGACCA
1 TTGACCGACATTGACCA
826773 CAATTAACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (17 bp):
TTGACCGACATTGACCA
Found at i:829102 original size:24 final size:24
Alignment explanation
Indices: 829069--829137 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 24
829059 ACATTACTTG
* *
829069 AATTCAGTTCTGATTTCTGATCTG
1 AATTCTGTTCTGATTTCTGATCTA
* *
829093 GATTCTGTTCTGATATCTGATCTA
1 AATTCTGTTCTGATTTCTGATCTA
*
829117 AATTCTGTTTTGATTTCTGAT
1 AATTCTGTTCTGATTTCTGAT
829138 ATCTCCGTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.49
Consensus pattern (24 bp):
AATTCTGTTCTGATTTCTGATCTA
Found at i:832021 original size:16 final size:16
Alignment explanation
Indices: 832000--832036 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
831990 CCAAGATATC
832000 GTCGGTCCTTCCCATT
1 GTCGGTCCTTCCCATT
832016 GTCGGTCCTTCCCATT
1 GTCGGTCCTTCCCATT
832032 GTCGG
1 GTCGG
832037 ACCTCCAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.05, C:0.35, G:0.24, T:0.35
Consensus pattern (16 bp):
GTCGGTCCTTCCCATT
Found at i:836163 original size:38 final size:38
Alignment explanation
Indices: 836112--836187 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
836102 GCTTACTCTG
*
836112 TTCCTCATATTTTCAGGTTAAAAGAATCATACCAGTGC
1 TTCCTCACATTTTCAGGTTAAAAGAATCATACCAGTGC
836150 TTCCTCACATTTTCAGGTTAAAAGAATCATACCAGTGC
1 TTCCTCACATTTTCAGGTTAAAAGAATCATACCAGTGC
836188 GATTATTGAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (38 bp):
TTCCTCACATTTTCAGGTTAAAAGAATCATACCAGTGC
Found at i:837557 original size:24 final size:24
Alignment explanation
Indices: 837529--837615 Score: 111
Period size: 24 Copynumber: 3.6 Consensus size: 24
837519 GAATATTTTA
* * *
837529 TCTGATTTTTGATTTGAAATATGT
1 TCTGATTTATGATATGAATTATGT
*
837553 TCTGATTTATGATATGAATTCTGT
1 TCTGATTTATGATATGAATTATGT
* *
837577 TCTGATTTATGATCTGGATTATGT
1 TCTGATTTATGATATGAATTATGT
*
837601 TCTGATATATGATAT
1 TCTGATTTATGATAT
837616 ATAATATGAA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.25, C:0.07, G:0.17, T:0.51
Consensus pattern (24 bp):
TCTGATTTATGATATGAATTATGT
Found at i:845782 original size:17 final size:16
Alignment explanation
Indices: 845760--845793 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
845750 TAAAAACAGT
845760 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
845777 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
845793 A
1 A
845794 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:860312 original size:22 final size:23
Alignment explanation
Indices: 860284--860332 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
860274 TTAATTTCTG
860284 TTTGGGTGCTA-TTTGTGTAAA-A
1 TTTGGGTGCTAGTTTG-GTAAATA
*
860306 TTTGGGTGTTAGTTTGGTAAATA
1 TTTGGGTGCTAGTTTGGTAAATA
860329 TTTG
1 TTTG
860333 CAGAATGTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.20, C:0.02, G:0.29, T:0.49
Consensus pattern (23 bp):
TTTGGGTGCTAGTTTGGTAAATA
Found at i:862860 original size:12 final size:12
Alignment explanation
Indices: 862843--862895 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
862833 ATGACCTAAA
862843 TTCTGTTCTGAT
1 TTCTGTTCTGAT
**
862855 TTCTGTTCTGGG
1 TTCTGTTCTGAT
* *
862867 TTCTGTTATGAA
1 TTCTGTTCTGAT
862879 TTCTGTT-TCGAT
1 TTCTGTTCT-GAT
862891 TTCTG
1 TTCTG
862896 ATATCTTCGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
11 1 0.03
12 33 0.97
ACGTcount: A:0.09, C:0.15, G:0.21, T:0.55
Consensus pattern (12 bp):
TTCTGTTCTGAT
Found at i:868230 original size:29 final size:29
Alignment explanation
Indices: 868196--868316 Score: 122
Period size: 29 Copynumber: 4.2 Consensus size: 29
868186 TGACATTTTA
*
868196 GTAATTATTTTGAAACTGGTGAC-ATATTG
1 GTAATTATTTTGAAAATGGTG-CTATATTG
* * * * *
868225 GGAATTAATTCGAAAATGGTGCTATGTTT
1 GTAATTATTTTGAAAATGGTGCTATATTG
868254 GTAATT-TTTTGAAAATGGTGCTATATTG
1 GTAATTATTTTGAAAATGGTGCTATATTG
* * *
868282 GTAATTAATTTT-AAAATGGTGTTATTTTC
1 GTAATT-ATTTTGAAAATGGTGCTATATTG
868311 GTAATT
1 GTAATT
868317 TTGAATATAT
Statistics
Matches: 75, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
28 25 0.33
29 46 0.61
30 4 0.05
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.45
Consensus pattern (29 bp):
GTAATTATTTTGAAAATGGTGCTATATTG
Found at i:868272 original size:28 final size:27
Alignment explanation
Indices: 868236--868318 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 27
868226 GAATTAATTC
868236 GAAAATGGTGCTATGTTTGTAATTTTTT
1 GAAAATGGTGCTAT-TTTGTAATTTTTT
*
868264 GAAAATGGTGCTATATTGGTAATTAATTTT
1 GAAAATGGTGCTAT-TTTGTAATT--TTTT
*
868294 -AAAATGGTGTTATTTTCGTAATTTT
1 GAAAATGGTGCTATTTT-GTAATTTT
868319 GAATATATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
27 2 0.04
28 24 0.50
29 18 0.38
30 4 0.08
ACGTcount: A:0.29, C:0.04, G:0.19, T:0.48
Consensus pattern (27 bp):
GAAAATGGTGCTATTTTGTAATTTTTT
Found at i:868273 original size:57 final size:57
Alignment explanation
Indices: 868190--868318 Score: 163
Period size: 57 Copynumber: 2.2 Consensus size: 57
868180 TTCTGGTGAC
* *
868190 ATTTTAGTAATTATTTTGAAACTGGTGAC-ATATTGGGAATTAATTCGAAAATGGTGCT
1 ATTTTCGTAATT-TTTTGAAAATGGTG-CTATATTGGGAATTAATTCGAAAATGGTGCT
* ** *
868248 ATGTTT-GTAATTTTTTGAAAATGGTGCTATATTGGTAATTAATTTTAAAATGGTGTT
1 AT-TTTCGTAATTTTTTGAAAATGGTGCTATATTGGGAATTAATTCGAAAATGGTGCT
868305 ATTTTCGTAATTTT
1 ATTTTCGTAATTTT
868319 GAATATATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
56 4 0.06
57 48 0.76
58 8 0.13
59 3 0.05
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.47
Consensus pattern (57 bp):
ATTTTCGTAATTTTTTGAAAATGGTGCTATATTGGGAATTAATTCGAAAATGGTGCT
Found at i:868328 original size:2 final size:2
Alignment explanation
Indices: 868321--868355 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
868311 GTAATTTTGA
868321 AT AT 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 AT AT A
868356 ATTTCTTAAA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:881005 original size:16 final size:16
Alignment explanation
Indices: 880984--881035 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
880974 GTGCAAATCA
*
880984 GGGTACCCGGATTTTC
1 GGGTACCCGGATTTCC
881000 GGGTACCC-GATTTCC
1 GGGTACCCGGATTTCC
* *
881015 GTGTACCCGGAACTTCC
1 GGGTACCCGG-ATTTCC
881032 GGGT
1 GGGT
881036 TGACGATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 13 0.43
16 9 0.30
17 8 0.27
ACGTcount: A:0.13, C:0.29, G:0.31, T:0.27
Consensus pattern (16 bp):
GGGTACCCGGATTTCC
Found at i:881152 original size:15 final size:15
Alignment explanation
Indices: 881073--881144 Score: 99
Period size: 15 Copynumber: 4.7 Consensus size: 15
881063 CCGGATGTTA
881073 CGGGTACCCGGTAAT
1 CGGGTACCCGGTAAT
881088 CGGGTACCCGGTAAT
1 CGGGTACCCGGTAAT
* **
881103 CGGGTACCCAGATTTT
1 CGGGTACCC-GGTAAT
881119 GCGGGTACCCGGTAAT
1 -CGGGTACCCGGTAAT
881135 CGGGTACCCG
1 CGGGTACCCG
881145 ATACTCGGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
15 34 0.69
16 6 0.12
17 9 0.18
ACGTcount: A:0.18, C:0.28, G:0.33, T:0.21
Consensus pattern (15 bp):
CGGGTACCCGGTAAT
Found at i:889214 original size:29 final size:28
Alignment explanation
Indices: 889159--889219 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
889149 ATTTTTTAAA
* * *
889159 AAAAAAATGATATTTTCATAATTTTTTT
1 AAAAAAATGACATTTTCATAATATTTTG
889187 AAAAAAATGACATTTT-AGTAAATATTTTG
1 AAAAAAATGACATTTTCA-T-AATATTTTG
889216 AAAA
1 AAAA
889220 TGGTGCTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 1 0.04
28 16 0.57
29 11 0.39
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.41
Consensus pattern (28 bp):
AAAAAAATGACATTTTCATAATATTTTG
Found at i:889265 original size:29 final size:28
Alignment explanation
Indices: 889166--889267 Score: 87
Period size: 29 Copynumber: 3.6 Consensus size: 28
889156 AAAAAAAAAA
* * ***
889166 TGATATTTTCATAATTTTTTTAAAAAAA
1 TGATATTTTCGTAATTATTTTAAAATGG
* * *
889194 TGACATTTTAGTAAATATTTTGAAAATGG
1 TGATATTTTCGTAATTATTTT-AAAATGG
* * *
889223 TGCTATATTGGTAATTAATTTTAAAATGG
1 TGATATTTTCGTAATT-ATTTTAAAATGG
889252 TGATATTTTCGTAATT
1 TGATATTTTCGTAATT
889268 TTGATATATA
Statistics
Matches: 56, Mismatches: 16, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
28 16 0.29
29 35 0.62
30 5 0.09
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (28 bp):
TGATATTTTCGTAATTATTTTAAAATGG
Found at i:889278 original size:2 final size:2
Alignment explanation
Indices: 889271--889296 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
889261 CGTAATTTTG
889271 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
889297 TAATTTCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:895205 original size:24 final size:24
Alignment explanation
Indices: 895178--895252 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
895168 TATATCAAAA
* *
895178 ATCAAAACATAATTCAAGTCAAGT
1 ATCAAAACAGAATCCAAGTCAAGT
* * *
895202 ATCATATCAGAATCCAAGTCACGT
1 ATCAAAACAGAATCCAAGTCAAGT
* *
895226 ATCAGATA-AGAATCCATGTCAA-T
1 ATCA-AAACAGAATCCAAGTCAAGT
895249 ATCA
1 ATCA
895253 TATAAAAATC
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
23 5 0.12
24 35 0.88
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (24 bp):
ATCAAAACAGAATCCAAGTCAAGT
Found at i:895285 original size:24 final size:23
Alignment explanation
Indices: 895192--895278 Score: 84
Period size: 24 Copynumber: 3.7 Consensus size: 23
895182 AAACATAATT
* *
895192 CAAGTCAAGTATCATATCAGAATC
1 CAAGTC-AGTATCATATAAAAATC
* *
895216 CAAGTCACGTATCAGATAAGAATC
1 CAAGTCA-GTATCATATAAAAATC
* *
895240 CATGTCAATATCATATAAAAATC
1 CAAGTCAGTATCATATAAAAATC
*
895263 CAGGTCAGGTATCATA
1 CAAGTCA-GTATCATA
895279 ACAAAATTCA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
23 20 0.38
24 33 0.62
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (23 bp):
CAAGTCAGTATCATATAAAAATC
Found at i:898692 original size:35 final size:35
Alignment explanation
Indices: 898646--898720 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
898636 CGTCATGAAC
* *
898646 AGTAAGGCCCTGAGCACAAAGATGAGGAGCCTGCA
1 AGTAAGGCCCTGAGCACAAAGACGAGGAGCCTCCA
*
898681 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
1 AGTAAGGCCCTGAGCACAAAGACGAGGAGCCTCCA
898716 AGTAA
1 AGTAA
898721 CCTTCCTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.35, C:0.25, G:0.29, T:0.11
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACAAAGACGAGGAGCCTCCA
Found at i:898808 original size:24 final size:24
Alignment explanation
Indices: 898780--898832 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
898770 ATATATCAAA
* *
898780 TATCAAAACATAATTCAAGTCAGG
1 TATCAAAACAGAATCCAAGTCAGG
* * *
898804 TATCATATCAGAATCCAAGTCATG
1 TATCAAAACAGAATCCAAGTCAGG
898828 TATCA
1 TATCA
898833 GATTAGAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (24 bp):
TATCAAAACAGAATCCAAGTCAGG
Found at i:898840 original size:24 final size:23
Alignment explanation
Indices: 898795--898873 Score: 86
Period size: 24 Copynumber: 3.3 Consensus size: 23
898785 AAACATAATT
898795 CAAGTCAGGTATCATATCAGAATC
1 CAAGTCA-GTATCATATCAGAATC
* * *
898819 CAAGTCATGTATCAGATTAGAATT
1 CAAGTCA-GTATCATATCAGAATC
* *
898843 CATGTCAATATCATATCAGAATC
1 CAAGTCAGTATCATATCAGAATC
*
898866 CAGGTCAG
1 CAAGTCAG
898874 GCATCATAAT
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
23 18 0.41
24 26 0.59
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (23 bp):
CAAGTCAGTATCATATCAGAATC
Found at i:902959 original size:24 final size:24
Alignment explanation
Indices: 902927--902976 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
902917 GTCGATTTTT
*
902927 CTAAGAAATATCAAATCCTTACTA
1 CTAACAAATATCAAATCCTTACTA
902951 CTAACAAATATCAAATCCTTACTA
1 CTAACAAATATCAAATCCTTACTA
902975 CT
1 CT
902977 GAATGCGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.30
Consensus pattern (24 bp):
CTAACAAATATCAAATCCTTACTA
Found at i:904733 original size:13 final size:13
Alignment explanation
Indices: 904715--904739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
904705 GTCAACGGTT
904715 AACGGGTCGGGTC
1 AACGGGTCGGGTC
904728 AACGGGTCGGGT
1 AACGGGTCGGGT
904740 TGGGTCAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.20, G:0.48, T:0.16
Consensus pattern (13 bp):
AACGGGTCGGGTC
Found at i:904744 original size:18 final size:18
Alignment explanation
Indices: 904717--904781 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
904707 CAACGGTTAA
904717 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
* *
904735 CGGGTTGGGTCAACTGGT
1 CGGGTCGGGTCAACGGGT
* * * *
904753 CGAGTCTGGTAAACGGCT
1 CGGGTCGGGTCAACGGGT
904771 CGGGTCGGGTC
1 CGGGTCGGGTC
904782 GGAACTAGTC
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.12, C:0.22, G:0.45, T:0.22
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:906773 original size:35 final size:35
Alignment explanation
Indices: 906727--906800 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
906717 ATTACGAATT
*
906727 GTAAGGCCCTGAGCACAAAGCCGAGGAGCATGCAA
1 GTAAGGCCCTGAGCACAAAGCCGAGGAGCATCCAA
* *
906762 GTAAGGCCCTGAGCACAAAGCCTAGGAGCCTCCAA
1 GTAAGGCCCTGAGCACAAAGCCGAGGAGCATCCAA
906797 GTAA
1 GTAA
906801 TCTTCCTCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.27, G:0.28, T:0.11
Consensus pattern (35 bp):
GTAAGGCCCTGAGCACAAAGCCGAGGAGCATCCAA
Found at i:906887 original size:24 final size:24
Alignment explanation
Indices: 906860--906958 Score: 74
Period size: 24 Copynumber: 4.2 Consensus size: 24
906850 TATATCAAAA
* *
906860 ATCAAAACATAATTCAAGTCAAGT
1 ATCAAAACAGAATCCAAGTCAAGT
* * *
906884 ATCATATCAGAATCCAAGTCATGT
1 ATCAAAACAGAATCCAAGTCAAGT
* * * *
906908 ATCAGATCAGAATCCATGCCAA-T
1 ATCAAAACAGAATCCAAGTCAAGT
* * * *
906931 ATCATATCAGAATCCAGGTCAGGT
1 ATCAAAACAGAATCCAAGTCAAGT
906955 ATCA
1 ATCA
906959 TAGTAGAATT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
23 19 0.31
24 42 0.69
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.25
Consensus pattern (24 bp):
ATCAAAACAGAATCCAAGTCAAGT
Found at i:906967 original size:24 final size:23
Alignment explanation
Indices: 906874--906960 Score: 102
Period size: 24 Copynumber: 3.7 Consensus size: 23
906864 AAACATAATT
906874 CAAGTCAAGTATCATATCAGAATC
1 CAAGTC-AGTATCATATCAGAATC
*
906898 CAAGTCATGTATCAGATCAGAATC
1 CAAGTCA-GTATCATATCAGAATC
* * *
906922 CATGCCAATATCATATCAGAATC
1 CAAGTCAGTATCATATCAGAATC
*
906945 CAGGTCAGGTATCATA
1 CAAGTCA-GTATCATA
906961 GTAGAATTCA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
23 20 0.38
24 33 0.62
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (23 bp):
CAAGTCAGTATCATATCAGAATC
Found at i:910577 original size:29 final size:29
Alignment explanation
Indices: 910515--910712 Score: 274
Period size: 29 Copynumber: 6.8 Consensus size: 29
910505 GTCCGACCCG
* *
910515 GTGATATTTTGGCAATTATTTTTTAAAACT
1 GTGATATTTTGGTAATTA-TTTTTAAAACA
910545 GTGATATTTTGGTAATTATTTTTAAAACA
1 GTGATATTTTGGTAATTATTTTTAAAACA
**
910574 GTGATATTTTGGTAATTATTTTTAAAATG
1 GTGATATTTTGGTAATTATTTTTAAAACA
*
910603 GTGATATTTTGGTAATTATTTTCAAAACA
1 GTGATATTTTGGTAATTATTTTTAAAACA
*
910632 GTGATATTTTGGTAATTATTTTTAAAATA
1 GTGATATTTTGGTAATTATTTTTAAAACA
* *
910661 GTGATATTTTGGTCATTATTTTTTAAAAAAA
1 GTGATATTTTGGTAATTA-TTTTT-AAAACA
910692 GTGATATTTCT-GTAATT-TTTT
1 GTGATATTT-TGGTAATTATTTT
910713 ACTGTGGACT
Statistics
Matches: 153, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
29 111 0.73
30 22 0.14
31 19 0.12
32 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.51
Consensus pattern (29 bp):
GTGATATTTTGGTAATTATTTTTAAAACA
Found at i:913984 original size:29 final size:30
Alignment explanation
Indices: 913942--914005 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
913932 ACAAGCCTTA
* * *
913942 GAAAAATTGGGGATCATTTCGTAAGTTTT-
1 GAAAAATTGGGGATAAATTCGTAAATTTTG
* *
913971 GAAAAGTTTGGGATAAATTCGTAAATTTTG
1 GAAAAATTGGGGATAAATTCGTAAATTTTG
914001 GAAAA
1 GAAAA
914006 TGATGAAGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (30 bp):
GAAAAATTGGGGATAAATTCGTAAATTTTG
Found at i:915516 original size:47 final size:45
Alignment explanation
Indices: 915422--915547 Score: 173
Period size: 47 Copynumber: 2.8 Consensus size: 45
915412 GTAACCATGC
* * *
915422 AAATAAGCTTATGAGCTTACGGAAT-AATGGCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGAA
* *
915466 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATTGGAA
*
915513 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
915548 AGATTTTATA
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
44 22 0.30
45 11 0.15
46 1 0.01
47 39 0.53
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGAA
Found at i:922719 original size:47 final size:45
Alignment explanation
Indices: 922625--922750 Score: 173
Period size: 47 Copynumber: 2.8 Consensus size: 45
922615 GTAACCATGC
* * *
922625 AAATAAGCTTATGAGCTTACGGAAT-AATGGCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGAA
* *
922669 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATTGGAA
*
922716 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
922751 AGATTTTATA
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
44 22 0.30
45 11 0.15
46 1 0.01
47 39 0.53
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGAA
Found at i:929686 original size:61 final size:61
Alignment explanation
Indices: 929609--929770 Score: 299
Period size: 61 Copynumber: 2.7 Consensus size: 61
929599 AGTGCAGGTT
*
929609 TATT-TCCGGATTAGCACTATAGCGTAAGCTTAGTGTAGGTGGTGGGCACGACCTTATGTG
1 TATTGTCCGGATTAGCACTATGGCGTAAGCTTAGTGTAGGTGGTGGGCACGACCTTATGTG
929669 TATTGTCCGGATTAGCACTATGGCGTAAGCTTAGTGTAGGTGGTGGGCACGACCTTATGTG
1 TATTGTCCGGATTAGCACTATGGCGTAAGCTTAGTGTAGGTGGTGGGCACGACCTTATGTG
*
929730 TATTGTCCGGATTAGCACTATGGCGTAAGCTTAGTGCAGGT
1 TATTGTCCGGATTAGCACTATGGCGTAAGCTTAGTGTAGGT
929771 TTAGCACTAC
Statistics
Matches: 99, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
60 4 0.04
61 95 0.96
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (61 bp):
TATTGTCCGGATTAGCACTATGGCGTAAGCTTAGTGTAGGTGGTGGGCACGACCTTATGTG
Found at i:929973 original size:47 final size:45
Alignment explanation
Indices: 929879--930004 Score: 173
Period size: 47 Copynumber: 2.8 Consensus size: 45
929869 GTAACCATGC
* * *
929879 AAATAAGCTTATGAGCTTACGGAAT-AATGGCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGAA
* *
929923 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATTGGAA
*
929970 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
930005 AGATTTTATA
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
44 22 0.30
45 11 0.15
46 1 0.01
47 39 0.53
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGAA
Found at i:934664 original size:24 final size:24
Alignment explanation
Indices: 934514--934652 Score: 149
Period size: 24 Copynumber: 5.8 Consensus size: 24
934504 TTTATTTGAT
* *
934514 TTCTGATCTGATACTTAACATT-GA
1 TTCTGATATGATACTTGAC-TTGGA
**
934538 TTCTGATATGATA-TCTGACACGGA
1 TTCTGATATGATACT-TGACTTGGA
* *
934562 TTCTGATCTAATACTTGACTTGGA
1 TTCTGATATGATACTTGACTTGGA
*
934586 TTCTAATATGATACTTGACTTGGA
1 TTCTGATATGATACTTGACTTGGA
*
934610 TTCTGATTTGATACTTGACCTT-GA
1 TTCTGATATGATACTTGA-CTTGGA
*
934634 TTTTGATATGATACTTGAC
1 TTCTGATATGATACTTGAC
934653 GTGAATTATG
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
23 2 0.02
24 90 0.94
25 4 0.04
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.42
Consensus pattern (24 bp):
TTCTGATATGATACTTGACTTGGA
Found at i:934669 original size:24 final size:23
Alignment explanation
Indices: 934572--934669 Score: 97
Period size: 24 Copynumber: 4.1 Consensus size: 23
934562 TTCTGATCTA
* * *
934572 ATACTTGACTTGGATTCTAATATG
1 ATACTTGACTT-GATTATGATTTG
*
934596 ATACTTGACTTGGATTCTGATTTG
1 ATACTTGACTT-GATTATGATTTG
* *
934620 ATACTTGACCTTGATTTTGATATG
1 ATACTTGA-CTTGATTATGATTTG
*
934644 ATACTTGACGTGAATTATGATTTG
1 ATACTTGACTTG-ATTATGATTTG
934668 AT
1 AT
934670 TTTTGATTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
23 3 0.05
24 59 0.91
25 3 0.05
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (23 bp):
ATACTTGACTTGATTATGATTTG
Found at i:934669 original size:48 final size:48
Alignment explanation
Indices: 934514--934652 Score: 174
Period size: 48 Copynumber: 2.9 Consensus size: 48
934504 TTTATTTGAT
* * *
934514 TTCTGATCTGATACTTAACATTGATTCTGATATGATA-TCTGACACGGA
1 TTCTGATCTGATACTTGACCTTGATTCTGATATGATACT-TGACATGGA
* * *
934562 TTCTGATCTAATACTTGA-CTTGGATTCTAATATGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACCTT-GATTCTGATATGATACTTGACATGGA
* *
934610 TTCTGATTTGATACTTGACCTTGATTTTGATATGATACTTGAC
1 TTCTGATCTGATACTTGACCTTGATTCTGATATGATACTTGAC
934653 GTGAATTATG
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
47 2 0.03
48 72 0.92
49 4 0.05
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.42
Consensus pattern (48 bp):
TTCTGATCTGATACTTGACCTTGATTCTGATATGATACTTGACATGGA
Found at i:942590 original size:13 final size:13
Alignment explanation
Indices: 942572--942598 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
942562 CTCAAACCTT
942572 TCGTCGTGAATCG
1 TCGTCGTGAATCG
942585 TCGTCGTGAATCG
1 TCGTCGTGAATCG
942598 T
1 T
942599 TAATTTCAGT
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:0.15, C:0.22, G:0.30, T:0.33
Consensus pattern (13 bp):
TCGTCGTGAATCG
Found at i:945581 original size:24 final size:24
Alignment explanation
Indices: 945549--945660 Score: 93
Period size: 24 Copynumber: 4.7 Consensus size: 24
945539 ATTTGATTTG
* *
945549 TGATCTGATACTTGACATGTATTC
1 TGATATGATACTTGACATGGATTC
*
945573 TGATATGATA-TCTGACATAGATTC
1 TGATATGATACT-TGACATGGATTC
* * * * *
945597 TGATCTAAAACTTTG-CTTGGATTA
1 TGATATGATAC-TTGACATGGATTC
* * *
945621 TTATATGATACTTGACCTGGATTT
1 TGATATGATACTTGACATGGATTC
945645 TGATATGATACTTGAC
1 TGATATGATACTTGAC
945661 GTGAATCATG
Statistics
Matches: 68, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
23 4 0.06
24 61 0.90
25 2 0.03
26 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (24 bp):
TGATATGATACTTGACATGGATTC
Found at i:945672 original size:24 final size:24
Alignment explanation
Indices: 945623--945672 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
945613 TTGGATTATT
* **
945623 ATATGATACTTGACCTGGATTTTG
1 ATATGATACTTGACCTGAATCATG
*
945647 ATATGATACTTGACGTGAATCATG
1 ATATGATACTTGACCTGAATCATG
945671 AT
1 AT
945673 TTGCTTTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (24 bp):
ATATGATACTTGACCTGAATCATG
Found at i:945882 original size:2 final size:2
Alignment explanation
Indices: 945875--945905 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
945865 CGGATGGGGG
945875 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 T
945906 TTTAAAAAAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:950484 original size:48 final size:48
Alignment explanation
Indices: 950351--950486 Score: 193
Period size: 48 Copynumber: 2.8 Consensus size: 48
950341 ATTTGATTTT
* *
950351 TGATCTGATACTTGACATTGATTCTGATATGATA-TCTAACATGGATTC
1 TGATCTGATACTTGACATGGATTCTGATATGATACT-TGACATGGATTC
* * *
950399 TGATCTGATACTTGACTTGGATTCTAATATGATACTTGACTTGGATTC
1 TGATCTGATACTTGACATGGATTCTGATATGATACTTGACATGGATTC
* *
950447 TGATCTGATACTTGACCTGGATTTTGATATGATACTTGAC
1 TGATCTGATACTTGACATGGATTCTGATATGATACTTGAC
950487 GTGAATTATG
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
48 78 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.40
Consensus pattern (48 bp):
TGATCTGATACTTGACATGGATTCTGATATGATACTTGACATGGATTC
Found at i:950498 original size:24 final size:24
Alignment explanation
Indices: 950351--950486 Score: 168
Period size: 24 Copynumber: 5.7 Consensus size: 24
950341 ATTTGATTTT
*
950351 TGATCTGATACTTGACATT-GATTC
1 TGATATGATACTTGAC-TTGGATTC
* *
950375 TGATATGATA-TCTAACATGGATTC
1 TGATATGATACT-TGACTTGGATTC
*
950399 TGATCTGATACTTGACTTGGATTC
1 TGATATGATACTTGACTTGGATTC
*
950423 TAATATGATACTTGACTTGGATTC
1 TGATATGATACTTGACTTGGATTC
* * *
950447 TGATCTGATACTTGACCTGGATTT
1 TGATATGATACTTGACTTGGATTC
950471 TGATATGATACTTGAC
1 TGATATGATACTTGAC
950487 GTGAATTATG
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
23 2 0.02
24 93 0.97
25 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.40
Consensus pattern (24 bp):
TGATATGATACTTGACTTGGATTC
Found at i:955137 original size:24 final size:24
Alignment explanation
Indices: 955107--955220 Score: 113
Period size: 24 Copynumber: 4.8 Consensus size: 24
955097 TTTATTATAT
*
955107 TTCTGATATGATACTTGACATGTA
1 TTCTGATATGATACTTGACATGGA
*
955131 TTCTGATATGATA-TCTGACATAGA
1 TTCTGATATGATACT-TGACATGGA
* * * *
955155 TTCTGATCTGAAACTTGGCTTGGA
1 TTCTGATATGATACTTGACATGGA
* * *
955179 TTATTATATGATACTTGACCTGGA
1 TTCTGATATGATACTTGACATGGA
* *
955203 TTTTGATATAATACTTGA
1 TTCTGATATGATACTTGA
955221 TGTGAATCAT
Statistics
Matches: 72, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
23 1 0.01
24 70 0.97
25 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (24 bp):
TTCTGATATGATACTTGACATGGA
Found at i:957435 original size:17 final size:17
Alignment explanation
Indices: 957413--957453 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
957403 ATGGTCAAAT
* * *
957413 GTTGACTGTTGACCTGC
1 GTTGACCGTTAACCAGC
957430 GTTGACCGTTAACCAGC
1 GTTGACCGTTAACCAGC
957447 GTTGACC
1 GTTGACC
957454 AGAACTTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (17 bp):
GTTGACCGTTAACCAGC
Found at i:959941 original size:24 final size:24
Alignment explanation
Indices: 959815--959929 Score: 135
Period size: 24 Copynumber: 4.8 Consensus size: 24
959805 TTTATTTGAT
*
959815 TTCTGATATAATACTTGACATT-GA
1 TTCTGATATGATACTTGAC-TTGGA
* *
959839 TTCTGATATGGTA-TCTGACATGGA
1 TTCTGATATGATACT-TGACTTGGA
*
959863 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATATGATACTTGACTTGGA
* *
959887 TTTTGATATGATACTTGACCTGGA
1 TTCTGATATGATACTTGACTTGGA
*
959911 TTTTGATATGATACTTGAC
1 TTCTGATATGATACTTGAC
959930 GTGAATTATG
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
23 2 0.03
24 76 0.96
25 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (24 bp):
TTCTGATATGATACTTGACTTGGA
Found at i:972475 original size:27 final size:28
Alignment explanation
Indices: 972445--972512 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 28
972435 GGAATTATTG
972445 AAATACCCCTAAAGTGTAAAATGACC-A
1 AAATACCCCTAAAGTGTAAAATGACCTA
* * *
972472 AAATTCCCCTAATGTGTAAAATGGCCTA
1 AAATACCCCTAAAGTGTAAAATGACCTA
* *
972500 AAGTACCTCTAAA
1 AAATACCCCTAAA
972513 CCCTGGAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
27 23 0.70
28 10 0.30
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.24
Consensus pattern (28 bp):
AAATACCCCTAAAGTGTAAAATGACCTA
Found at i:974010 original size:44 final size:45
Alignment explanation
Indices: 973929--974026 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 45
973919 GCTATGTGCA
* * * * *
973929 AAGACCTTCTCGTTATCGCAGGCTCATTTACTATGTGCA-TGGGT
1 AAGACCTTATCGTTATCACAGGCTCATCTACTATGTGCACAGGAT
* * * *
973973 AAGACCTTATCGTTATCATAGGCTCGTCTGCTTTGTGCACAGGAT
1 AAGACCTTATCGTTATCACAGGCTCATCTACTATGTGCACAGGAT
974018 AAGACCTTA
1 AAGACCTTA
974027 CCGCAGGCTC
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 32 0.73
45 12 0.27
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.33
Consensus pattern (45 bp):
AAGACCTTATCGTTATCACAGGCTCATCTACTATGTGCACAGGAT
Found at i:974065 original size:39 final size:39
Alignment explanation
Indices: 974012--974116 Score: 129
Period size: 39 Copynumber: 2.7 Consensus size: 39
974002 GCTTTGTGCA
* * *
974012 CAGGATAAGACCTTACCGCAGGCTCCTCGACTTTATACT
1 CAGGGTAAGTCCTTACCGCAGGCTCCTCGACCTTATACT
* * * * *
974051 CAGGGTAAGTCCTTACGGTAGGCTCCTCGGCCTTGTGCT
1 CAGGGTAAGTCCTTACCGCAGGCTCCTCGACCTTATACT
*
974090 CAGGGTAAGTCCTTACCACAGGCTCCT
1 CAGGGTAAGTCCTTACCGCAGGCTCCT
974117 ATGCTATATG
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (39 bp):
CAGGGTAAGTCCTTACCGCAGGCTCCTCGACCTTATACT
Found at i:974172 original size:43 final size:43
Alignment explanation
Indices: 974108--974314 Score: 288
Period size: 43 Copynumber: 4.8 Consensus size: 43
974098 GTCCTTACCA
* *
974108 CAGGCTCCTATGCTATATGCAAGGATAAGACCTTACCGTTTCC
1 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCC
* * *
974151 CATGCTCCTTTACTATGTGCAAGGATAAGACTTTACCGTTTCC
1 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCC
* * *
974194 CATGCTCCTTTGCTATGTGTAAGGATAAGACCATACCGTTTCC
1 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCC
* * *
974237 TAGGCTTCTTTGCTATGTGCAAGGATAAGACCTTACTGTTTCC
1 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCC
* * *
974280 CAGGCTCTTTTGCTATGTGAAAGGGTAAGACCTTA
1 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTA
974315 TCATTTTTGC
Statistics
Matches: 144, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 144 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (43 bp):
CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCC
Found at i:974218 original size:86 final size:86
Alignment explanation
Indices: 974108--974344 Score: 294
Period size: 86 Copynumber: 2.7 Consensus size: 86
974098 GTCCTTACCA
* * * *
974108 CAGGCTCCTATGCTATATGCAAGGATAAGACCTTACCGTTTCCCATGCTCCTTTACTATGTGCAA
1 CAGGCTCCTTTGCTATGTGAAAGGATAAGACCTTACCGTTTCCCAGGCTCCTTTACTATGTGCAA
*
974173 GGATAAGACTTTACCGTTTCC
66 GGATAAGACCTTACCGTTTCC
* * * * * *
974194 CATGCTCCTTTGCTATGTGTAAGGATAAGACCATACCGTTTCCTAGGCTTCTTTGCTATGTGCAA
1 CAGGCTCCTTTGCTATGTGAAAGGATAAGACCTTACCGTTTCCCAGGCTCCTTTACTATGTGCAA
*
974259 GGATAAGACCTTACTGTTTCC
66 GGATAAGACCTTACCGTTTCC
* * ** ** *
974280 CAGGCTCTTTTGCTATGTGAAAGGGTAAGACCTTATCATTTTTGCAGGCTCCTTTACTTTGTGCA
1 CAGGCTCCTTTGCTATGTGAAAGGATAAGACCTTA-CCGTTTCCCAGGCTCCTTTACTATGTGCA
974345 CAGGGAAAAT
Statistics
Matches: 126, Mismatches: 24, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
86 105 0.83
87 21 0.17
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (86 bp):
CAGGCTCCTTTGCTATGTGAAAGGATAAGACCTTACCGTTTCCCAGGCTCCTTTACTATGTGCAA
GGATAAGACCTTACCGTTTCC
Found at i:978933 original size:41 final size:41
Alignment explanation
Indices: 978855--978934 Score: 97
Period size: 41 Copynumber: 2.0 Consensus size: 41
978845 TTCGACTTGA
* * * *
978855 ATTCTGTTTTGATACATTACCTGAATTTTGTTCTGATTTGG
1 ATTCTGTTATGATACATGACCTGAATTCTATTCTGATTTGG
* * *
978896 ATTCTGTTATGATATATGATCTGAATTCTATTTTGATTT
1 ATTCTGTTATGATACATGACCTGAATTCTATTCTGATTT
978935 ATGACATTTC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.53
Consensus pattern (41 bp):
ATTCTGTTATGATACATGACCTGAATTCTATTCTGATTTGG
Found at i:985332 original size:12 final size:12
Alignment explanation
Indices: 985315--985340 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
985305 ATCAAAATAT
985315 TCTCATAATTTA
1 TCTCATAATTTA
985327 TCTCATAATTTA
1 TCTCATAATTTA
985339 TC
1 TC
985341 ATCTAAGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (12 bp):
TCTCATAATTTA
Found at i:986096 original size:18 final size:18
Alignment explanation
Indices: 986073--986114 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
986063 CAACGATTAA
986073 CAGGTCAACGAGTCGGGT
1 CAGGTCAACGAGTCGGGT
*
986091 CAGGTCAACGGGTCGGGT
1 CAGGTCAACGAGTCGGGT
*
986109 CGGGTC
1 CAGGTC
986115 GAGTTGTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.24, G:0.43, T:0.17
Consensus pattern (18 bp):
CAGGTCAACGAGTCGGGT
Found at i:988792 original size:18 final size:18
Alignment explanation
Indices: 988771--988823 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
988761 AACGCCAGTA
988771 AACGGGTCGGGTCGGGTC
1 AACGGGTCGGGTCGGGTC
*
988789 AACGGGTCGGGTCAGGTC
1 AACGGGTCGGGTCGGGTC
* *
988807 AACGAGTCAGGTCGGGT
1 AACGGGTCGGGTCGGGT
988824 TGTGATCGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.17, C:0.21, G:0.45, T:0.17
Consensus pattern (18 bp):
AACGGGTCGGGTCGGGTC
Found at i:988796 original size:13 final size:13
Alignment explanation
Indices: 988778--988802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
988768 GTAAACGGGT
988778 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
988791 CGGGTCGGGTCA
1 CGGGTCGGGTCA
988803 GGTCAACGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.24, G:0.48, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:999640 original size:24 final size:24
Alignment explanation
Indices: 999613--999719 Score: 79
Period size: 24 Copynumber: 4.5 Consensus size: 24
999603 AAATGGAGAT
*
999613 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * *
999637 ATCATATATCATAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
999661 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* ** * *
999685 TTCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
999709 ATCAGAAATCA
1 ATCAGAAATCA
999720 GATAAAATAT
Statistics
Matches: 58, Mismatches: 25, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.24
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:1002142 original size:10 final size:10
Alignment explanation
Indices: 1002127--1002151 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1002117 TTAATGCCCG
1002127 GTCAAAGCCA
1 GTCAAAGCCA
1002137 GTCAAAGCCA
1 GTCAAAGCCA
1002147 GTCAA
1 GTCAA
1002152 CGGGTCGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.28, G:0.20, T:0.12
Consensus pattern (10 bp):
GTCAAAGCCA
Found at i:1002656 original size:289 final size:279
Alignment explanation
Indices: 1002147--1002684 Score: 772
Period size: 289 Copynumber: 1.9 Consensus size: 279
1002137 GTCAAAGCCA
* * * * *
1002147 GTCAACGGGTCGGGTTGGAACCAGTTAAACCGGTCAAATGGGTTCAAAACCGGTCAAACCGGTCA
1 GTCAACGGGTCGGGTTGAAACCAGTCAAACCGATCAAATGGGTTCAAAACCGATCAAACCGATCA
* *
1002212 TTTGGACCATCCCCACGCGCAGTGGCGGCGCGTGACACGTCTTCTGGTAGCCTATAAATCACGAA
66 TTTGGACCATCCCCACGCGCAGTGGCGGCGCGTGACACGTCTTCTGGCAGCCTATAAATAACGAA
* * *
1002277 AATTTTTCTAAAAATTATTTTGAGTAATTTCAAGTTACTTACAAAGCACGGTTCAAATTTTTGAA
131 AATATTTCTAAAAATTATTTTGAGTAATTTCAAGGTACTTACAAAGCACAGTTCAAATTTTTGAA
* *
1002342 TGGCGGAGAGCTCGATTTCAACAAATCGGAAACTTTGACCATCACACCTCCTCAGTCAAAGTTTT
196 TGGCAGAGAGCTCGATTTCAACAAATCAGAAACTTTGACCATCACACCTCCTCAGTCAAAGTTTT
1002407 GGTCAACTATGGTAAACGG
261 GGTCAACTATGGTAAACGG
* *
1002426 GTCAACGGGTCGGGTTGAAACCGGTCAAACCTATCAAATGGGTTCAAAACCGATCAAACCGATCA
1 GTCAACGGGTCGGGTTGAAACCAGTCAAACCGATCAAATGGGTTCAAAACCGATCAAACCGATCA
* * * *
1002491 TTTGTACCATCCCCACGCGTAGTGGCGGCATGTGGGGGATCGTGACACTTGTTCTGGCAGCCTAT
66 TTTGGACCATCCCCACGCGCAGTGGCGGC--------G--CGTGACACGTCTTCTGGCAGCCTAT
* * *
1002556 AAATAACGGAAAA-ATTTCTAAAAATTATTTTGAGTGATTTCGAGGTACTTACAAAGCTCAGTTC
121 AAATAAC-GAAAATATTTCTAAAAATTATTTTGAGTAATTTCAAGGTACTTACAAAGCACAGTTC
*
1002620 AAATTTTTGAATGGCAGAGAGCTCGATTTCAACAAATCAGAAACTTTGACCGTCACACCTCCTCA
185 AAATTTTTGAATGGCAGAGAGCTCGATTTCAACAAATCAGAAACTTTGACCATCACACCTCCTCA
1002685 CGCGCCGCTG
Statistics
Matches: 226, Mismatches: 22, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
279 85 0.38
287 1 0.00
289 135 0.60
290 5 0.02
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (279 bp):
GTCAACGGGTCGGGTTGAAACCAGTCAAACCGATCAAATGGGTTCAAAACCGATCAAACCGATCA
TTTGGACCATCCCCACGCGCAGTGGCGGCGCGTGACACGTCTTCTGGCAGCCTATAAATAACGAA
AATATTTCTAAAAATTATTTTGAGTAATTTCAAGGTACTTACAAAGCACAGTTCAAATTTTTGAA
TGGCAGAGAGCTCGATTTCAACAAATCAGAAACTTTGACCATCACACCTCCTCAGTCAAAGTTTT
GGTCAACTATGGTAAACGG
Found at i:1004413 original size:24 final size:24
Alignment explanation
Indices: 1004386--1004490 Score: 86
Period size: 24 Copynumber: 4.4 Consensus size: 24
1004376 AAACGGAGAT
1004386 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACATAATTCAG
* * * * *
1004410 ATCATATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACATAATTCAG
* * * *
1004434 GTTAGGAATCAGAACA-AATTTCAG
1 ATCAGAAATCAAAACATAA-TTCAG
** *
1004458 ATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACATAATTCAG
1004482 ATCAGAAAT
1 ATCAGAAAT
1004491 TAGATAAAAT
Statistics
Matches: 59, Mismatches: 20, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
23 2 0.03
24 55 0.93
25 2 0.03
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.23
Consensus pattern (24 bp):
ATCAGAAATCAAAACATAATTCAG
Found at i:1009038 original size:24 final size:24
Alignment explanation
Indices: 1009011--1009117 Score: 81
Period size: 24 Copynumber: 4.5 Consensus size: 24
1009001 AAATGGAGAT
1009011 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACATAATTCAG
* * * * *
1009035 ATCATATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACATAATTCAG
* * * *
1009059 GTTAGGAATCAGAACA-AATTTCAG
1 ATCAGAAATCAAAACATAA-TTCAG
* ** *
1009083 ATAAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACATAATTCAG
1009107 ATCAGAAATCA
1 ATCAGAAATCA
1009118 GATAAATATT
Statistics
Matches: 60, Mismatches: 21, Indels: 4
0.71 0.25 0.05
Matches are distributed among these distances:
23 2 0.03
24 56 0.93
25 2 0.03
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (24 bp):
ATCAGAAATCAAAACATAATTCAG
Found at i:1012833 original size:24 final size:24
Alignment explanation
Indices: 1012806--1012912 Score: 81
Period size: 24 Copynumber: 4.5 Consensus size: 24
1012796 AAATGGAGAT
1012806 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACATAATTCAG
* * * * *
1012830 ATCATATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACATAATTCAG
* * * *
1012854 GTTAGGAATCAGAACA-AATTTCAG
1 ATCAGAAATCAAAACATAA-TTCAG
* ** *
1012878 ATAAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACATAATTCAG
1012902 ATCAGAAATCA
1 ATCAGAAATCA
1012913 GATAATATAT
Statistics
Matches: 60, Mismatches: 21, Indels: 4
0.71 0.25 0.05
Matches are distributed among these distances:
23 2 0.03
24 56 0.93
25 2 0.03
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (24 bp):
ATCAGAAATCAAAACATAATTCAG
Found at i:1016631 original size:24 final size:24
Alignment explanation
Indices: 1016604--1016710 Score: 72
Period size: 24 Copynumber: 4.5 Consensus size: 24
1016594 AAACGGAGAT
1016604 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACATAATTCAG
* * * * *
1016628 ATCATATATCATAACAGAATCCAG
1 ATCAGAAATCAAAACATAATTCAG
* * * *
1016652 GTTAGGAATCAGAACA-AATTTCAG
1 ATCAGAAATCAAAACATAA-TTCAG
* ** *
1016676 ATAAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACATAATTCAG
*
1016700 ATCATAAATCA
1 ATCAGAAATCA
1016711 GATAAAATAT
Statistics
Matches: 58, Mismatches: 23, Indels: 4
0.68 0.27 0.05
Matches are distributed among these distances:
23 2 0.03
24 54 0.93
25 2 0.03
ACGTcount: A:0.50, C:0.16, G:0.10, T:0.24
Consensus pattern (24 bp):
ATCAGAAATCAAAACATAATTCAG
Found at i:1025628 original size:21 final size:21
Alignment explanation
Indices: 1025583--1025641 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
1025573 GGCCTTGTGC
* *
1025583 ATCGATGCACAATCAAGGAGTGT
1 ATCGATGCACATTC-ATG-GTGT
* *
1025606 ATCGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCATGGTGT
1025627 ATCGATGCACATTCA
1 ATCGATGCACATTCA
1025642 AAGGGATGCA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 17 0.57
22 2 0.07
23 11 0.37
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (21 bp):
ATCGATGCACATTCATGGTGT
Found at i:1031589 original size:69 final size:68
Alignment explanation
Indices: 1031491--1031626 Score: 177
Period size: 69 Copynumber: 2.0 Consensus size: 68
1031481 GCATGAAGAA
* *
1031491 CATTCGATTTTTCAAAATAGCCTGAGTGCATCAATCCAT-GTCTTGTGCATCGATGCATCAAATG
1 CATTCGATTTTTCAAAATAGCCTGAGTGCATCAATCCATGGT-ATGTGCATCGATGCATAAAATG
1031555 CATG
65 CATG
* * * *
1031559 CATTCGATGTTTTCATAAA-ATCTTGAGTGCATCGATGCATGGTATGTGCATCGATGCATAAAAT
1 CATTCGAT-TTTTCA-AAATAGCCTGAGTGCATCAATCCATGGTATGTGCATCGATGCATAAAAT
1031623 GCAT
64 GCAT
1031627 TTGATGTTCA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
68 8 0.14
69 46 0.78
70 5 0.08
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (68 bp):
CATTCGATTTTTCAAAATAGCCTGAGTGCATCAATCCATGGTATGTGCATCGATGCATAAAATGC
ATG
Found at i:1032443 original size:27 final size:28
Alignment explanation
Indices: 1032413--1032480 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 28
1032403 GGAATTATAG
*
1032413 AAATACCCCTAAAGTGTAAAATGACC-A
1 AAATACCCCTAAAGTATAAAATGACCTA
* *
1032440 AAATTCCCCTAAAGTATAAAATGGCCTA
1 AAATACCCCTAAAGTATAAAATGACCTA
* *
1032468 AAGTACCTCTAAA
1 AAATACCCCTAAA
1032481 CCCTGGAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 23 0.68
28 11 0.32
ACGTcount: A:0.46, C:0.22, G:0.10, T:0.22
Consensus pattern (28 bp):
AAATACCCCTAAAGTATAAAATGACCTA
Done.