Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008645.1 Hibiscus syriacus cultivar Beakdansim tig00111621_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: 4138222
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 22
Found at i:3007211 original size:12 final size:12
Alignment explanation
Indices: 3007141--3007214 Score: 85
Period size: 12 Copynumber: 6.2 Consensus size: 12
3007131 GGCGATGAAT
3007141 ATGACGATGATG
1 ATGACGATGATG
*
3007153 ATGACGATGAAG
1 ATGACGATGATG
* *
3007165 CTGACGATGAAG
1 ATGACGATGATG
* *
3007177 ATGATGACGATG
1 ATGACGATGATG
*
3007189 ATGATGATGATG
1 ATGACGATGATG
*
3007201 ATGAAGATGATG
1 ATGACGATGATG
3007213 AT
1 AT
3007215 CCAAATAAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 54 1.00
ACGTcount: A:0.36, C:0.07, G:0.32, T:0.24
Consensus pattern (12 bp):
ATGACGATGATG
Found at i:3008428 original size:16 final size:16
Alignment explanation
Indices: 3008407--3008440 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3008397 TATCCACAAC
*
3008407 AAAGTGTCGATTTAAA
1 AAAGTGTCGATTGAAA
3008423 AAAGTGTCGATTGAAA
1 AAAGTGTCGATTGAAA
3008439 AA
1 AA
3008441 TGTAATAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (16 bp):
AAAGTGTCGATTGAAA
Found at i:3008832 original size:23 final size:23
Alignment explanation
Indices: 3008801--3008873 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
3008791 ATAGGTAAAA
*
3008801 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
3008824 ATATAATGTAATAGATATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
3008847 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
3008870 ATAT
1 ATAT
3008874 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:3009539 original size:183 final size:183
Alignment explanation
Indices: 3009253--3009745 Score: 864
Period size: 183 Copynumber: 2.7 Consensus size: 183
3009243 GCAATGCTAT
* *
3009253 CGGTATAAATATACCGGTTTTAT-ACGCGAATAGGTCTACAACTTATATCGACACTTTTTAATAT
1 CGGTATAAATATACCGGTTTTATGA-GCGAATAGGTCTACAACCTATATCGACACTTTCTAATAT
* * * *
3009317 TATGCCGGTACTTTATGTCCAGATTGGAAGAATAATGTGTCGATA-CATTGTCAAAAAGTGTCGA
65 TGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-TAAAAAAGTGTCGA
*
3009381 CATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
129 CATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
3009436 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
*
3009501 GTGTCGGTACTTTATGTCCAGATTGAAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACA
*
3009566 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
131 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
3009619 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
*
3009684 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATATCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
3009746 GTAATTTTAA
Statistics
Matches: 297, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
183 292 0.98
184 5 0.02
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (183 bp):
CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACA
TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:3012238 original size:25 final size:25
Alignment explanation
Indices: 3012210--3012274 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
3012200 TTATCATTAA
3012210 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
3012235 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
3012260 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
3012275 TCTTTTGAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:3012684 original size:23 final size:23
Alignment explanation
Indices: 3012621--3012693 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
3012611 ATAGGTAAAA
* *
3012621 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTATCGCTT
*
3012644 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGCTT
* *
3012667 ATATAATGTAATAGGTATTGGTT
1 ATATAATGTAATAGGTATCGCTT
3012690 ATAT
1 ATAT
3012694 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGCTT
Found at i:3013082 original size:23 final size:23
Alignment explanation
Indices: 3013056--3013122 Score: 98
Period size: 23 Copynumber: 2.9 Consensus size: 23
3013046 AAAAATATGT
3013056 TGTAATAGGTAGCGCTTATATAA
1 TGTAATAGGTAGCGCTTATATAA
* *
3013079 TGTAATAGGTATCGTTTATATAA
1 TGTAATAGGTAGCGCTTATATAA
* *
3013102 TGTAATAGGTAGTGGTTATAT
1 TGTAATAGGTAGCGCTTATAT
3013123 TATAAAGTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
TGTAATAGGTAGCGCTTATATAA
Found at i:3013150 original size:21 final size:21
Alignment explanation
Indices: 3013126--3013165 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3013116 GTTATATTAT
*
3013126 AAAGTATATATCCTTTTTTTA
1 AAAGTATATATACTTTTTTTA
* *
3013147 AAAGTGTCTATACTTTTTT
1 AAAGTATATATACTTTTTT
3013166 CACTGTGGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (21 bp):
AAAGTATATATACTTTTTTTA
Found at i:3013396 original size:430 final size:430
Alignment explanation
Indices: 3012418--3013717 Score: 2390
Period size: 430 Copynumber: 3.0 Consensus size: 430
3012408 GTTAATGTTG
* *
3012418 TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
1 TTAAATTAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
*
3012483 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTT-AAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
*
3012547 AATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AATTACATAAC-TTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
3012612 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
195 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
3012677 ATAGGTATTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATAC-TTTTTCACTG
260 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTG
3012741 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
325 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
*
3012806 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTG
390 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
* *
3012847 TTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
3012912 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
*
3012977 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
*
3013042 AGGTAAAAATATGTTGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
* * *
3013107 TAGGTAGTGGTTATATTATAAAGTATATATCCTTTTTTTAAAAGTGTCTATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
3013172 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
*
3013237 GTCTAATGATTTATTTTTTACGTTACAATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
3013277 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
1 TTAAATT-AAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
*
3013342 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAATAT
65 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
3013407 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
3013472 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTA
195 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* *
3013537 ATAGGT-GTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
260 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTG
*
3013601 TGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
325 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
3013666 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
390 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
3013707 TTAAATTAAAA
1 TTAAATTAAAA
3013718 ACAATAAACA
Statistics
Matches: 843, Mismatches: 25, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
429 278 0.33
430 313 0.37
431 252 0.30
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (430 bp):
TTAAATTAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:3013512 original size:23 final size:23
Alignment explanation
Indices: 3013481--3013552 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
3013471 ATAGGTAAAA
*
3013481 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
3013504 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
3013527 ATATAATGTAATAGGT-GTGCTT
1 ATATAATGTAATAGGTAGCGCTT
3013549 ATAT
1 ATAT
3013553 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
22 8 0.18
23 37 0.82
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:3014964 original size:21 final size:20
Alignment explanation
Indices: 3014916--3015010 Score: 68
Period size: 20 Copynumber: 4.7 Consensus size: 20
3014906 GCGATTCTTG
3014916 AAAATCGCAATGCGATAGTC
1 AAAATCGCAATGCGATAGTC
* * **
3014936 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAATGCGATAGT-C
* *
3014957 AAAATCGCAACGCGAATA-TG
1 AAAATCGCAATGCG-ATAGTC
* **
3014977 AAAATCGCAACGCGA-ACAC
1 AAAATCGCAATGCGATAGTC
3014996 ATAAATCGCAATGCG
1 A-AAATCGCAATGCG
3015011 TATCCGTAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
18 1 0.02
19 2 0.03
20 41 0.69
21 13 0.22
22 2 0.03
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (20 bp):
AAAATCGCAATGCGATAGTC
Found at i:3015005 original size:61 final size:62
Alignment explanation
Indices: 3014855--3015010 Score: 149
Period size: 61 Copynumber: 2.5 Consensus size: 62
3014845 AATGACCAAC
* * * * * * * *
3014855 AAAATCGCAACGCGATCCCCAGAATCGCAAAT-C-AGTGTCCAAAATTGCAACGCGATTCTTG
1 AAAATCGCAACGCGATACACAAAATCGC-AATGCGATTTTCCAAAATCGCAACGCGAATCATG
* ** * *
3014916 AAAATCGCAATGCGATAGTCAAATTCGCATTGCGATTTTCCAAAATCGCAACGCGAAT-ATG
1 AAAATCGCAACGCGATACACAAAATCGCAATGCGATTTTCCAAAATCGCAACGCGAATCATG
3014977 AAAATCGCAACGCGA-ACACATAAATCGCAATGCG
1 AAAATCGCAACGCGATACACA-AAATCGCAATGCG
3015011 TATCCGTAAA
Statistics
Matches: 75, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
60 5 0.07
61 50 0.67
62 20 0.27
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (62 bp):
AAAATCGCAACGCGATACACAAAATCGCAATGCGATTTTCCAAAATCGCAACGCGAATCATG
Found at i:3015020 original size:20 final size:20
Alignment explanation
Indices: 3014958--3015167 Score: 192
Period size: 20 Copynumber: 10.5 Consensus size: 20
3014948 CGATTTTCCA
* ** *
3014958 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
3014978 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
3014998 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
3015018 AAATCACAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
3015038 AAATCGCAACGCGTTTCCGT
1 AAATCGCAACGCGTATCCGT
*
3015058 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
3015078 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
3015098 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
3015118 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
3015138 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
3015158 AAATCACAAC
1 AAATCGCAAC
3015168 ACTGAAATTT
Statistics
Matches: 156, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 152 0.97
21 2 0.01
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:3015889 original size:24 final size:24
Alignment explanation
Indices: 3015850--3015896 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
3015840 AAATTTGGTC
3015850 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
3015874 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
3015897 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:3016088 original size:12 final size:12
Alignment explanation
Indices: 3016071--3016095 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3016061 ATATAATCCT
3016071 GAAGAAGAAAAA
1 GAAGAAGAAAAA
3016083 GAAGAAGAAAAA
1 GAAGAAGAAAAA
3016095 G
1 G
3016096 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:3018400 original size:19 final size:19
Alignment explanation
Indices: 3018378--3018613 Score: 278
Period size: 19 Copynumber: 13.4 Consensus size: 19
3018368 CGGAAATTAC
*
3018378 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
3018397 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
3018411 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
3018431 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
3018445 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
3018464 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
3018483 AATCGCAAT--G--A-GAG
1 AATCGCAATGCGAAATGAA
3018497 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
3018516 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
3018535 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
3018554 AATCACAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
3018573 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
3018587 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
3018606 AATCGCAA
1 AATCGCAA
3018614 CGAGAGAATC
Statistics
Matches: 188, Mismatches: 8, Indels: 42
0.79 0.03 0.18
Matches are distributed among these distances:
14 41 0.22
15 2 0.01
16 10 0.05
17 9 0.05
18 3 0.02
19 110 0.59
20 13 0.07
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:3018496 original size:52 final size:52
Alignment explanation
Indices: 3018406--3018580 Score: 269
Period size: 52 Copynumber: 3.2 Consensus size: 52
3018396 AAATCCCAAC
*
3018406 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAATGAGAGAATCGCAATGCGAA
3018459 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGAGAGAATCGCAATGCGAA
* *
3018511 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCACAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAT--G--A-GAGAATCGCAATGCGAA
3018568 ATGAAAATCGCAA
1 ATGAAAATCGCAA
3018581 CGAAAGAATC
Statistics
Matches: 114, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
52 68 0.60
53 16 0.14
54 1 0.01
56 1 0.01
57 28 0.25
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAATGAGAGAATCGCAATGCGAA
Found at i:3018542 original size:38 final size:35
Alignment explanation
Indices: 3018378--3018635 Score: 272
Period size: 33 Copynumber: 7.5 Consensus size: 35
3018368 CGGAAATTAC
* * *
3018378 AATCGCAACGCGAAATGAAAATCCCAAC--ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAA
*
3018411 AATCGCAATGCGGAAATGAAAATCGCAACG--AGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAAAGAA
3018445 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAA-GAA
*
3018483 AATCGCAAT--G--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAA-GAA
3018516 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAA-GAA
*
3018554 AATCACAATGCGAAATGAAAATCGCAACGAAAG--
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAA
*
3018587 AATCGCAATGCGAAATGAAAATCGCAACG--AGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAA
3018620 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
3018636 TATAAACGCA
Statistics
Matches: 202, Mismatches: 9, Indels: 28
0.85 0.04 0.12
Matches are distributed among these distances:
31 2 0.01
33 100 0.50
34 30 0.15
35 4 0.02
36 6 0.03
37 2 0.01
38 58 0.29
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (35 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAAGAA
Found at i:3018591 original size:52 final size:55
Alignment explanation
Indices: 3018378--3018613 Score: 238
Period size: 52 Copynumber: 4.5 Consensus size: 55
3018368 CGGAAATTAC
* *
3018378 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GC-GAAATG-A
*
3018431 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
*
3018483 AATCGCAAT--G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
*
3018535 AATCGCAATGCGAAATGAAAATCACAATGCGAAATGAAAATCGCAA-CGAAA-G-
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
3018587 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
3018614 CGAGAGAATC
Statistics
Matches: 167, Mismatches: 5, Indels: 23
0.86 0.03 0.12
Matches are distributed among these distances:
48 9 0.05
49 1 0.01
50 1 0.01
51 2 0.01
52 94 0.56
53 24 0.14
54 2 0.01
55 5 0.03
56 1 0.01
57 28 0.17
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (55 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
Found at i:3018592 original size:14 final size:14
Alignment explanation
Indices: 3018573--3018627 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
3018563 GCGAAATGAA
3018573 AATCGCAACGAAAG
1 AATCGCAACGAAAG
3018587 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
3018604 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
3018620 AATCGCAA
1 AATCGCAA
3018628 TGCGAAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 5 0.14
19 8 0.23
ACGTcount: A:0.47, C:0.20, G:0.22, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:3018751 original size:19 final size:19
Alignment explanation
Indices: 3018642--3018743 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
3018632 AAATTATAAA
3018642 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
3018661 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
3018681 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
3018697 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
3018714 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
3018733 CGCATTGCGAT
1 CGCATTGCGAT
3018744 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:3018869 original size:14 final size:14
Alignment explanation
Indices: 3018850--3018886 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
3018840 CATCAATTAC
3018850 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
3018864 ACAAATCATCTTTT
1 ACAAATCAACTTTT
3018878 ACAAATCAA
1 ACAAATCAA
3018887 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:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:3020883 original size:14 final size:14
Alignment explanation
Indices: 3020864--3020920 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
3020854 GCGAAATGAA
*
3020864 AATCGCAACGACAG
1 AATCGCAACGAAAG
3020878 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
3020895 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
3020911 AATCGCAACG
1 AATCGCAACG
3020921 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:3020891 original size:33 final size:33
Alignment explanation
Indices: 3020845--3020937 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
3020835 GCGAAACCAA
*
3020845 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
3020878 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
3020911 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
3020938 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:3020902 original size:19 final size:19
Alignment explanation
Indices: 3020808--3020942 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
3020798 TAGTTTACTT
* *
3020808 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
3020828 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
3020847 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
3020866 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
3020880 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
3020899 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
3020913 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
3020932 TCGCAATGCGA
1 TCGCAACGCGA
3020943 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:3020960 original size:19 final size:19
Alignment explanation
Indices: 3020938--3021050 Score: 120
Period size: 19 Copynumber: 6.5 Consensus size: 19
3020928 AAAATCGCAA
3020938 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
3020957 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
3020971 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
3020990 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
3021004 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
3021023 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
3021042 TGCGATTTT
1 TGCGATTTT
3021051 AACTTTCGTG
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
14 22 0.29
15 1 0.01
16 2 0.03
17 2 0.03
18 2 0.03
19 48 0.62
ACGTcount: A:0.07, C:0.18, G:0.28, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:3020980 original size:33 final size:33
Alignment explanation
Indices: 3020938--3021029 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
3020928 AAAATCGCAA
3020938 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
3020971 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
3021004 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
3021030 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:3021063 original size:20 final size:18
Alignment explanation
Indices: 3020968--3021066 Score: 80
Period size: 19 Copynumber: 5.4 Consensus size: 18
3020958 GCGATCTTGT
*
3020968 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTT-ATTTCG
* *
3020987 CGTTGCGA--TTCTGT--
1 CGTTGCGATTTTATTTCG
3021001 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTT-ATTTCG
*
3021020 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTT-ATTTCG
3021039 CGTTGCGATTTTAACTTTCG
1 CGTTGCGATTTT-A-TTTCG
*
3021059 TGTTGCGA
1 CGTTGCGA
3021067 AAGTAAACTA
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
14 8 0.12
16 4 0.06
17 4 0.06
19 37 0.57
20 12 0.18
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.45
Consensus pattern (18 bp):
CGTTGCGATTTTATTTCG
Found at i:3021230 original size:93 final size:93
Alignment explanation
Indices: 3021114--3021489 Score: 718
Period size: 93 Copynumber: 4.1 Consensus size: 93
3021104 ATGGATTGCA
*
3021114 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAAAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
3021178 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
3021206 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
3021271 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
3021299 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
3021364 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
3021392 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAATAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
3021457 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
3021485 TTACT
1 TTACT
3021490 AAGCAATCTA
Statistics
Matches: 280, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 4 0.01
93 276 0.99
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:3023231 original size:39 final size:33
Alignment explanation
Indices: 3023188--3023277 Score: 117
Period size: 33 Copynumber: 2.5 Consensus size: 33
3023178 TCTTTTGGTT
3023188 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGC
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAACGC
*
3023227 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
3023260 GAAATGAAAATCGCAACG
1 GAAATGAAAATCGCAACG
3023278 CGAAATAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
33 26 0.53
36 1 0.02
38 1 0.02
39 21 0.43
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:3023234 original size:19 final size:20
Alignment explanation
Indices: 3023190--3023251 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
3023180 TTTTGGTTGA
*
3023190 AATGAAAATCGCAACGAGAG
1 AATGACAATCGCAACGAGAG
** *
3023210 AATGACTGTCGCAACGCGA-
1 AATGACAATCGCAACGAGAG
3023229 AATGACAATCGCAACGAGAG
1 AATGACAATCGCAACGAGAG
3023249 AAT
1 AAT
3023252 CGCAACGCGA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (20 bp):
AATGACAATCGCAACGAGAG
Found at i:3023273 original size:19 final size:19
Alignment explanation
Indices: 3023188--3023299 Score: 108
Period size: 19 Copynumber: 6.1 Consensus size: 19
3023178 TCTTTTGGTT
*
3023188 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
***
3023207 GAGAATGACTGTCGCAACGC
1 GA-AATGAAAATCGCAACGC
*
3023227 GAAATGACAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
3023244 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
3023260 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
3023279 GAAATAAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
3023298 GA
1 GA
3023300 TTTTGGTTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 46 0.60
20 15 0.19
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:3023328 original size:19 final size:19
Alignment explanation
Indices: 3023295--3023385 Score: 110
Period size: 19 Copynumber: 4.7 Consensus size: 19
3023285 AAAATCGCAA
**
3023295 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
3023314 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
3023333 TGCGATTGTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*** *
3023352 TGCGACAGTCATTCTCTCGT
1 TGCGATTTTCATT-TCGCGT
3023372 TGCGATTTTCATTT
1 TGCGATTTTCATTT
3023386 ATCTCGTTGC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
19 47 0.76
20 15 0.24
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:3023519 original size:33 final size:33
Alignment explanation
Indices: 3023477--3023546 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
3023467 AATACTAACT
3023477 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
3023510 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
3023543 TGAA
1 TGAA
3023547 TTCTAAGTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.47, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:3023781 original size:22 final size:22
Alignment explanation
Indices: 3023729--3023783 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
3023719 TGGTTGTGAG
**
3023729 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
3023751 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
3023773 GGATTTCTTCG
1 GGATTTCTTCG
3023784 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:3023955 original size:20 final size:20
Alignment explanation
Indices: 3023930--3024123 Score: 194
Period size: 20 Copynumber: 9.7 Consensus size: 20
3023920 CTTTAAATAT
3023930 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
3023950 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
* * *
3023972 -TCGTTGTGATTTACCGATA
1 CGCGTTGCGATTTACGGATA
*
3023991 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
3024011 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
3024031 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
3024051 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
3024071 CGCATTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
3024091 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
3024111 CGCGTTGCGATTT
1 CGCGTTGCGATTT
3024124 TGGAAAATCG
Statistics
Matches: 141, Mismatches: 28, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
19 2 0.01
20 123 0.87
21 14 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:3024095 original size:60 final size:60
Alignment explanation
Indices: 3023932--3024103 Score: 227
Period size: 60 Copynumber: 2.9 Consensus size: 60
3023922 TTAAATATCG
* ** * *
3023932 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGTGATTTACCGATACG
1 CGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTACCGATACA
* *** * *
3023993 CGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACCGATACA
*
3024053 CGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTT
1 CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTT
3024104 TCATATTCGC
Statistics
Matches: 94, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
60 68 0.72
61 26 0.28
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.35
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACCGATACA
Found at i:3024117 original size:60 final size:60
Alignment explanation
Indices: 3023929--3024244 Score: 225
Period size: 60 Copynumber: 5.2 Consensus size: 60
3023919 GCTTTAAATA
* ** * * *
3023929 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGTGATTTACCGAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTTCAGAT
* * *** * * *
3023990 ACGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
* * * *
3024050 ACACGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
* * * * * *
3024110 TCGCGTTGCGATTT-TGGAAAATCGCAATGCGAATT-TG-ACTATCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTACGG-ATA-CGCATTGCGATTTATGTA-T-TCGCGTTGCGATTTTC-AGAT
* * * * *
3024172 TCGCGTTGCGATTT-TGGAAACTG-ATTTGCGA-TTATGGGGA-TCGCGTTGCGATTTTTA-TT
1 TCGCGTTGCGATTTACGGATAC-GCA-TTGCGATTTAT--GTATTCGCGTTGCGATTTTCAGAT
3024231 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
3024245 TGTTGGTCAT
Statistics
Matches: 208, Mismatches: 36, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
59 16 0.08
60 93 0.45
61 78 0.38
62 19 0.09
63 1 0.00
64 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (60 bp):
TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
Found at i:3024140 original size:21 final size:20
Alignment explanation
Indices: 3024090--3024187 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
3024080 ATTTATGTGT
* * * *
3024090 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
3024110 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
3024131 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
3024151 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
3024172 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
3024188 GAAACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:3024163 original size:61 final size:60
Alignment explanation
Indices: 3024090--3024246 Score: 176
Period size: 61 Copynumber: 2.6 Consensus size: 60
3024080 ATTTATGTGT
*
3024090 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCA-ATGCGAATT-TGACTA
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAAT-G-ATATGCG-ATTATGACGA
* * * * * **
3024151 TCGCATTGCGATTTTCAAGAATCGCGTTGCGATTTTGGAAACTGATTTGCGATTATGGGGA
1 TCGCGTTGCGATTTTC-ATATTCGCGTTGCGATTTTGGAAAATGATATGCGATTATGACGA
*
3024212 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTG
3024247 TTGGTCATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
59 16 0.20
60 5 0.06
61 37 0.46
62 23 0.28
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (60 bp):
TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATGATATGCGATTATGACGA
Found at i:3024182 original size:41 final size:41
Alignment explanation
Indices: 3024090--3024246 Score: 110
Period size: 41 Copynumber: 3.9 Consensus size: 41
3024080 ATTTATGTGT
* * *
3024090 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
3024131 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
* * * ***
3024172 TCGCGTTGCGATTTTGGAAACT-G-ATTTGCGATTATG-GGGA
1 TCGCGTTGCGATTTT-GATATTCGCA-TTGCGATTTTGCAAAA
* *
3024212 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTG
3024247 TTGGTCATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 19 0.21
41 52 0.58
42 5 0.06
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:3025639 original size:6 final size:6
Alignment explanation
Indices: 3025628--3025703 Score: 53
Period size: 6 Copynumber: 12.7 Consensus size: 6
3025618 CTCTTATTTG
** * * * ** *
3025628 TGTGCA TGTGCA TGAACA CGTGTA TGTGCG TGTGCA TGAACA TGTGCG
1 TGTGCA TGTGCA TGTGCA TGTGCA TGTGCA TGTGCA TGTGCA TGTGCA
* * *
3025676 TGTGCA TGTGCG TGTGCG TGTGCT TGTG
1 TGTGCA TGTGCA TGTGCA TGTGCA TGTG
3025704 TATATGTATG
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.14, C:0.16, G:0.37, T:0.33
Consensus pattern (6 bp):
TGTGCA
Found at i:3025672 original size:18 final size:18
Alignment explanation
Indices: 3025651--3025698 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
3025641 GAACACGTGT
3025651 ATGTGCGTGTGCATGAAC
1 ATGTGCGTGTGCATGAAC
**
3025669 ATGTGCGTGTGCATGTGC
1 ATGTGCGTGTGCATGAAC
*
3025687 GTGTGCGTGTGC
1 ATGTGCGTGTGC
3025699 TTGTGTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.12, C:0.17, G:0.40, T:0.31
Consensus pattern (18 bp):
ATGTGCGTGTGCATGAAC
Found at i:3025679 original size:24 final size:24
Alignment explanation
Indices: 3025627--3025686 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
3025617 TCTCTTATTT
*
3025627 GTGTGCATGTGCATGAACACGTGT
1 GTGTGCATGTGCATGAACACGTGC
* * *
3025651 ATGTGCGTGTGCATGAACATGTGC
1 GTGTGCATGTGCATGAACACGTGC
3025675 GTGTGCATGTGC
1 GTGTGCATGTGC
3025687 GTGTGCGTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.18, C:0.17, G:0.35, T:0.30
Consensus pattern (24 bp):
GTGTGCATGTGCATGAACACGTGC
Found at i:3028953 original size:66 final size:69
Alignment explanation
Indices: 3028842--3029010 Score: 281
Period size: 66 Copynumber: 2.5 Consensus size: 69
3028832 AATTGTTCCT
* *
3028842 CCTTCAAATGGCGAGGGCATAGCTTGAATCTAAGCCGTGAGAGTTCCTAGA-AA-ATAAA-AAGA
1 CCTTTAAATGGCGAGGGCATAGCTTGAATCTAAGCCGTGAGAGTTCCTAGATAATAAAAAGAAGA
3028904 AGAA
66 AGAA
* *
3028908 CCTTTAAATGGCGACGGCATAGCTTGAATCTAAGCTGTGAGAGTTCCTAGATAATAAAAAGAAGA
1 CCTTTAAATGGCGAGGGCATAGCTTGAATCTAAGCCGTGAGAGTTCCTAGATAATAAAAAGAAGA
3028973 AGAA
66 AGAA
3028977 CCTTTAAATGGCGAGGGCATAGCTTGAATCTAAG
1 CCTTTAAATGGCGAGGGCATAGCTTGAATCTAAG
3029011 AAAAATGGTG
Statistics
Matches: 95, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
66 48 0.51
67 2 0.02
68 4 0.04
69 41 0.43
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.22
Consensus pattern (69 bp):
CCTTTAAATGGCGAGGGCATAGCTTGAATCTAAGCCGTGAGAGTTCCTAGATAATAAAAAGAAGA
AGAA
Found at i:3029037 original size:21 final size:21
Alignment explanation
Indices: 3029011--3029057 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
3029001 TGAATCTAAG
3029011 AAAAATGGTGGTTAAAAGAAA
1 AAAAATGGTGGTTAAAAGAAA
3029032 AAAAATGGTGGTTAAAAGAAA
1 AAAAATGGTGGTTAAAAGAAA
3029053 AAAAA
1 AAAAA
3029058 ATCCAAACCT
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:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (21 bp):
AAAAATGGTGGTTAAAAGAAA
Found at i:3029728 original size:36 final size:37
Alignment explanation
Indices: 3029686--3029771 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 37
3029676 CTAAATTATT
* *
3029686 TATTTAATATTTAAATTTTTA-TATATTTTAAAATTA
1 TATTTAAAATTTAAATTTTTATTATATTTTAAAATCA
* * *
3029722 TATTTAAAATTT-AGTTTTTATTTTATTTTAATATCA
1 TATTTAAAATTTAAATTTTTATTATATTTTAAAATCA
*
3029758 AATTTAAAATTTAA
1 TATTTAAAATTTAA
3029772 CATTAAGTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
35 7 0.17
36 34 0.81
37 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (37 bp):
TATTTAAAATTTAAATTTTTATTATATTTTAAAATCA
Found at i:3034880 original size:37 final size:37
Alignment explanation
Indices: 3034728--3034880 Score: 234
Period size: 37 Copynumber: 4.1 Consensus size: 37
3034718 AATAGGACTG
*
3034728 AGATCGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
1 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
*
3034765 AGATAGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
1 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
* * *
3034802 AAATGGATTTGCTTCATTACTCTTCGGTGAAGGCTTA
1 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
* * *
3034839 AGATTGATTTGCTTCACTACTATTTGGTGAAGGATTA
1 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
3034876 AGATT
1 AGATT
3034881 AGGGGTGTAA
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (37 bp):
AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
Found at i:3035482 original size:37 final size:37
Alignment explanation
Indices: 3035422--3035699 Score: 260
Period size: 37 Copynumber: 7.4 Consensus size: 37
3035412 ATCGTGCTTG
* *
3035422 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCTGT
1 GAAGGCTTA-AGATTGATTTGCTTCACTACTCTTCTGT
*
3035460 GAAGGCTTAAGATTGATTTGCTTCACTACTCTTCGGT
1 GAAGGCTTAAGATTGATTTGCTTCACTACTCTTCTGT
*
3035497 GAAGGCTTAAGATTAATTTGCTTCACTACTCTT-TGGT
1 GAAGGCTTAAGATTGATTTGCTTCACTACTCTTCT-GT
* *** **** * *
3035534 GAAGGCTTAAGATAG-CCCGGAGGACTTAATCGTCATGCT
1 GAAGGCTTAAGATTGATTTGCTTCAC-TACTCTTC-TG-T
* *
3035573 CGAAAGGCTTACTGATGGATTTGCTTCACTACTCTT-TGGT
1 -G-AAGGCTTA-AGATTGATTTGCTTCACTACTCTTCT-GT
*
3035613 GAAGGCTTAAGA-TGAATTTGCTTCACTACTCTTCGGT
1 GAAGGCTTAAGATTG-ATTTGCTTCACTACTCTTCTGT
*
3035650 GAAGGCTTTAGATTGATTTGCTTCACTACTCTT-TGGT
1 GAAGGCTTAAGATTGATTTGCTTCACTACTCTTCT-GT
3035687 GAAGGCTTAAGAT
1 GAAGGCTTAAGAT
3035700 GGCCCTGAGG
Statistics
Matches: 193, Mismatches: 33, Indels: 29
0.76 0.13 0.11
Matches are distributed among these distances:
36 4 0.02
37 142 0.74
38 20 0.10
39 3 0.02
40 3 0.02
41 9 0.05
42 9 0.05
43 3 0.02
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (37 bp):
GAAGGCTTAAGATTGATTTGCTTCACTACTCTTCTGT
Found at i:3035520 original size:74 final size:74
Alignment explanation
Indices: 3035422--3035699 Score: 301
Period size: 74 Copynumber: 3.7 Consensus size: 74
3035412 ATCGTGCTTG
* *
3035422 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCT-GTGAAGGCTTAAGATTGATTTGCTTCAC
1 GAAGGCTTA-AGATTGATTTGCTTCACTACTCTT-TGGTGAAGGCTTAAGATTGATTTGCTTCAC
3035486 TACTCTTCGGT
64 TACTCTTCGGT
* * *** ****
3035497 GAAGGCTTAAGATTAATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATAG-CCCGGAGGACTT
1 GAAGGCTTAAGATTGATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATTGATTTGCTTCAC-T
* * *
3035561 AATCGTCATGCT
65 ACTCTTC--GGT
* *
3035573 CGAAAGGCTTACTGATGGATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGA-TGAATTTGCTTC
1 -G-AAGGCTTA-AGATTGATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATTG-ATTTGCTTC
3035637 ACTACTCTTCGGT
62 ACTACTCTTCGGT
*
3035650 GAAGGCTTTAGATTGATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGAT
1 GAAGGCTTAAGATTGATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGAT
3035700 GGCCCTGAGG
Statistics
Matches: 162, Mismatches: 31, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
73 4 0.02
74 81 0.50
75 16 0.10
76 3 0.02
77 3 0.02
78 9 0.06
79 43 0.27
80 3 0.02
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (74 bp):
GAAGGCTTAAGATTGATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATTGATTTGCTTCACTA
CTCTTCGGT
Found at i:3035669 original size:153 final size:153
Alignment explanation
Indices: 3035386--3035742 Score: 594
Period size: 153 Copynumber: 2.3 Consensus size: 153
3035376 TACAGCCCTA
* * *
3035386 CTTAAGATGGCCCGGAGGACTTAATCATCGTGCTTGGAAGGCTTACTGATGGATTTGCTTCACTA
1 CTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGAAAGGCTTACTGATGGATTTGCTTCACTA
3035451 CTCTTCTGTGAAGGCTTAAGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTAATTT
66 CTCTTCTGTGAAGGCTTAAGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTAATTT
3035516 GCTTCACTACTCTTTGGTGAAGG
131 GCTTCACTACTCTTTGGTGAAGG
* *
3035539 CTTAAGATAGCCCGGAGGACTTAATCGTCATGCTCGAAAGGCTTACTGATGGATTTGCTTCACTA
1 CTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGAAAGGCTTACTGATGGATTTGCTTCACTA
* *
3035604 CTCTT-TGGTGAAGGCTTAAGA-TGAATTTGCTTCACTACTCTTCGGTGAAGGCTTTAGATTGAT
66 CTCTTCT-GTGAAGGCTTAAGATTG-ATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTAAT
3035667 TTGCTTCACTACTCTTTGGTGAAGG
129 TTGCTTCACTACTCTTTGGTGAAGG
*
3035692 CTTAAGATGGCCCTGAGGACTTAATCATCATGCTC-AGAAGGCTTACTGATG
1 CTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGA-AAGGCTTACTGATG
3035743 ACCCGAAGGA
Statistics
Matches: 191, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
152 4 0.02
153 187 0.98
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (153 bp):
CTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGAAAGGCTTACTGATGGATTTGCTTCACTA
CTCTTCTGTGAAGGCTTAAGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTAATTT
GCTTCACTACTCTTTGGTGAAGG
Found at i:3035767 original size:42 final size:42
Alignment explanation
Indices: 3035707--3035798 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
3035697 GATGGCCCTG
* *
3035707 AGGACTTAATCATCATGCTC-AGAAGGCTTACTGATGACCCGA
1 AGGACTTAAGCATCATGCTCGA-AAGACTTACTGATGACCCGA
* * *
3035749 AGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGA
1 AGGACTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGA
3035791 AGGACTTA
1 AGGACTTA
3035799 TAAATCTTGG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (42 bp):
AGGACTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGA
Found at i:3038437 original size:2 final size:2
Alignment explanation
Indices: 3038430--3038462 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3038420 ACCTCAAGGG
3038430 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 A
3038463 CAAAAGGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3053637 original size:20 final size:21
Alignment explanation
Indices: 3053605--3053657 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
3053595 AAATAATCAT
*
3053605 TAACATT-ATTATTTTACTAA
1 TAACATTGATTATTTGACTAA
*
3053625 TAA-ATTGATTATTTGACTAT
1 TAACATTGATTATTTGACTAA
*
3053645 TAACATTTATTAT
1 TAACATTGATTAT
3053658 CCCACTCCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 3 0.11
20 17 0.61
21 8 0.29
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.51
Consensus pattern (21 bp):
TAACATTGATTATTTGACTAA
Found at i:3054218 original size:108 final size:108
Alignment explanation
Indices: 3053999--3054285 Score: 303
Period size: 108 Copynumber: 2.6 Consensus size: 108
3053989 ATTGGGCGCA
* * ** * *
3053999 ACCTAATATATTAATATTTATTTAA-AACAAAATAAAAAATTAACTTATTTTGTTATCGTGAGAT
1 ACCTAATATGTTAATA-ATA-TTAATAACAAAATAACTACTTAACTTATTTTGTTATCGTCAGAT
* * * *
3054063 TTCGAAGGTCTCATCAGTTTAAATTTTTGTAACATTTTAGGAGCT
64 TTCTAAGCTCTCATCAGCTTAAATCTTTGTAACATTTTAGGAGCT
*
3054108 ACCTAATATGTTGATAATATTAATAACAAAATAACTACTTAA-TATATTTTGTTATCGTCAGATT
1 ACCTAATATGTTAATAATATTAATAACAAAATAACTACTTAACT-TATTTTGTTATCGTCAGATT
* **
3054172 TCTAATGCTCT-ATCAGCTTAAA-CTTTGATAATATTTTAGGCTCT
65 TCTAA-GCTCTCATCAGCTTAAATCTTTG-TAACATTTTAGGAGCT
* * * * * ** *
3054216 ACCTAATTTGTTAATAATATTGATAACAAATTAAGTAGTTAACTTATTTTGTTATTATCGGATTT
1 ACCTAATATGTTAATAATATTAATAACAAAATAACTACTTAACTTATTTTGTTATCGTCAGATTT
3054281 CTAAG
66 CTAAG
3054286 GTTCCATCAG
Statistics
Matches: 150, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
107 10 0.07
108 121 0.81
109 19 0.13
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.42
Consensus pattern (108 bp):
ACCTAATATGTTAATAATATTAATAACAAAATAACTACTTAACTTATTTTGTTATCGTCAGATTT
CTAAGCTCTCATCAGCTTAAATCTTTGTAACATTTTAGGAGCT
Found at i:3054467 original size:225 final size:225
Alignment explanation
Indices: 3054157--3054733 Score: 703
Period size: 225 Copynumber: 2.6 Consensus size: 225
3054147 TAATATATTT
** * * * * * *
3054157 TGTTATCGTCAGATTTCTAATGCTCTATCAGCTTAAACTTTGATAATATTTTAGGCTCTACCTAA
1 TGTTATCACCAGATTTCTAAGGCTCAATCAACTTAAACTTTGGTAACATTTTAGGCGCTACCTAA
* * * *
3054222 TTTGTTAATAATATTGATAACAAATTAAGTAGTTAACTTATTTTGTTATTATCGGATTTCTAAGG
66 TATGTTAATAATATTGATAACAAATCAAGTAATTAACTTATTTTGTTATTATCGGATTTCTAAGA
** * *
3054287 TTCCATCAGTTTTAAAAATGTGCTACATATTACATTAAATAAACGCTACTTGTTATATTATTATG
131 CCCCATCAGCTTT-AAAATGCGCTACATATTACATTAAATAAACGCTACTTGTTATATTATTATG
* * * *
3054352 ATTGATAAGGTTTTCAGTAATTAACCTATTT
195 ATTGAGAAGGTTTTCAATAATTAACCGATTA
* * *
3054383 TGTTATCACCGGATTTCT-AGGCTCAAT-AATTTTAAACTTTGGTAACATTTTAGGCGCTACATA
1 TGTTATCACCAGATTTCTAAGGCTCAATCAA-CTTAAACTTTGGTAACATTTTAGGCGCTACCTA
* * ** *
3054446 ATATGTTGATAATATTGATAACAAATCAAGTAATTAA-TCTATTTTGTTATCATCAAATTTGTAA
65 ATATGTTAATAATATTGATAACAAATCAAGTAATTAACT-TATTTTGTTATTATCGGATTTCTAA
* * * * *
3054510 GACCCCATTAGCTTTAAAATGCGCTACATATTACATTAAATAAGCGTTATTTGTTATGTTATTAT
129 GACCCCATCAGCTTTAAAATGCGCTACATATTACATTAAATAAACGCTACTTGTTATATTATTAT
* ** *
3054575 GGTTGAGATTGTTTTCAATAATTAACCGGTTA
194 GATTGAGAAGGTTTTCAATAATTAACCGATTA
** * * *
3054607 TGTTATCGTCAGATTTCTAAGGCTCTATCAACTTAAATTTTTGTAACATTTTAGGCGCTACCTAA
1 TGTTATCACCAGATTTCTAAGGCTCAATCAACTTAAACTTTGGTAACATTTTAGGCGCTACCTAA
*
3054672 TATGTTAATAATATTGATAACAAATCAAGTAATTGACTTATTTTGTTA-TAGTCGGATTTCTA
66 TATGTTAATAATATTGATAACAAATCAAGTAATTAACTTATTTTGTTATTA-TCGGATTTCTA
3054734 TGGCCCGTCA
Statistics
Matches: 294, Mismatches: 51, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
224 87 0.30
225 189 0.64
226 18 0.06
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (225 bp):
TGTTATCACCAGATTTCTAAGGCTCAATCAACTTAAACTTTGGTAACATTTTAGGCGCTACCTAA
TATGTTAATAATATTGATAACAAATCAAGTAATTAACTTATTTTGTTATTATCGGATTTCTAAGA
CCCCATCAGCTTTAAAATGCGCTACATATTACATTAAATAAACGCTACTTGTTATATTATTATGA
TTGAGAAGGTTTTCAATAATTAACCGATTA
Found at i:3055324 original size:417 final size:419
Alignment explanation
Indices: 3054534--3055368 Score: 1257
Period size: 417 Copynumber: 2.0 Consensus size: 419
3054524 TAAAATGCGC
* * *
3054534 TACATATTACATTAAATAAGCGTTATTTGTTATGTTATTATGGTTGAGATTGTTTTCAATAATTA
1 TACATACTACATTAAATAAGCGTTACTTGTTATGTTATTATGGTTAAGATTGTTTTCAATAATTA
* * *
3054599 ACCGGTTATGTTATCGTCAGATTTCTAAGGCTCTATCAACTTAAATTTTTGTAACATTTTAGGCG
66 ACCGGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAACTTAAACTTTGGTAACATTTTAGGCG
* *
3054664 CTACCTAATATGTTAATAATATTGATAACAAATCAAGTAATTGACTTATTTTGTTATAGTCGGAT
131 CTACC-------TTAATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATAGTCGGAT
* * * *
3054729 TTCTATGGCCCGTCAACTTTAAAAAGACACTACCTATTATGTTATTATGGTTAATAACGTTTCCA
189 TTCTAAGGCCCATCAACTTTAAAAAGACAATACCTATTATGTTATTATGATTAATAACGTTTCCA
*
3054794 ATAATTAACTGATTATGTTAAAGTCAATATTTTTTGACGAATTATACATATGACGATAATATTAT
254 ATAATTAACTAATTATGTTAAAGTCAATATTTTTTGACGAATTATACATATGACGATAATATTAT
***
3054859 TGGTTATTATCATTATTATTACCATCACCAATAATATTTTCAGTGAAAATATATAACATCTCAGG
319 CAATTATTATCATTATTATTACCATCACCAATAATATTTTCAGTGAAAATATATAACATCTCAGG
3054924 TAAAACTTTTAATCGATTATCTATTTAAAAAGACGT
384 TAAAACTTTTAATCGATTATCTATTTAAAAAGACGT
3054960 TACATACTACATTAAATAAGCGTTACTTGTTATGTTATTATGGTTAAGATTGTTTTCAATAATTA
1 TACATACTACATTAAATAAGCGTTACTTGTTATGTTATTATGGTTAAGATTGTTTTCAATAATTA
* * *
3055025 ATCGGTTATGTTGTCGTC-GAATTTCTAAGGTTCCATCAACTTAAACTTTGGTAACATTTTAGGC
66 ACCGGTTATGTTATCGTCAG-ATTTCTAAGGCTCCATCAACTTAAACTTTGGTAACATTTTAGGC
*
3055089 GCTACC-TAAT-ATATTGATAATAAATCAAGTAATTAACCTATTTTGTTATAGTCGGATTTCTAA
130 GCTACCTTAATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATAGTCGGATTTCTAA
** * * * * *
3055152 GGTTCATCAACTTTAAAAAGACAATACCTGTTATGTTATTTTGATTGATAATGTTTCCAGTAATT
195 GGCCCATCAACTTTAAAAAGACAATACCTATTATGTTATTATGATTAATAACGTTTCCAATAATT
*
3055217 AACTAATTATGTTAAAGTCAATATTTTTTGACGCACTT-TACATATGACGATAATATT-TCCAAT
260 AACTAATTATGTTAAAGTCAATATTTTTTGACG-AATTATACATATGACGATAATATTAT-CAAT
* * * *
3055280 TATTATCATTATTATTATCATCATCAATAATATTTTCAGTGAAAATATATAATATTTCAGGTAAA
323 TATTATCATTATTATTACCATCACCAATAATATTTTCAGTGAAAATATATAACATCTCAGGTAAA
3055345 ACTTTTAATCGATTATCTATTTAA
388 ACTTTTAATCGATTATCTATTTAA
3055369 CAAATCATAT
Statistics
Matches: 374, Mismatches: 32, Indels: 15
0.89 0.08 0.04
Matches are distributed among these distances:
416 1 0.00
417 241 0.64
418 7 0.02
425 1 0.00
426 124 0.33
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (419 bp):
TACATACTACATTAAATAAGCGTTACTTGTTATGTTATTATGGTTAAGATTGTTTTCAATAATTA
ACCGGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAACTTAAACTTTGGTAACATTTTAGGCG
CTACCTTAATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATAGTCGGATTTCTAAG
GCCCATCAACTTTAAAAAGACAATACCTATTATGTTATTATGATTAATAACGTTTCCAATAATTA
ACTAATTATGTTAAAGTCAATATTTTTTGACGAATTATACATATGACGATAATATTATCAATTAT
TATCATTATTATTACCATCACCAATAATATTTTCAGTGAAAATATATAACATCTCAGGTAAAACT
TTTAATCGATTATCTATTTAAAAAGACGT
Found at i:3055942 original size:34 final size:32
Alignment explanation
Indices: 3055887--3055990 Score: 100
Period size: 33 Copynumber: 3.1 Consensus size: 32
3055877 GTGGTAAAAA
* * * *
3055887 ATTTATTTTTATGTTAGTATTTTTTTAAATAGTT
1 ATTT-TTTTTATATTAATATTTATGTAAATA-TT
3055921 ATTATTTTTTATATTAATATTTATGTAAATATT
1 ATT-TTTTTTATATTAATATTTATGTAAATATT
* * * *
3055954 ATTTTTTATTAAAATAATATTTATATAATTATT
1 ATTTTTT-TTATATTAATATTTATGTAAATATT
3055987 ATTT
1 ATTT
3055991 ATTTAGAATT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
32 4 0.07
33 30 0.50
34 25 0.42
35 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (32 bp):
ATTTTTTTTATATTAATATTTATGTAAATATT
Found at i:3055976 original size:15 final size:18
Alignment explanation
Indices: 3055931--3055987 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
3055921 ATTATTTTTT
3055931 ATATTAATATTTATGTAA
1 ATATTAATATTTATGTAA
* *
3055949 ATATTATTTTTTAT-TAA
1 ATATTAATATTTATGTAA
*
3055966 A-A-TAATATTTATATAA
1 ATATTAATATTTATGTAA
*
3055982 TTATTA
1 ATATTA
3055988 TTTATTTAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 8 0.26
16 4 0.13
17 5 0.16
18 14 0.45
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATATTAATATTTATGTAA
Found at i:3056157 original size:17 final size:17
Alignment explanation
Indices: 3056135--3056188 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
3056125 AATGTTAATA
3056135 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
3056152 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
3056169 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
3056186 TTT
1 TTT
3056189 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:3057797 original size:21 final size:21
Alignment explanation
Indices: 3057770--3057836 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
3057760 TATGCCATCT
3057770 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
*
3057791 TCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
*
3057812 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCGAGC
3057833 CCGC
1 CCGC
3057837 CATGTTACAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCGAGC
Found at i:3057843 original size:21 final size:21
Alignment explanation
Indices: 3057770--3057855 Score: 111
Period size: 21 Copynumber: 4.1 Consensus size: 21
3057760 TATGCCATCT
*
3057770 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
* *
3057791 TCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
3057812 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
* *
3057833 CCGCCA-TGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
3057854 CC
1 CC
3057856 ATAGGGTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 57 0.97
22 2 0.03
ACGTcount: A:0.19, C:0.35, G:0.24, T:0.22
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:3058445 original size:33 final size:34
Alignment explanation
Indices: 3058386--3058482 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
3058376 AAATGTTTTT
*
3058386 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
3058420 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
3058453 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
3058483 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:3058489 original size:34 final size:33
Alignment explanation
Indices: 3058384--3058489 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
3058374 ATAAATGTTT
*
3058384 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
3058418 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
3058450 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
3058485 TTAAA
1 TTAAA
3058490 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:3059110 original size:128 final size:128
Alignment explanation
Indices: 3058882--3059638 Score: 1250
Period size: 128 Copynumber: 5.9 Consensus size: 128
3058872 TTACCTGATT
*
3058882 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *** *
3058947 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTTATGTCCCCT-GAGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
* *
3059010 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGTATTGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
3059075 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
3059138 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
3059203 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCACCTTCATGTGAATAGTGAAAAAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
* *
3059266 TACTAATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *** *
3059331 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTTATGTCCCCT-GAGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
3059394 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * * *
3059459 TGATGAAATAATGGAAGGTGCGCCCCCGGGAACGCGCCTTCATATGAATAGTGAAATAATATG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
3059522 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
3059587 TGACGAAATAATGGAAGGCGC-CCCCCGGGGAACGCGCCTTCATGTGAATAGT
66 TGACGAAATAATGGAAGGCGCGCCCCC-GGGAACGCGCCTTCATGTGAATAGT
3059639 ACTCCGATTA
Statistics
Matches: 585, Mismatches: 40, Indels: 8
0.92 0.06 0.01
Matches are distributed among these distances:
127 7 0.01
128 577 0.99
129 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:3059596 original size:384 final size:384
Alignment explanation
Indices: 3058882--3059638 Score: 1435
Period size: 384 Copynumber: 2.0 Consensus size: 384
3058872 TTACCTGATT
*
3058882 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
1 TACTAATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
3058947 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTTATGTCCCCTGAGAAATAATAGGTA
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTTATGTCCCCTGAGAAATAATAGGTA
* *
3059012 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGTATTGATAACATATTCTCTG
131 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
*
3059077 ATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACT
196 ATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATATGAATAGTGAAATAATAGGTACT
3059142 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
261 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
3059207 GAAATAATGGAAGGCGCGCCCCC-GGGAACGCACCTTCATGTGAATAGTGAAAAAATAGG
326 GAAATAATGGAAGGCGC-CCCCCGGGGAACGCACCTTCATGTGAATAGTGAAAAAATAGG
3059266 TACTAATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
1 TACTAATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
3059331 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTTATGTCCCCTGAGAAATAATAGGTA
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTTATGTCCCCTGAGAAATAATAGGTA
3059396 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
131 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
* *
3059461 ATGAAATAATGGAAGGTGCGCCCCCGGGAACGCGCCTTCATATGAATAGTGAAATAATATGTACT
196 ATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATATGAATAGTGAAATAATAGGTACT
3059526 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
261 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
*
3059591 GAAATAATGGAAGGCGCCCCCCGGGGAACGCGCCTTCATGTGAATAGT
326 GAAATAATGGAAGGCGCCCCCCGGGGAACGCACCTTCATGTGAATAGT
3059639 ACTCCGATTA
Statistics
Matches: 365, Mismatches: 7, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
383 5 0.01
384 360 0.99
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (384 bp):
TACTAATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTTATGTCCCCTGAGAAATAATAGGTA
CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
ATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATATGAATAGTGAAATAATAGGTACT
GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
GAAATAATGGAAGGCGCCCCCCGGGGAACGCACCTTCATGTGAATAGTGAAAAAATAGG
Found at i:3059722 original size:8 final size:8
Alignment explanation
Indices: 3059709--3059749 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
3059699 TCACAATCTT
3059709 TCAAATTC
1 TCAAATTC
3059717 TCAAATTC
1 TCAAATTC
*
3059725 TCAAACTC
1 TCAAATTC
3059733 T-AAATTC
1 TCAAATTC
3059740 TCAAATTC
1 TCAAATTC
3059748 TC
1 TC
3059750 TGAAAATGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (8 bp):
TCAAATTC
Found at i:3059739 original size:15 final size:16
Alignment explanation
Indices: 3059709--3059749 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
3059699 TCACAATCTT
*
3059709 TCAAATTCTCAAATTC
1 TCAAACTCTCAAATTC
3059725 TCAAACTCT-AAATTC
1 TCAAACTCTCAAATTC
*
3059740 TCAAATTCTC
1 TCAAACTCTC
3059750 TGAAAATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (16 bp):
TCAAACTCTCAAATTC
Found at i:3065556 original size:73 final size:73
Alignment explanation
Indices: 3065469--3065625 Score: 287
Period size: 73 Copynumber: 2.2 Consensus size: 73
3065459 TGTTATCATT
* *
3065469 TGATTGGAAGACTAAATTTATTTTAATTTATTTTTAATTTAATATTTTTATTTCTACCAATCAGA
1 TGATTGGAAGACTAAATTTATTTTAATATATTTTTAATTTAATATATTTATTTCTACCAATCAGA
3065534 GGGTGACA
66 GGGTGACA
3065542 TGATTGGAAGACTAAATTTATTTTAATATATTTTTAATTTAATATATTTATTTCTACCAATCAGA
1 TGATTGGAAGACTAAATTTATTTTAATATATTTTTAATTTAATATATTTATTTCTACCAATCAGA
3065607 GGGTGACA
66 GGGTGACA
*
3065615 TGGTTGGAAGA
1 TGATTGGAAGA
3065626 AAATAAAGCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 81 1.00
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.44
Consensus pattern (73 bp):
TGATTGGAAGACTAAATTTATTTTAATATATTTTTAATTTAATATATTTATTTCTACCAATCAGA
GGGTGACA
Found at i:3065582 original size:16 final size:16
Alignment explanation
Indices: 3065558--3065590 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3065548 GAAGACTAAA
*
3065558 TTTATTTTAATATATT
1 TTTAATTTAATATATT
3065574 TTTAATTTAATATATT
1 TTTAATTTAATATATT
3065590 T
1 T
3065591 ATTTCTACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTAATTTAATATATT
Found at i:3065932 original size:30 final size:31
Alignment explanation
Indices: 3065870--3065937 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
3065860 TATTTTAATG
* *
3065870 TAAAAATATATATTTTATATATATCACCACT
1 TAAAAATATATATTTTATAAATATCACAACT
**
3065901 TAAAAATATATATTTT-TAAATATCTTAACT
1 TAAAAATATATATTTTATAAATATCACAACT
3065931 TAAAAAT
1 TAAAAAT
3065938 TTTTAAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 17 0.52
31 16 0.48
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (31 bp):
TAAAAATATATATTTTATAAATATCACAACT
Found at i:3066230 original size:29 final size:29
Alignment explanation
Indices: 3066182--3066252 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
3066172 AAATTATTTA
3066182 TTTATTTTTATTTAACTTATTAAATAT-T
1 TTTATTTTTATTTAACTTATTAAATATAT
* *
3066210 TTTATTTTTGTCTTAATTTATTAAATATAT
1 TTTATTTTTAT-TTAACTTATTAAATATAT
*
3066240 TTTGTTTTTATTT
1 TTTATTTTTATTT
3066253 TAATGTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 10 0.27
29 17 0.46
30 10 0.27
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (29 bp):
TTTATTTTTATTTAACTTATTAAATATAT
Found at i:3066396 original size:31 final size:32
Alignment explanation
Indices: 3066329--3066396 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 32
3066319 AATATATTTA
3066329 AATATTTTACTATTAATTTAATGTAAAAATAT
1 AATATTTTACTATTAATTTAATGTAAAAATAT
*
3066361 -ATATTTTACTATT-TTTTAAT-TAAAAATATT
1 AATATTTTACTATTAATTTAATGTAAAAATA-T
3066391 AATATT
1 AATATT
3066397 AAAAAATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
29 8 0.24
30 7 0.21
31 18 0.55
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (32 bp):
AATATTTTACTATTAATTTAATGTAAAAATAT
Found at i:3066553 original size:31 final size:31
Alignment explanation
Indices: 3066515--3066616 Score: 134
Period size: 31 Copynumber: 3.3 Consensus size: 31
3066505 AAGATATTTA
* *
3066515 AAAATATATATTTTTA-AGTGATGATAAAGAT
1 AAAATATATATTTTTACAGTGA-AATAAAAAT
* *
3066546 AAAATATATATTTTTACATTTAAATAAAAAT
1 AAAATATATATTTTTACAGTGAAATAAAAAT
* *
3066577 AAAATATATATTTTTACATTAAAATAAAAAT
1 AAAATATATATTTTTACAGTGAAATAAAAAT
3066608 AAAATATAT
1 AAAATATAT
3066617 TTAATAAATT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
31 62 0.95
32 3 0.05
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (31 bp):
AAAATATATATTTTTACAGTGAAATAAAAAT
Found at i:3066636 original size:31 final size:31
Alignment explanation
Indices: 3066538--3066637 Score: 103
Period size: 31 Copynumber: 3.2 Consensus size: 31
3066528 TTAAGTGATG
* ** * *
3066538 ATAAAGATAAAATATATATTTTTACATTTAA
1 ATAAAAATAAAATATATATTAATAAATTAAA
** *
3066569 ATAAAAATAAAATATATATTTTTACATTAAA
1 ATAAAAATAAAATATATATTAATAAATTAAA
3066600 ATAAAAATAAAATATAT-TTAATAAATTAAGA
1 ATAAAAATAAAATATATATTAATAAATTAA-A
*
3066631 TTAAAAA
1 ATAAAAA
3066638 AAAGCTAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
30 9 0.15
31 53 0.85
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (31 bp):
ATAAAAATAAAATATATATTAATAAATTAAA
Found at i:3066640 original size:29 final size:28
Alignment explanation
Indices: 3066546--3066640 Score: 73
Period size: 30 Copynumber: 3.2 Consensus size: 28
3066536 TGATAAAGAT
* * * *
3066546 AAAATATATATTTTTACATTTAAATAAAA
1 AAAAAATATATTTATAAATTAAAAT-AAA
* *
3066575 ATAAAATATATATTTTTACATTAAAATAAA
1 A-AAAA-ATATATTTATAAATTAAAATAAA
* *
3066605 AATAAAATATATTTAATAAATTAAGATTAA
1 AA-AAAATATATTT-ATAAATTAAAATAAA
3066635 AAAAAA
1 AAAAAA
3066641 GCTAAAAAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
29 14 0.25
30 23 0.41
31 19 0.34
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (28 bp):
AAAAAATATATTTATAAATTAAAATAAA
Found at i:3068679 original size:303 final size:304
Alignment explanation
Indices: 3068111--3068680 Score: 887
Period size: 303 Copynumber: 1.9 Consensus size: 304
3068101 TAATTTTAGG
* * * * **
3068111 GTATAGTAATGGTCACTGAATTTTTTTAAAGTTTTTATTTAGGTCTCTCAACTTTTAAAACTTGT
1 GTATAGAAATGGTCACTGAAATTTTTTAAAGATTTTATTTAGGTCCCTCAACTTTTAAAACTTAC
*
3068176 AATACAATCCTTAAATATTTAGTATGTTTTCAATATGGTCCCCCAACATTTAGTTCGTTTGCAAT
66 AATACAATCCCTAAATATTTAGTATGTTTTCAATATGGTCCCCCAACATTTAGTTCGTTTGCAAT
* *
3068241 ATGGTCCCCGATGTAACTGTTGGGGATCATATTACAAACAGATTAAATGTTGGGTGACTGCATTG
131 ATGGTCCCCGATGTAACTGTTGGGGACCATATTACAAACAGACTAAATGTTGGGTGACTGCATTG
* * *
3068306 CAAGTTTTAAAAGTTGGGGGACCTAAATGAAAGCTTTAGAAAAGTTTAGTGACTATTACTATAAT
196 CAAGTTTTAAAAGTTGAGGGACCTAAATGAAAGCTTTAGAAAAGTTCAGTGACCATTACTATAAT
3068371 TTACCCTAAAATTAATAATAAAAAACAATAAATAATAGGGTAAA
261 TTACCCTAAAATTAATAATAAAAAACAATAAATAATAGGGTAAA
3068415 GTATAGAAATGGTCACT-AAATTTTTTAAAGATTTTATTTAGGTCCC-CTAACTTTTAAAACTTA
1 GTATAGAAATGGTCACTGAAATTTTTTAAAGATTTTATTTAGGTCCCTC-AACTTTTAAAACTTA
* * *
3068478 CAATACAATCCCCT-AATATTTAGTCTTTTTTTAATATGGTCCCCCAACATTTAGTTCGTTTGCA
65 CAATACAAT-CCCTAAATATTTAGTATGTTTTCAATATGGTCCCCCAACATTTAGTTCGTTTGCA
* * * * *
3068542 ATATGGT-TCTGATGTAACTGTTAGGGGACCATATTGCAAACGGACTAAATGTTGGGTGACTGTA
129 ATATGGTCCCCGATGTAACTGTT-GGGGACCATATTACAAACAGACTAAATGTTGGGTGACTGCA
*
3068606 TTGCAAGTTTTAAAAGTTGAGGGACCTAAATGGAAGCTTTAGAAAAGTTCAGTGACCATTACTAT
193 TTGCAAGTTTTAAAAGTTGAGGGACCTAAATGAAAGCTTTAGAAAAGTTCAGTGACCATTACTAT
*
3068671 ACTTTACCCT
258 AATTTACCCT
3068681 TAATTTTATG
Statistics
Matches: 241, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
302 14 0.06
303 208 0.86
304 19 0.08
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (304 bp):
GTATAGAAATGGTCACTGAAATTTTTTAAAGATTTTATTTAGGTCCCTCAACTTTTAAAACTTAC
AATACAATCCCTAAATATTTAGTATGTTTTCAATATGGTCCCCCAACATTTAGTTCGTTTGCAAT
ATGGTCCCCGATGTAACTGTTGGGGACCATATTACAAACAGACTAAATGTTGGGTGACTGCATTG
CAAGTTTTAAAAGTTGAGGGACCTAAATGAAAGCTTTAGAAAAGTTCAGTGACCATTACTATAAT
TTACCCTAAAATTAATAATAAAAAACAATAAATAATAGGGTAAA
Found at i:3078435 original size:35 final size:38
Alignment explanation
Indices: 3078384--3078458 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 38
3078374 AAATGTCATC
3078384 TTTTAAGTGTGATGATATAGA-TAGGATGGATTATAAA
1 TTTTAAGTGTGATGATATAGACTAGGATGGATTATAAA
* *
3078421 TTTTAAG-G-GATGATATAGACTAGGGTTGATTATAAA
1 TTTTAAGTGTGATGATATAGACTAGGATGGATTATAAA
3078457 TT
1 TT
3078459 ATAACAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
35 11 0.31
36 17 0.49
37 7 0.20
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (38 bp):
TTTTAAGTGTGATGATATAGACTAGGATGGATTATAAA
Found at i:3081448 original size:20 final size:20
Alignment explanation
Indices: 3081412--3081454 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3081402 TTTTCTCTTG
* *
3081412 AAAGCAAAATTAGATTTTCA
1 AAAGCAAAATGAAATTTTCA
*
3081432 AAAGCAAAATGAAATTTTGA
1 AAAGCAAAATGAAATTTTCA
3081452 AAA
1 AAA
3081455 ATGATTTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.26
Consensus pattern (20 bp):
AAAGCAAAATGAAATTTTCA
Found at i:3084530 original size:2 final size:2
Alignment explanation
Indices: 3084523--3084558 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3084513 TTTAAAAACA
3084523 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3084559 CATTAAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3087654 original size:41 final size:41
Alignment explanation
Indices: 3087597--3087699 Score: 170
Period size: 41 Copynumber: 2.5 Consensus size: 41
3087587 GTCACGGACG
*
3087597 AACATCGACCGTTTCTTCTTTGTCCACTTTCATGTTTGGGT
1 AACATCGACCGTTTCTTCTTTGTCCACTTTCACGTTTGGGT
3087638 AACATCGACCGTTTCTTCTTTGTCCACTTTCACGTTTGGGT
1 AACATCGACCGTTTCTTCTTTGTCCACTTTCACGTTTGGGT
* * *
3087679 AAAATCGATCGTCTCTTCTTT
1 AACATCGACCGTTTCTTCTTT
3087700 TTTATTTTTA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.43
Consensus pattern (41 bp):
AACATCGACCGTTTCTTCTTTGTCCACTTTCACGTTTGGGT
Found at i:3088728 original size:40 final size:40
Alignment explanation
Indices: 3088673--3088752 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
3088663 GCAGTTAGGC
*
3088673 CTATAGAAATAGGAAGATTACAACCGCAATATACAATCTT
1 CTATAGAAATAGGAAGATTACAACCACAATATACAATCTT
*
3088713 CTATAGAAATGGGAAGATTACAACCACAATATACAATCTT
1 CTATAGAAATAGGAAGATTACAACCACAATATACAATCTT
3088753 TAGAGCCCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.25
Consensus pattern (40 bp):
CTATAGAAATAGGAAGATTACAACCACAATATACAATCTT
Found at i:3101221 original size:20 final size:20
Alignment explanation
Indices: 3101185--3101222 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3101175 ATCTTATTCC
**
3101185 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
3101205 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
3101223 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:3102976 original size:22 final size:22
Alignment explanation
Indices: 3102948--3102996 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
3102938 ACATATTCTG
*
3102948 AACTACAGAACCTAAATAAAAA-
1 AACTACACAACCT-AATAAAAAT
*
3102970 AACTACACAATCTAATAAAAAT
1 AACTACACAACCTAATAAAAAT
3102992 AACTA
1 AACTA
3102997 AAATATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.61, C:0.18, G:0.02, T:0.18
Consensus pattern (22 bp):
AACTACACAACCTAATAAAAAT
Found at i:3103007 original size:21 final size:22
Alignment explanation
Indices: 3102960--3103008 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
3102950 CTACAGAACC
*
3102960 TAAATAAAAAAACTACACAATC
1 TAAATAAAAAAACTACACAATA
3102982 T-AATAAAAATAACTA-A-AATA
1 TAAATAAAAA-AACTACACAATA
3103002 TAAATAA
1 TAAATAA
3103009 TTCACACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 14 0.58
22 6 0.25
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAATAAAAAAACTACACAATA
Found at i:3103797 original size:127 final size:128
Alignment explanation
Indices: 3103570--3103803 Score: 373
Period size: 127 Copynumber: 1.8 Consensus size: 128
3103560 CTCCCGTAGT
**
3103570 AGCTCAAATAATATTTAGGGCGGGTTTTAATCTAAAATAATATTTCGTCTAACCTAAAAAATTAT
1 AGCTCAAATAATATTTAGGGCGAATTTTAATCTAAAATAATATTTCGTCTAACCTAAAAAATTAT
3103635 ATAAATAGTAATAATTTCAATTACAACATGAAAATGTTACATGCAACGACTTCTAACGGGAGC
66 ATAAATAGTAATAATTTCAATTACAACATGAAAATGTTACATGCAACGACTTCTAACGGGAGC
* * *
3103698 AGCTCAAATAATATTTAGGGTGAATTTTAA-CT-TAATAATATTTCGTCTATCCTAAAAAAGTTA
1 AGCTCAAATAATATTTAGGGCGAATTTTAATCTAAAATAATATTTCGTCTAACCTAAAAAA-TTA
* * *
3103761 TATAATTAGTAATAATTTTAATTACAACTTGAAAATGTTACAT
65 TATAAATAGTAATAATTTCAATTACAACATGAAAATGTTACAT
3103804 TACAACTATT
Statistics
Matches: 97, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
126 25 0.26
127 45 0.46
128 27 0.28
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (128 bp):
AGCTCAAATAATATTTAGGGCGAATTTTAATCTAAAATAATATTTCGTCTAACCTAAAAAATTAT
ATAAATAGTAATAATTTCAATTACAACATGAAAATGTTACATGCAACGACTTCTAACGGGAGC
Found at i:3104154 original size:2 final size:2
Alignment explanation
Indices: 3104147--3104174 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3104137 CCGCCCCGAT
3104147 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
3104175 AATAATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3106987 original size:85 final size:85
Alignment explanation
Indices: 3106825--3106987 Score: 193
Period size: 85 Copynumber: 1.9 Consensus size: 85
3106815 ATATTCACAG
* * * * * *
3106825 GAAAAAAATAATGAGTTAATATCAATTATCTATTTTCACTCATTTAATAATCCTAAATTTGTGTA
1 GAAAAAAACAATAAGTTAATATCAACTATCTATTTTCACTCATCTAACAATCCTAAATTTGTATA
* *
3106890 GAAATGAGAAAATGTTAATT
66 GAAATAAAAAAATGTTAATT
* ** *
3106910 GAAAAAAACAATAAGTTAATCTCAACCT-TCTATTTTCACTCATCTAACGGTCTTAAATTTGTAT
1 GAAAAAAACAATAAGTTAATATCAA-CTATCTATTTTCACTCATCTAACAATCCTAAATTTGTAT
*
3106974 AGAACTAAAAAAAT
65 AGAAATAAAAAAAT
3106988 TGCACAATTA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
85 63 0.98
86 1 0.02
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (85 bp):
GAAAAAAACAATAAGTTAATATCAACTATCTATTTTCACTCATCTAACAATCCTAAATTTGTATA
GAAATAAAAAAATGTTAATT
Found at i:3107799 original size:134 final size:134
Alignment explanation
Indices: 3107558--3107850 Score: 398
Period size: 134 Copynumber: 2.2 Consensus size: 134
3107548 TACAAGTATC
* ** *
3107558 CGTCTAACATGAATACTTAAATCATGCTTGAACATTGATTATCTTAAGCGTTGGAATCTAATAAA
1 CGTCTAACATGAATACTTAAATCATGCTAGAACACAGATTATCTTAAGCGTTGGAATCCAATAAA
* ** *
3107623 AGTTCGTTTCACCAAAAATTATACTCGAAGGTTTCTACCCTACCCATGTTTGAATATAGTTGGAC
66 AGTACGTTTCACCAAAAACGACACTCGAAGGTTTCTACCCTACCCATGTTTGAATATAGTTGGAC
3107688 AGGGG
131 A-GGG
* * * *
3107693 CGTCTAACATGAATACTTAAGTCATGCTAGAATACAGTTTATC-TAAGCGATT-GAATCCAATAC
1 CGTCTAACATGAATACTTAAATCATGCTAGAACACAGATTATCTTAAGCG-TTGGAATCCAATAA
* * *
3107756 AAGTACGTTTCATCAAAAACGACATTTGAAGGTTTCTACCCTACCCATGTTTGAATATAGTTGGA
65 AAGTACGTTTCACCAAAAACGACACTCGAAGGTTTCTACCCTACCCATGTTTGAATATAGTTGGA
3107821 CAGGG
130 CAGGG
3107826 -G--TAACATGAATACTTAAATCATGCT
1 CGTCTAACATGAATACTTAAATCATGCT
3107851 CCAGAATAAA
Statistics
Matches: 141, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
130 23 0.16
132 1 0.01
133 3 0.02
134 75 0.53
135 39 0.28
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (134 bp):
CGTCTAACATGAATACTTAAATCATGCTAGAACACAGATTATCTTAAGCGTTGGAATCCAATAAA
AGTACGTTTCACCAAAAACGACACTCGAAGGTTTCTACCCTACCCATGTTTGAATATAGTTGGAC
AGGG
Found at i:3109357 original size:34 final size:31
Alignment explanation
Indices: 3109295--3109401 Score: 98
Period size: 34 Copynumber: 3.5 Consensus size: 31
3109285 CTTTTTCATT
* *
3109295 TAAGTATCTAAA--ATA-TTTTTAATCAAAA
1 TAAGTATTTAAAGTATATTTTTTTATCAAAA
*
3109323 TAAGTATTTAAAGTTATATTTTTTTTGTCAAAAA
1 TAAGTATTTAAAG-TATA-TTTTTTTATC-AAAA
*
3109357 TATGTATTTAAA--ATATTTTTTTATCAAAA
1 TAAGTATTTAAAGTATATTTTTTTATCAAAA
* *
3109386 TAACTACTTAAAGTAT
1 TAAGTATTTAAAGTAT
3109402 TTAATATTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
28 11 0.17
29 13 0.21
30 9 0.14
31 8 0.13
33 7 0.11
34 15 0.24
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (31 bp):
TAAGTATTTAAAGTATATTTTTTTATCAAAA
Found at i:3109396 original size:29 final size:29
Alignment explanation
Indices: 3109295--3109403 Score: 103
Period size: 29 Copynumber: 3.6 Consensus size: 29
3109285 CTTTTTCATT
* *
3109295 TAAGTATCTAAAATA-TTTTTAATCAAAA
1 TAAGTATTTAAAATATTTTTTTATCAAAA
*
3109323 TAAGTATTTAAAGTTATATTTTTTTTGTCAAAAA
1 TAAGTATTTAAA---ATA-TTTTTTTATC-AAAA
*
3109357 TATGTATTTAAAATATTTTTTTATCAAAA
1 TAAGTATTTAAAATATTTTTTTATCAAAA
* * *
3109386 TAACTACTTAAAGTATTT
1 TAAGTATTTAAAATATTT
3109404 AATATTTTTC
Statistics
Matches: 66, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
28 11 0.17
29 18 0.27
30 9 0.14
31 6 0.09
33 7 0.11
34 15 0.23
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (29 bp):
TAAGTATTTAAAATATTTTTTTATCAAAA
Found at i:3109702 original size:10 final size:10
Alignment explanation
Indices: 3109687--3109720 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
3109677 CTACCAGACG
3109687 GGTATAGGTA
1 GGTATAGGTA
**
3109697 GGTATAGGCG
1 GGTATAGGTA
3109707 GGTATAGGTA
1 GGTATAGGTA
3109717 GGTA
1 GGTA
3109721 GTGGACGTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.26, C:0.03, G:0.44, T:0.26
Consensus pattern (10 bp):
GGTATAGGTA
Found at i:3114179 original size:21 final size:23
Alignment explanation
Indices: 3114153--3114203 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
3114143 TTTATTGATA
*
3114153 ATTTTAAT-A-ATATAATATTAT
1 ATTTTAATGATATATAATAATAT
*
3114174 ATTTTATTGATATATAATAATAT
1 ATTTTAATGATATATAATAATAT
3114197 ACTTTTA
1 A-TTTTA
3114204 TTTCAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.28
22 1 0.04
23 12 0.48
24 5 0.20
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
ATTTTAATGATATATAATAATAT
Found at i:3114426 original size:27 final size:29
Alignment explanation
Indices: 3114396--3114457 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
3114386 ATAATAATTT
*
3114396 TATTTTT-TTTA-AATATAATA-ATCATAA
1 TATTTTTATTTATAAAATAATAGAT-ATAA
*
3114423 TATTTTTATTTATAAAATTATAGATATAA
1 TATTTTTATTTATAAAATAATAGATATAA
3114452 TATTTT
1 TATTTT
3114458 AATAATGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 7 0.23
28 4 0.13
29 17 0.57
30 2 0.07
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (29 bp):
TATTTTTATTTATAAAATAATAGATATAA
Found at i:3114436 original size:24 final size:24
Alignment explanation
Indices: 3114382--3114437 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
3114372 ATTAATATAA
** * *
3114382 ATTTATAATAATTTTATTTTTTTT
1 ATTTATAATAATCATAATATTTTT
**
3114406 AAATATAATAATCATAATATTTTT
1 ATTTATAATAATCATAATATTTTT
3114430 ATTTATAA
1 ATTTATAA
3114438 AATTATAGAT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTATAATAATCATAATATTTTT
Found at i:3116337 original size:17 final size:17
Alignment explanation
Indices: 3116323--3116365 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
3116313 AGGGGGTACA
3116323 GATACCCCTGGGGTATC
1 GATACCCCTGGGGTATC
*
3116340 GATACCTCTGGGGTATC
1 GATACCCCTGGGGTATC
3116357 GATACCCCT
1 GATACCCCT
3116366 TAAATGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.19, C:0.30, G:0.26, T:0.26
Consensus pattern (17 bp):
GATACCCCTGGGGTATC
Found at i:3116548 original size:23 final size:19
Alignment explanation
Indices: 3116502--3116543 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
3116492 CGGAATAATA
3116502 AAAGGATTATGATTGAATC
1 AAAGGATTATGATTGAATC
3116521 AAAGGATTATGATTGAATC
1 AAAGGATTATGATTGAATC
3116540 AAAG
1 AAAG
3116544 CAAGGCTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (19 bp):
AAAGGATTATGATTGAATC
Found at i:3117268 original size:22 final size:22
Alignment explanation
Indices: 3117240--3117300 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
3117230 GGGTTTACGC
*
3117240 GGTCCTTCGGGACATATACAGT-
1 GGTCCTTCGGGACAAATACA-TA
3117262 GGTCCTTCGGGACAAATACATA
1 GGTCCTTCGGGACAAATACATA
3117284 GGTCCTTCGGGACAAAT
1 GGTCCTTCGGGACAAAT
3117301 TTCATATGCC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
21 1 0.03
22 36 0.97
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (22 bp):
GGTCCTTCGGGACAAATACATA
Found at i:3125195 original size:12 final size:12
Alignment explanation
Indices: 3125176--3125248 Score: 53
Period size: 12 Copynumber: 6.2 Consensus size: 12
3125166 TTATTCTACC
3125176 AATTTATATATA
1 AATTTATATATA
* *
3125188 ATTTTATA-AAA
1 AATTTATATATA
*
3125199 AAATTATATATA
1 AATTTATATATA
3125211 AATTTAT-TA-A
1 AATTTATATATA
* * *
3125221 AAGTATATACATG
1 AA-TTTATATATA
*
3125234 AATTTTTATATA
1 AATTTATATATA
3125246 AAT
1 AAT
3125249 ATTTTCATTT
Statistics
Matches: 44, Mismatches: 13, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
10 3 0.07
11 14 0.32
12 25 0.57
13 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (12 bp):
AATTTATATATA
Found at i:3125227 original size:21 final size:22
Alignment explanation
Indices: 3125180--3125229 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
3125170 TCTACCAATT
* *
3125180 TATATATAATTTTATAAAAAAAT
1 TATATATAAATTTAT-AAAAAAG
*
3125203 TATATATAAATTTAT-TAAAAG
1 TATATATAAATTTATAAAAAAG
3125224 TATATA
1 TATATA
3125230 CATGAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 10 0.42
23 14 0.58
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TATATATAAATTTATAAAAAAG
Found at i:3125229 original size:23 final size:23
Alignment explanation
Indices: 3125179--3125222 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
3125169 TTCTACCAAT
*
3125179 TTATATATAATTTTATAAAAAAA
1 TTATATATAAATTTATAAAAAAA
*
3125202 TTATATATAAATTTATTAAAA
1 TTATATATAAATTTATAAAAA
3125223 GTATATACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TTATATATAAATTTATAAAAAAA
Found at i:3130874 original size:21 final size:21
Alignment explanation
Indices: 3130848--3130892 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3130838 GATTTCTGGG
* *
3130848 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
3130869 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
3130890 CAA
1 CAA
3130893 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:3131795 original size:31 final size:31
Alignment explanation
Indices: 3131705--3131802 Score: 96
Period size: 31 Copynumber: 3.2 Consensus size: 31
3131695 AGAGTCGAGG
* *
3131705 GTTTACCTGTGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTAAGGAACATATGGACA
***
3131736 GTTTTACCTA-G-TCTTTCGAGAC--ATGGACA
1 G-TTTACCTATGTTCTAAGGA-ACATATGGACA
*
3131765 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTAAGGAACATATGGACA
3131796 GTTTACC
1 GTTTACC
3131803 GAGGATCTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
28 7 0.13
29 11 0.21
30 10 0.19
31 17 0.33
32 7 0.13
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (31 bp):
GTTTACCTATGTTCTAAGGAACATATGGACA
Found at i:3131858 original size:28 final size:29
Alignment explanation
Indices: 3131792--3131860 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
3131782 GGAACATATG
3131792 GACAGTTTACCGAGGATCTTTATGACCTCT
1 GACAG-TTACCGAGGATCTTTATGACCTCT
3131822 GACAGTTACCGAGGATCTTTATGA-CTCT
1 GACAGTTACCGAGGATCTTTATGACCTCT
*
3131850 GATAGTTACCG
1 GACAGTTACCG
3131861 GGGTCAAGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 14 0.37
29 19 0.50
30 5 0.13
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (29 bp):
GACAGTTACCGAGGATCTTTATGACCTCT
Found at i:3131933 original size:32 final size:32
Alignment explanation
Indices: 3131878--3131974 Score: 110
Period size: 32 Copynumber: 3.1 Consensus size: 32
3131868 GAGTCGAGGG
*
3131878 TTTACCTGTGTTCT-ACGGAACATATGGACAGT
1 TTTACCTATGTTCTAAC-GAACATATGGACAGT
**
3131910 TTTACCTATG-TCTTTCGAGACATATGGACAG-
1 TTTACCTATGTTCTAACGA-ACATATGGACAGT
* *
3131941 TATACCTATGTTCTAAGGAACATATGGACAGT
1 TTTACCTATGTTCTAACGAACATATGGACAGT
3131973 TT
1 TT
3131975 ACCGAGGATC
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
31 26 0.48
32 28 0.52
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (32 bp):
TTTACCTATGTTCTAACGAACATATGGACAGT
Found at i:3131950 original size:31 final size:31
Alignment explanation
Indices: 3131877--3131977 Score: 116
Period size: 31 Copynumber: 3.2 Consensus size: 31
3131867 AGAGTCGAGG
*
3131877 GTTTACCTGTGTTCT-ACGGAACATATGGACA
1 GTTTACCTATGTTCTAAC-GAACATATGGACA
**
3131908 GTTTTACCTATG-TCTTTCGAGACATATGGACA
1 G-TTTACCTATGTTCTAACGA-ACATATGGACA
* *
3131940 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTAACGAACATATGGACA
3131971 GTTTACC
1 GTTTACC
3131978 GAGGATCTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
31 32 0.54
32 27 0.46
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTAACGAACATATGGACA
Found at i:3131985 original size:175 final size:175
Alignment explanation
Indices: 3131693--3132043 Score: 654
Period size: 175 Copynumber: 2.0 Consensus size: 175
3131683 GTTGGCATGC
3131693 CAAGAGTCGAGGGTTTACCTGTGTTCTACGGAACATATGGACAGTTTTACCTAGTCTTTCGAGAC
1 CAAGAGTCGAGGGTTTACCTGTGTTCTACGGAACATATGGACAGTTTTACCTAGTCTTTCGAGAC
3131758 ATGGACAGTATACCTATGTTCTAAGGAACATATGGACAGTTTACCGAGGATCTTTATGACCTCT-
66 ATGGACAGTATACCTATGTTCTAAGGAACATATGGACAGTTTACCGAGGATCTTTATGACCTCTG
3131822 GACAGTTACCGAGGATCTTTATGA-CTCT-GATAGTTACCGGGGT
131 GACAGTTACCGAGGATCTTTATGACCTCTGGATAGTTACCGGGGT
3131865 CAAGAGTCGAGGGTTTACCTGTGTTCTACGGAACATATGGACAGTTTTACCTATGTCTTTCGAGA
1 CAAGAGTCGAGGGTTTACCTGTGTTCTACGGAACATATGGACAGTTTTACCTA-GTCTTTCGAGA
3131930 CATATGGACAGTATACCTATGTTCTAAGGAACATATGGACAGTTTACCGAGGATCTTTATGACCT
65 C--ATGGACAGTATACCTATGTTCTAAGGAACATATGGACAGTTTACCGAGGATCTTTATGACCT
3131995 CTGGACAGTTACCGAGGATCTTTATGACCTCTGGATAGTTACCGGGGT
128 CTGGACAGTTACCGAGGATCTTTATGACCTCTGGATAGTTACCGGGGT
3132043 C
1 C
3132044 TGTGTGACCT
Statistics
Matches: 173, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
172 53 0.31
173 12 0.07
175 64 0.37
176 24 0.14
177 4 0.02
178 16 0.09
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (175 bp):
CAAGAGTCGAGGGTTTACCTGTGTTCTACGGAACATATGGACAGTTTTACCTAGTCTTTCGAGAC
ATGGACAGTATACCTATGTTCTAAGGAACATATGGACAGTTTACCGAGGATCTTTATGACCTCTG
GACAGTTACCGAGGATCTTTATGACCTCTGGATAGTTACCGGGGT
Found at i:3132009 original size:30 final size:30
Alignment explanation
Indices: 3131965--3132058 Score: 136
Period size: 30 Copynumber: 3.1 Consensus size: 30
3131955 AAGGAACATA
3131965 TGGACAGTTTACCGAGGATCTTTATGACCTC
1 TGGACAG-TTACCGAGGATCTTTATGACCTC
3131996 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * * *
3132026 TGGATAGTTACCG-GGGTCTGTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
3132055 TGGA
1 TGGA
3132059 TAGGTCCTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
29 17 0.29
30 35 0.59
31 7 0.12
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:3134973 original size:21 final size:20
Alignment explanation
Indices: 3134936--3134979 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
3134926 TGATTTAGGG
*
3134936 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGATACCC-TT
3134957 CAAGGGGAA-CAGATACCCTT
1 CAAGGGGAATC-GATACCCTT
3134977 CAA
1 CAA
3134980 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.34, C:0.25, G:0.25, T:0.16
Consensus pattern (20 bp):
CAAGGGGAATCGATACCCTT
Found at i:3135855 original size:32 final size:32
Alignment explanation
Indices: 3135800--3135896 Score: 110
Period size: 32 Copynumber: 3.1 Consensus size: 32
3135790 GAGTCGAGGG
*
3135800 TTTACCTGTGTTCT-ACGGAACATATGGACAGT
1 TTTACCTATGTTCTAAC-GAACATATGGACAGT
**
3135832 TTTACCTATG-TCTTTCGAGACATATGGACAG-
1 TTTACCTATGTTCTAACGA-ACATATGGACAGT
* *
3135863 TATACCTATGTTCTAAGGAACATATGGACAGT
1 TTTACCTATGTTCTAACGAACATATGGACAGT
3135895 TT
1 TT
3135897 ACCGAGGATC
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
31 26 0.48
32 28 0.52
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (32 bp):
TTTACCTATGTTCTAACGAACATATGGACAGT
Found at i:3135872 original size:31 final size:31
Alignment explanation
Indices: 3135799--3135899 Score: 116
Period size: 31 Copynumber: 3.2 Consensus size: 31
3135789 AGAGTCGAGG
*
3135799 GTTTACCTGTGTTCT-ACGGAACATATGGACA
1 GTTTACCTATGTTCTAAC-GAACATATGGACA
**
3135830 GTTTTACCTATG-TCTTTCGAGACATATGGACA
1 G-TTTACCTATGTTCTAACGA-ACATATGGACA
* *
3135862 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTAACGAACATATGGACA
3135893 GTTTACC
1 GTTTACC
3135900 GAGGATCTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
31 32 0.54
32 27 0.46
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTAACGAACATATGGACA
Found at i:3135931 original size:30 final size:30
Alignment explanation
Indices: 3135887--3135980 Score: 136
Period size: 30 Copynumber: 3.1 Consensus size: 30
3135877 AAGGAACATA
3135887 TGGACAGTTTACCGAGGATCTTTATGACCTC
1 TGGACAG-TTACCGAGGATCTTTATGACCTC
3135918 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * * *
3135948 TGGATAGTTACCG-GGGTCTGTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
3135977 TGGA
1 TGGA
3135981 TAGGTCCTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
29 17 0.29
30 35 0.59
31 7 0.12
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:3138530 original size:21 final size:21
Alignment explanation
Indices: 3138504--3138557 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
3138494 AGTGAGTTTG
3138504 GGATCGATCCCTCAAGGAAAA
1 GGATCGATCCCTCAAGGAAAA
* * *
3138525 GGATCGTTCCCTCGATGAAAA
1 GGATCGATCCCTCAAGGAAAA
*
3138546 TGATCGATCCCT
1 GGATCGATCCCT
3138558 TCCCTTAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (21 bp):
GGATCGATCCCTCAAGGAAAA
Found at i:3140405 original size:22 final size:22
Alignment explanation
Indices: 3140357--3140420 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
3140347 TATACGATAT
* * *
3140357 GAACAATACCATGAACATTGAT
1 GAACAATACTATGAACAGTGAG
*
3140379 AAACAATACTATGAACAGTGAG
1 GAACAATACTATGAACAGTGAG
* *
3140401 GAACAGTACTGTGAACAGTG
1 GAACAATACTATGAACAGTG
3140421 TACCGATGCA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (22 bp):
GAACAATACTATGAACAGTGAG
Found at i:3140513 original size:20 final size:20
Alignment explanation
Indices: 3140490--3140530 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
3140480 GGCAAAACAC
3140490 ATATAAATTCATAAAAACTT
1 ATATAAATTCATAAAAACTT
3140510 ATATAAATTCATAAAAACTT
1 ATATAAATTCATAAAAACTT
3140530 A
1 A
3140531 AACTTGCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (20 bp):
ATATAAATTCATAAAAACTT
Found at i:3141242 original size:117 final size:116
Alignment explanation
Indices: 3140998--3141253 Score: 302
Period size: 117 Copynumber: 2.2 Consensus size: 116
3140988 GTATGCTTAC
* * * * *
3140998 CCTT-TCATTTTAGCACACAAAGTGCCCTATTTAAAAATCCATACTATTAGTATGATTTCCTTAT
1 CCTTATCATTTTAGCACACAAAATACCCTATCTAAAAATCCATACTATTAATATGATTTCCGTAT
* * ** *
3141062 CTTTGCAGCACCCTTAGTGCTTTATCTGGAAATCCATACACTCAATATGATT
66 CTTT-CAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAATATGATT
* * * * *
3141114 CTTTTACCATTTTAGCACATAAAATACCCTATCTGAAAATCCATA-TTTTCAATATGATTTCCGT
1 C-CTTATCATTTTAGCACACAAAATACCCTATCTAAAAATCCATACTATT-AATATGATTTCCGT
*
3141178 ATCATTT-AGCACACTCAGTGCTCCATATGGAAATCTATACACTCAATATGATTT
64 ATC-TTTCAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAATATGA-TT
3141232 CCTTATCATTTTAGCACACAAA
1 CCTTATCATTTTAGCACACAAA
3141254 GTGTCATTTG
Statistics
Matches: 116, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
116 1 0.01
117 61 0.53
118 51 0.44
119 3 0.03
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (116 bp):
CCTTATCATTTTAGCACACAAAATACCCTATCTAAAAATCCATACTATTAATATGATTTCCGTAT
CTTTCAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAATATGATT
Found at i:3143172 original size:16 final size:17
Alignment explanation
Indices: 3143151--3143187 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
3143141 CATAATCAAG
*
3143151 AAGAAAGAAGGAGAA-A
1 AAGAAAGAAGAAGAAGA
3143167 AAGAAAGAAGAAGAAGA
1 AAGAAAGAAGAAGAAGA
3143184 AAGA
1 AAGA
3143188 TGTGGGCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (17 bp):
AAGAAAGAAGAAGAAGA
Found at i:3146730 original size:17 final size:18
Alignment explanation
Indices: 3146691--3146737 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
3146681 TGTTTAGGAG
*
3146691 GGAATTGGAATCTGTGAA
1 GGAATTAGAATCTGTGAA
*
3146709 GGAATTAGAATCTGT-CA
1 GGAATTAGAATCTGTGAA
*
3146726 GGAATTTGAATC
1 GGAATTAGAATC
3146738 AATTTTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.30
Consensus pattern (18 bp):
GGAATTAGAATCTGTGAA
Found at i:3147262 original size:51 final size:51
Alignment explanation
Indices: 3147207--3147320 Score: 210
Period size: 51 Copynumber: 2.2 Consensus size: 51
3147197 CTTAATTGAA
*
3147207 AAAATTATATATAGAAGGGTATTATTGTAATTATTCCTAAATATATAAGGT
1 AAAATTATATATAGAAGGGTATTATTGTAATTATTCCTAAATATATAAAGT
*
3147258 AAAATTATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAAGT
1 AAAATTATATATAGAAGGGTATTATTGTAATTATTCCTAAATATATAAAGT
3147309 AAAATTATATAT
1 AAAATTATATAT
3147321 TTTTTTCGGG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (51 bp):
AAAATTATATATAGAAGGGTATTATTGTAATTATTCCTAAATATATAAAGT
Found at i:3147436 original size:37 final size:38
Alignment explanation
Indices: 3147355--3147436 Score: 132
Period size: 37 Copynumber: 2.2 Consensus size: 38
3147345 TTCACCCTAA
3147355 ACCCGAACTCGACCCGAATATCACACTTAAAAAAACCCG
1 ACCCG-ACTCGACCCGAATATCACACTTAAAAAAACCCG
*
3147394 A-CCGACTCGACCCGAATATCACGCTT-AAAAAACCCG
1 ACCCGACTCGACCCGAATATCACACTTAAAAAAACCCG
3147430 ACCCGAC
1 ACCCGAC
3147437 CCGAACAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
36 11 0.27
37 26 0.63
38 3 0.07
39 1 0.02
ACGTcount: A:0.38, C:0.38, G:0.12, T:0.12
Consensus pattern (38 bp):
ACCCGACTCGACCCGAATATCACACTTAAAAAAACCCG
Done.