Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold507
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: 914714
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
File 6 of 8
Found at i:602153 original size:2 final size:2
Alignment explanation
Indices: 602146--602176 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
602136 GTATAAATGT
602146 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
602177 TGCATCAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:602246 original size:2 final size:2
Alignment explanation
Indices: 602239--602277 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
602229 AGTAAACATA
602239 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
602278 ATTGTTGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:604024 original size:6 final size:6
Alignment explanation
Indices: 603989--604023 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
603979 CGAATAGCCT
* *
603989 GACCCA GACCCA GACCCA GACCGA GACCCT GACCC
1 GACCCA GACCCA GACCCA GACCCA GACCCA GACCC
604024 TCAAACTGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.29, C:0.49, G:0.20, T:0.03
Consensus pattern (6 bp):
GACCCA
Found at i:609570 original size:28 final size:28
Alignment explanation
Indices: 609539--609596 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
609529 ACTTACGACT
*
609539 TAATTCAATCTA-TACATA-AATTTATTAA
1 TAATT-AATCTATTA-ATATAATTTAATAA
609567 TAATTAATCTATTAATATAATTTAATAA
1 TAATTAATCTATTAATATAATTTAATAA
609595 TA
1 TA
609597 TACTTTTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (28 bp):
TAATTAATCTATTAATATAATTTAATAA
Found at i:609886 original size:13 final size:13
Alignment explanation
Indices: 609838--609876 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
609828 TCAGAATAAT
609838 ATTAATATTATTA
1 ATTAATATTATTA
*
609851 ATTATTATTATTA
1 ATTAATATTATTA
* *
609864 ATAAAAATTATTA
1 ATTAATATTATTA
609877 TTATTAATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTAATATTATTA
Found at i:612850 original size:226 final size:226
Alignment explanation
Indices: 612456--613134 Score: 1295
Period size: 226 Copynumber: 3.0 Consensus size: 226
612446 CGTCCTTTTC
612456 GTGCCTACATGCACACAACACAAACACATGCATACATGTTCACAGACACAGAGCATGTATTTTGT
1 GTGCCTACATGCACACAACACAAACACATGCATACATGTTCACAGACACAGAGCATGTATTTTGT
612521 GGCCGTGCTGCAGATCTGCGTTTGTTGCACTGAGGAATAGCTTTTACATCAATTATTATCCTTTT
66 GGCCGTGCTGCAGATCTGCGTTTGTTGCACTGAGGAATAGCTTTTACATCAATTATTATCCTTTT
612586 GCTTCTAGTATGGTTTAATTGTTAGATGATTTGCTAATAGTTTGGTAATTAATGACTTGTTTATA
131 GCTTCTAGTATGGTTTAATTGTTAGATGATTTGCTAATAGTTTGGTAATTAATGACTTGTTTATA
612651 GAACAGGCCACAAAGTGATCTCACCATCAAA
196 GAACAGGCCACAAAGTGATCTCACCATCAAA
612682 GTGCCTACATGCACACAACACAAACACATGCATACATGTTCACAGACACAGAGCATGTATTTTGT
1 GTGCCTACATGCACACAACACAAACACATGCATACATGTTCACAGACACAGAGCATGTATTTTGT
612747 GGCCGTGCTGCAGATCTGCGTTTGTTGCACTGAGGAATAGCTTTTACATCAATTATTATCCTTTT
66 GGCCGTGCTGCAGATCTGCGTTTGTTGCACTGAGGAATAGCTTTTACATCAATTATTATCCTTTT
*
612812 GCTTCTAGTATGGTTTAATTGTTAGATGATTTGCTAATAGTTTGGTAATTAATGAATTGTTTATA
131 GCTTCTAGTATGGTTTAATTGTTAGATGATTTGCTAATAGTTTGGTAATTAATGACTTGTTTATA
612877 GAACAGGCCACAAAGTGATCTCACCATCAAA
196 GAACAGGCCACAAAGTGATCTCACCATCAAA
612908 GTGCCTACATGCACACAACACAAACACATGCATACATGTTCACAGACACAGAGCATGTATTTTGT
1 GTGCCTACATGCACACAACACAAACACATGCATACATGTTCACAGACACAGAGCATGTATTTTGT
*
612973 GGCCGTGCTGCAGATCTGCGTTTGTTGCACTGAGGAATAGCTTTTACATCAATTATTATCCTTTC
66 GGCCGTGCTGCAGATCTGCGTTTGTTGCACTGAGGAATAGCTTTTACATCAATTATTATCCTTTT
*
613038 GCTTCTAGTATGGTTTAATTGTTAGATGATTTGCTAATATTTTGGTAATTAATGACTTGTTTATA
131 GCTTCTAGTATGGTTTAATTGTTAGATGATTTGCTAATAGTTTGGTAATTAATGACTTGTTTATA
613103 GAACAGGCATCAGTCAAAGTGATCTCACCATC
196 GAACAGGC--CA--CAAAGTGATCTCACCATC
613135 CTAGAGAGCC
Statistics
Matches: 445, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
226 425 0.96
228 2 0.00
230 18 0.04
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (226 bp):
GTGCCTACATGCACACAACACAAACACATGCATACATGTTCACAGACACAGAGCATGTATTTTGT
GGCCGTGCTGCAGATCTGCGTTTGTTGCACTGAGGAATAGCTTTTACATCAATTATTATCCTTTT
GCTTCTAGTATGGTTTAATTGTTAGATGATTTGCTAATAGTTTGGTAATTAATGACTTGTTTATA
GAACAGGCCACAAAGTGATCTCACCATCAAA
Found at i:622356 original size:14 final size:13
Alignment explanation
Indices: 622335--622378 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
622325 ATTTAAACTT
622335 AAAATCAAATATA
1 AAAATCAAATATA
*
622348 AATAATCAAAT-TT
1 AA-AATCAAATATA
*
622361 AAAATCGAATATA
1 AAAATCAAATATA
622374 AAAAT
1 AAAAT
622379 TAAGTTCAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 7 0.27
13 11 0.42
14 8 0.31
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (13 bp):
AAAATCAAATATA
Found at i:623165 original size:13 final size:14
Alignment explanation
Indices: 623149--623182 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
623139 TTTTTTTAAG
623149 ATATTTATATTTA-
1 ATATTTATATTTAT
*
623162 ATATTTATTTTTAT
1 ATATTTATATTTAT
623176 ATATTTA
1 ATATTTA
623183 AAAATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
ATATTTATATTTAT
Found at i:624433 original size:16 final size:16
Alignment explanation
Indices: 624412--624446 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
624402 AATTTATGAA
624412 TTTAATAAATATTTAT
1 TTTAATAAATATTTAT
* *
624428 TTTAATATATTTTTAT
1 TTTAATAAATATTTAT
624444 TTT
1 TTT
624447 TAATTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTAATAAATATTTAT
Found at i:624472 original size:6 final size:6
Alignment explanation
Indices: 624461--624513 Score: 61
Period size: 6 Copynumber: 8.5 Consensus size: 6
624451 TTATATTAAA
* * *
624461 AAATTT AAATTT AAATTT AAATTT AAATAATT AATTTT AAAATT AAATAT
1 AAATTT AAATTT AAATTT AAATTT AAAT--TT AAATTT AAATTT AAATTT
624511 AAA
1 AAA
624514 AATTAAACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
6 35 0.88
8 5 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (6 bp):
AAATTT
Found at i:624494 original size:26 final size:25
Alignment explanation
Indices: 624448--624520 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
624438 TTTTATTTTT
* *
624448 AATTTATATTAAAAAATTTAAATTTA
1 AATTTAAATTTAAAAA-TTAAATTTA
*
624474 AATTTAAATTTAAATAATTAATTTTA
1 AATTTAAATTTAAA-AATTAAATTTA
* *
624500 AAATTAAATATAAAAATTAAA
1 AATTTAAATTTAAAAATTAAA
624521 CTTATTTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
25 6 0.15
26 32 0.80
27 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
AATTTAAATTTAAAAATTAAATTTA
Found at i:624514 original size:12 final size:13
Alignment explanation
Indices: 624459--624520 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
624449 ATTTATATTA
624459 AAAAATTTAAATTT
1 AAAAA-TTAAATTT
*
624473 -AAATTTAAATTT
1 AAAAATTAAATTT
624485 AAATAATT-AATTT
1 AAA-AATTAAATTT
* *
624498 TAAAATTAAATAT
1 AAAAATTAAATTT
624511 AAAAATTAAA
1 AAAAATTAAA
624521 CTTATTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
12 12 0.30
13 25 0.62
14 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAAATTAAATTT
Found at i:627284 original size:16 final size:17
Alignment explanation
Indices: 627265--627301 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
627255 TATATAATAA
627265 TAAATATTAAAAATT-T
1 TAAATATTAAAAATTAT
*
627281 TAAATATTAAATATTAT
1 TAAATATTAAAAATTAT
627298 TAAA
1 TAAA
627302 ATATAAATAA
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATATTAAAAATTAT
Found at i:627286 original size:23 final size:24
Alignment explanation
Indices: 627251--627316 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 24
627241 ATAATTAATC
627251 AAATTATATAATAATAAATATTAA
1 AAATTATATAATAATAAATATTAA
* *
627275 AAATTTTA-AATATTAAATATTATTA
1 AAATTATATAATAATAAATATTA--A
627300 AAA-TATA-AATAA-AAATA
1 AAATTATATAATAATAAATA
627317 ATTTATCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 18 0.50
24 14 0.39
25 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAATTATATAATAATAAATATTAA
Found at i:627434 original size:21 final size:21
Alignment explanation
Indices: 627383--627435 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 21
627373 ATTTAAATAC
*
627383 ATATTTGATATATTTTATTATT
1 ATATTTTATA-ATTTTATTATT
627405 -TA-TTT-TAATTTTATTATT
1 ATATTTTATAATTTTATTATT
627423 ATATTTTATAATT
1 ATATTTTATAATT
627436 AATCTTATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 11 0.41
19 4 0.15
20 5 0.19
21 7 0.26
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
ATATTTTATAATTTTATTATT
Found at i:627443 original size:25 final size:27
Alignment explanation
Indices: 627409--627467 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 27
627399 ATTATTTATT
* * *
627409 TTAATTTTATTATTA-TATTTT-ATAA
1 TTAATCTTATCATTATTATTTTCAAAA
627434 TTAATCTTATCATTATTATTTTCAAAA
1 TTAATCTTATCATTATTATTTTCAAAA
627461 TTAATCT
1 TTAATCT
627468 CACAGCTCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 13 0.45
26 6 0.21
27 10 0.34
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (27 bp):
TTAATCTTATCATTATTATTTTCAAAA
Found at i:628365 original size:13 final size:13
Alignment explanation
Indices: 628341--628374 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
628331 TATATTTATT
628341 TTATTA-TTTAAA
1 TTATTATTTTAAA
628353 TTATTATTTTAAA
1 TTATTATTTTAAA
*
628366 TTAATATTT
1 TTATTATTT
628375 ATATATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTATTATTTTAAA
Found at i:628391 original size:24 final size:25
Alignment explanation
Indices: 628345--628400 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 25
628335 TTTATTTTAT
628345 TATTTAAATTATTATTTTAAATTAA
1 TATTTAAATTATTATTTTAAATTAA
*
628370 TATTTATA-TATT-TTTTATAATTAA
1 TATTTAAATTATTATTTTA-AATTAA
628394 -ATTTAAA
1 TATTTAAA
628401 CTTTTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 11 0.39
24 10 0.36
25 7 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TATTTAAATTATTATTTTAAATTAA
Found at i:628407 original size:24 final size:24
Alignment explanation
Indices: 628345--628411 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
628335 TTTATTTTAT
628345 TATTTAAATTATTATTTTA-AATTAA
1 TATTTAAATT-TT-TTTTATAATTAA
* *
628370 TATTTATATATTTTTTATAATTAA
1 TATTTAAATTTTTTTTATAATTAA
628394 -ATTTAAACTTTTTTTTAT
1 TATTTAAA-TTTTTTTTAT
628412 TTATTGAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 11 0.31
24 17 0.47
25 8 0.22
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (24 bp):
TATTTAAATTTTTTTTATAATTAA
Found at i:628536 original size:16 final size:15
Alignment explanation
Indices: 628517--628575 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
628507 TTCATATATA
*
628517 TATATATTATTTAAA
1 TATATATTATTTAAT
* *
628532 T-TATAGTATCTAAT
1 TATATATTATTTAAT
628546 TATATTATTATTTAAT
1 TATA-TATTATTTAAT
*
628562 GATCA-ATTATTTAA
1 TAT-ATATTATTTAA
628576 ATAATAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 11 0.31
15 12 0.34
16 11 0.31
17 1 0.03
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (15 bp):
TATATATTATTTAAT
Found at i:628868 original size:20 final size:21
Alignment explanation
Indices: 628843--628881 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
628833 TTTTAATTTA
628843 AAAATA-ACAAATA-AAAATAT
1 AAAATATA-AAATATAAAATAT
628863 AAAATATAAAATATAAAAT
1 AAAATATAAAATATAAAAT
628882 CTCTTTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATATAAAATATAAAATAT
Found at i:628881 original size:14 final size:13
Alignment explanation
Indices: 628841--628881 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
628831 AATTTTAATT
628841 TAAAAATA-ACAAA
1 TAAAAATATA-AAA
628854 TAAAAATATAAAA
1 TAAAAATATAAAA
628867 TATAAAATATAAAA
1 TA-AAAATATAAAA
628881 T
1 T
628882 CTCTTTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.50
14 13 0.50
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAATATAAAA
Found at i:629018 original size:21 final size:20
Alignment explanation
Indices: 628994--629053 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
628984 TGATAATTAA
628994 TTTTATTATAAAATTTAAAAT
1 TTTTATTAT-AAATTTAAAAT
* *
629015 TTTTA-TATTAATATTAATAT
1 TTTTATTATAAAT-TTAAAAT
*
629035 TTTTATAATTAAATTTAAA
1 TTTTATTA-TAAATTTAAA
629054 TAAAATATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 3 0.10
20 14 0.45
21 10 0.32
22 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTATTATAAATTTAAAAT
Found at i:629031 original size:20 final size:21
Alignment explanation
Indices: 629008--629054 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
628998 ATTATAAAAT
629008 TTAAAATTTTTAT-ATTAATA
1 TTAAAATTTTTATAATTAATA
*
629028 TTAATATTTTTATAATTAA-A
1 TTAAAATTTTTATAATTAATA
*
629048 TTTAAAT
1 TTAAAAT
629055 AAAATATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAAAATTTTTATAATTAATA
Found at i:629758 original size:18 final size:19
Alignment explanation
Indices: 629725--629760 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
629715 AAATTTTTAT
*
629725 AATTTTATTTTGTAAAAAA
1 AATTTTATTATGTAAAAAA
629744 AATTTTA-TATGTAAAAA
1 AATTTTATTATGTAAAAA
629761 TTTGAATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (19 bp):
AATTTTATTATGTAAAAAA
Found at i:629783 original size:2 final size:2
Alignment explanation
Indices: 629771--629805 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
629761 TTTGAATCTT
*
629771 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
629806 ACGGATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:630186 original size:6 final size:6
Alignment explanation
Indices: 630164--630230 Score: 50
Period size: 6 Copynumber: 11.2 Consensus size: 6
630154 ATATATATAC
* * *
630164 ATATAT ATATTT ATATTT ATATTT ATGATTT -TAATGT AT-TTA ATAATTT
1 ATATTT ATATTT ATATTT ATATTT AT-ATTT AT-ATTT ATATTT AT-ATTT
*
630213 AT-TTT ATATTT ACATTT A
1 ATATTT ATATTT ATATTT A
630231 AACAACCCAC
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
5 8 0.16
6 32 0.65
7 9 0.18
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (6 bp):
ATATTT
Found at i:630366 original size:20 final size:20
Alignment explanation
Indices: 630341--630380 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
630331 TGCTTTATCA
630341 TTTTTATAAATAATTAGTAT
1 TTTTTATAAATAATTAGTAT
630361 TTTTTATAAATAATTAGTAT
1 TTTTTATAAATAATTAGTAT
630381 ATAAAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTTTATAAATAATTAGTAT
Found at i:632796 original size:2 final size:2
Alignment explanation
Indices: 632789--632852 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
632779 TTATTCCAGT
632789 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
632831 TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC
632853 ACACACACAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:632857 original size:2 final size:2
Alignment explanation
Indices: 632852--632878 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
632842 CTCTCTCTCT
632852 CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA C
632879 GCATGCACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:633021 original size:2 final size:2
Alignment explanation
Indices: 633016--633040 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
633006 TTATATATCA
633016 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
633041 ATGTGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:633047 original size:2 final size:2
Alignment explanation
Indices: 633042--633076 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
633032 TCTCTCTCTA
633042 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
633077 ATCAAACAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:634343 original size:2 final size:2
Alignment explanation
Indices: 634336--634363 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
634326 TGACAATCAC
634336 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
634364 TGAACTTATG
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):
AT
Found at i:636317 original size:25 final size:25
Alignment explanation
Indices: 636247--636317 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 25
636237 TTATAATTCG
636247 ATAAATT-TTTTTAT-TTAA-A-TT
1 ATAAATTATTTTTATATTAATATTT
*
636268 -TAAATTA-TTTT-TA--AATTTTT
1 ATAAATTATTTTTATATTAATATTT
636288 A-AAATTATTTTTATATTAATATTT
1 ATAAATTATTTTTATATTAATATTT
636312 ATAAAT
1 ATAAAT
636318 AAATTTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 16
0.68 0.04 0.29
Matches are distributed among these distances:
18 2 0.05
19 1 0.03
20 18 0.47
21 4 0.11
22 2 0.05
24 7 0.18
25 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
ATAAATTATTTTTATATTAATATTT
Found at i:637079 original size:14 final size:14
Alignment explanation
Indices: 637057--637089 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
637047 TTTATTTATT
637057 TTTTA-AAAATATA
1 TTTTATAAAATATA
637070 TTTTATAAAATATA
1 TTTTATAAAATATA
*
637084 TATTAT
1 TTTTAT
637090 TTTATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTTATAAAATATA
Found at i:637086 original size:16 final size:15
Alignment explanation
Indices: 637053--637087 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
637043 GTATTTTATT
*
637053 TATTTTTTAAAAATA
1 TATTTTATAAAAATA
637068 TATTTTATAAAATATA
1 TATTTTATAAAA-ATA
637084 TATT
1 TATT
637088 ATTTTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTTTATAAAAATA
Found at i:637271 original size:3 final size:3
Alignment explanation
Indices: 637263--637292 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
637253 AAGAAACATA
*
637263 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
637293 TAATTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:637496 original size:18 final size:19
Alignment explanation
Indices: 637466--637507 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
637456 ATTTAATATT
637466 TAAA-AATTAATTTTTTAA
1 TAAATAATTAATTTTTTAA
637484 TAAATAATT-ATTTTTTAA
1 TAAATAATTAATTTTTTAA
637502 -AAATAA
1 TAAATAA
637508 AAAATTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.26
18 13 0.57
19 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TAAATAATTAATTTTTTAA
Found at i:637898 original size:20 final size:19
Alignment explanation
Indices: 637870--637918 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
637860 TTTTTATTTA
*
637870 AATTAATATTTAAATTTAAT
1 AATTTATATTT-AATTTAAT
*
637890 AATTTATATACTAATTTAAT
1 AATTTATAT-TTAATTTAAT
637910 -ATTTATATT
1 AATTTATATT
637919 ATTTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 8 0.32
20 16 0.64
21 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTTATATTTAATTTAAT
Found at i:637968 original size:11 final size:10
Alignment explanation
Indices: 637953--638013 Score: 51
Period size: 11 Copynumber: 6.2 Consensus size: 10
637943 ATATTAACCA
637953 TTTATATTAT
1 TTTATATTAT
637963 ATTTATA-TAT
1 -TTTATATTAT
637973 TTT-TA--AT
1 TTTATATTAT
637980 TTTATATTAT
1 TTTATATTAT
637990 ATTT-TAATTAT
1 -TTTAT-ATTAT
638001 TTTGATATTAT
1 TTT-ATATTAT
638012 TT
1 TT
638014 ATTTTTGTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
7 5 0.12
8 4 0.09
9 3 0.07
10 9 0.21
11 21 0.49
12 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATATTAT
Found at i:637996 original size:18 final size:16
Alignment explanation
Indices: 637964--637998 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
637954 TTATATTATA
637964 TTTATATATTTTTAAT
1 TTTATATATTTTTAAT
637980 TTTATATTATATTTTAAT
1 TTTATA-TAT-TTTTAAT
637998 T
1 T
637999 ATTTTGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 3 0.18
18 8 0.47
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTATATATTTTTAAT
Found at i:638011 original size:27 final size:28
Alignment explanation
Indices: 637954--638019 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 28
637944 TATTAACCAT
*
637954 TTATATTATA-TTTATATATTTTTAATT
1 TTATATTATATTTTATATATTTTTAATA
*
637981 TTATATTATATTTTA-AT-TATTTTGATA
1 TTATATTATATTTTATATAT-TTTTAATA
638008 TTAT-TTAT-TTTT
1 TTATATTATATTTT
638020 GTATTGATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 4 0.11
26 5 0.14
27 22 0.63
28 4 0.11
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (28 bp):
TTATATTATATTTTATATATTTTTAATA
Found at i:639837 original size:77 final size:77
Alignment explanation
Indices: 639738--639891 Score: 238
Period size: 77 Copynumber: 2.0 Consensus size: 77
639728 AAGACAAAAT
* *
639738 TTAAAACTCACATTTTGGGCAAGATTAAGTTTG-GACAAACATGAATAATATTAATACTATACTT
1 TTAAAACTCACATTTTGAGCAAGATTAAGCTTGAG-CAAACATGAATAATATTAATACTATACTT
639802 AAGCCCGACATGA
65 AAGCCCGACATGA
* * *
639815 TTAAAACTCATATTTTGAGCAAGATTAAGCTTGAGCAAACATGAATAATATTAATATTATATTTA
1 TTAAAACTCACATTTTGAGCAAGATTAAGCTTGAGCAAACATGAATAATATTAATACTATACTTA
*
639880 AGCCCGATATGA
66 AGCCCGACATGA
639892 ATCTGGCCCG
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
77 69 0.99
78 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (77 bp):
TTAAAACTCACATTTTGAGCAAGATTAAGCTTGAGCAAACATGAATAATATTAATACTATACTTA
AGCCCGACATGA
Found at i:640274 original size:21 final size:21
Alignment explanation
Indices: 640236--640300 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
640226 CAATCAACTG
* *
640236 AATT-AAAATTTATTATTTAT
1 AATTAAAAATATATAATTTAT
*
640256 AATTAAAAATATATAATTTTT
1 AATTAAAAATATATAATTTAT
* *
640277 TATTATTAAATAT-TAATTTA-
1 AATTA-AAAATATATAATTTAT
640297 AATT
1 AATT
640301 CAGCTGTACT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
20 7 0.19
21 23 0.64
22 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTAAAAATATATAATTTAT
Found at i:647253 original size:1 final size:1
Alignment explanation
Indices: 647247--647278 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
647237 GATCGGTTTT
647247 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
647279 TTATGTATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:648503 original size:21 final size:23
Alignment explanation
Indices: 648477--648527 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
648467 AATTTGAAGA
648477 TTTAAATTATTGTTA-AA-AAAT
1 TTTAAATTATTGTTATAATAAAT
* * *
648498 TTTAAAATATTTTTATAATTAAT
1 TTTAAATTATTGTTATAATAAAT
648521 TTTAAAT
1 TTTAAAT
648528 AAAAATATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 13 0.54
22 2 0.08
23 9 0.38
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TTTAAATTATTGTTATAATAAAT
Found at i:648573 original size:15 final size:15
Alignment explanation
Indices: 648553--648616 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
648543 AATTAAATAA
648553 TAATTCAAATCGAAT
1 TAATTCAAATCGAAT
***
648568 TAATTCATAAAAAAAT
1 TAATTCA-AATCGAAT
* **
648584 TATATTCAAATGGTTT
1 TA-ATTCAAATCGAAT
648600 TAATTCAAATCGAAT
1 TAATTCAAATCGAAT
648615 TA
1 TA
648617 GACAAACATC
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
15 19 0.53
16 12 0.33
17 5 0.14
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (15 bp):
TAATTCAAATCGAAT
Found at i:649580 original size:23 final size:23
Alignment explanation
Indices: 649530--649584 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
649520 TTAATGGTTA
*
649530 GGGGGCTGGATCTGTGGCGAGAC
1 GGGGGCTGGATCTGTGGCAAGAC
* * * *
649553 AGGGGCTTGATTTGTGGCAAGAT
1 GGGGGCTGGATCTGTGGCAAGAC
649576 GGGGGCTGG
1 GGGGGCTGG
649585 CACTTGTTAC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.15, C:0.13, G:0.51, T:0.22
Consensus pattern (23 bp):
GGGGGCTGGATCTGTGGCAAGAC
Found at i:652198 original size:2 final size:2
Alignment explanation
Indices: 652191--652222 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
652181 ATAAACTGAA
652191 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
652223 TAAGATCTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:656462 original size:32 final size:31
Alignment explanation
Indices: 656410--656524 Score: 133
Period size: 32 Copynumber: 3.6 Consensus size: 31
656400 ATTTAAAATG
* **
656410 TATATAAATTTTTTATATTAATAATTCGTAT
1 TATATAAATTTTTTACATTAATAATTTATAT
*
656441 TATATAAATTTTTTCACATTAATTATTTATAT
1 TATATAAATTTTTT-ACATTAATAATTTATAT
* *
656473 TATATATATTTTAT-CATTTTAATAATTTATAT
1 TATATAAATTTTTTACA--TTAATAATTTATAT
656505 TATATAAATTTTATTACATT
1 TATATAAATTTT-TTACATT
656525 CACAATTATG
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
30 2 0.03
31 14 0.20
32 51 0.73
33 1 0.01
34 2 0.03
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (31 bp):
TATATAAATTTTTTACATTAATAATTTATAT
Found at i:657166 original size:21 final size:21
Alignment explanation
Indices: 657151--657194 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
657141 TTTAATTAAT
657151 AATATAAAAATATTAAAATAA
1 AATATAAAAATATTAAAATAA
*
657172 AATCTAAAAATA--AAAATAA
1 AATATAAAAATATTAAAATAA
657191 AATA
1 AATA
657195 ACTTAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
21 11 0.52
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (21 bp):
AATATAAAAATATTAAAATAA
Found at i:657187 original size:19 final size:20
Alignment explanation
Indices: 657155--657193 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
657145 ATTAATAATA
657155 TAAAAATATTAAAATAAAATC
1 TAAAAATA-TAAAATAAAATC
657176 TAAAAATA-AAAATAAAAT
1 TAAAAATATAAAATAAAAT
657194 AACTTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAAATATAAAATAAAATC
Found at i:657210 original size:21 final size:19
Alignment explanation
Indices: 657157--657210 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
657147 TAATAATATA
657157 AAAATATTAAAATAAAATCT
1 AAAAT-TTAAAATAAAATCT
* *
657177 AAAAATAAAAATAAAATAACT
1 AAAATTTAAAATAAAAT--CT
*
657198 TAAATTTAAAATA
1 AAAATTTAAAATA
657211 TTATATTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 11 0.41
20 4 0.15
21 12 0.44
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAATTTAAAATAAAATCT
Found at i:657248 original size:23 final size:22
Alignment explanation
Indices: 657197--657255 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
657187 ATAAAATAAC
* *
657197 TTAAATTTAAAATATTATATTT
1 TTAAATTTAAAATATAATATTA
657219 TTAAAATTTAATAAATATAATA-TA
1 TT-AAATTT-A-AAATATAATATTA
*
657243 TTAAATGTAAAAT
1 TTAAATTTAAAAT
657256 TTTACTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 11 0.35
24 4 0.13
25 9 0.29
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
TTAAATTTAAAATATAATATTA
Found at i:658956 original size:2 final size:2
Alignment explanation
Indices: 658949--658992 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
658939 ATAATCTATC
* * *
658949 TA TA TA TA TA TA TA TA AA TA TA AA TA TA TA AA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
658990 TA T
1 TA T
658993 TCCATCCCGC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:659575 original size:1 final size:1
Alignment explanation
Indices: 659569--659595 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
659559 GTCTTCTTAA
659569 CCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCC
659596 AAAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:672166 original size:18 final size:18
Alignment explanation
Indices: 672143--672177 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
672133 TTCAAGAATA
* *
672143 TTGAAGTGCTCATATTTT
1 TTGAAGTACCCATATTTT
672161 TTGAAGTACCCATATTT
1 TTGAAGTACCCATATTT
672178 GACACCTATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (18 bp):
TTGAAGTACCCATATTTT
Found at i:673400 original size:13 final size:13
Alignment explanation
Indices: 673382--673406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
673372 TTTAAGAAGT
673382 AAAAAATTAAAAA
1 AAAAAATTAAAAA
673395 AAAAAATTAAAA
1 AAAAAATTAAAA
673407 GAAGAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAAATTAAAAA
Found at i:678387 original size:2 final size:2
Alignment explanation
Indices: 678380--678417 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
678370 TATTATATTT
678380 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
678418 CTCTACAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:678570 original size:3 final size:3
Alignment explanation
Indices: 678564--678593 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
678554 GAACATTATT
678564 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
678594 TATTAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:678822 original size:20 final size:21
Alignment explanation
Indices: 678778--678822 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
678768 TAAAACAAAT
* *
678778 TAAATTTATATTTTTAAATTT
1 TAAATTAATATTTTTAAATTA
*
678799 TAAATTAAT-TTTTTTAATTA
1 TAAATTAATATTTTTAAATTA
678819 TAAA
1 TAAA
678823 AAAATAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TAAATTAATATTTTTAAATTA
Found at i:679169 original size:27 final size:28
Alignment explanation
Indices: 679112--679180 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 28
679102 ATGAAAAAAT
* * *
679112 ATAATTAATATATTAT--ATTTTTTAAT
1 ATAATAAATAAATTATAAATTTTTTAAA
*
679138 TTAATAAA-AAATTATAAATTTTTTAAA
1 ATAATAAATAAATTATAAATTTTTTAAA
679165 ATAATAAATAAATTAT
1 ATAATAAATAAATTAT
679181 TTTTTTAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 6 0.17
26 6 0.17
27 16 0.46
28 7 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
ATAATAAATAAATTATAAATTTTTTAAA
Found at i:679823 original size:25 final size:24
Alignment explanation
Indices: 679784--679830 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
679774 TGATATTATT
*
679784 TTTAATATATATTAAAATTTAAAA
1 TTTAATATATATTAAAAATTAAAA
*
679808 TTTAATTATTTATTAAAAATTAA
1 TTTAA-TATATATTAAAAATTAA
679831 TAAAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTAATATATATTAAAAATTAAAA
Found at i:680192 original size:21 final size:22
Alignment explanation
Indices: 680168--680221 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 22
680158 TTATATTTTT
680168 TATAATTAAATT-TTAATAAAA
1 TATAATTAAATTATTAATAAAA
680189 TAT-ATT--ATTATTAATAAAA
1 TATAATTAAATTATTAATAAAA
*
680208 AATAATTTAAATTA
1 TATAA-TTAAATTA
680222 AAAAATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
18 3 0.11
19 11 0.41
20 4 0.15
21 5 0.19
23 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TATAATTAAATTATTAATAAAA
Found at i:684981 original size:3 final size:3
Alignment explanation
Indices: 684975--685010 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
684965 CTTCTGCAAG
*
684975 TAT TAT TAT TAT TAT TAT TAT TCT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
685011 CATTTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:685111 original size:26 final size:25
Alignment explanation
Indices: 685065--685114 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
685055 AGTGCATATT
685065 ATTTTTTTAATTAAATATTTATTTG
1 ATTTTTTTAATTAAATATTTATTTG
* * *
685090 ATTTATTTTAGTTTAATTTTTATTT
1 ATTT-TTTTAATTAAATATTTATTT
685115 TTATATTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (25 bp):
ATTTTTTTAATTAAATATTTATTTG
Found at i:685127 original size:20 final size:19
Alignment explanation
Indices: 685091--685156 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 19
685081 ATTTATTTGA
*
685091 TTTATTTTAGT-TT-AATT
1 TTTATTTTAATATTAAATT
*
685108 TTTATTTTTATATTTAAATTT
1 TTTATTTTAATA-TTAAA-TT
* *
685129 TTTAATTTAATATTAAAAT
1 TTTATTTTAATATTAAATT
685148 TTTATTTTA
1 TTTATTTTA
685157 TTAAATATGT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 9 0.23
19 11 0.28
20 7 0.18
21 12 0.31
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTATTTTAATATTAAATT
Found at i:685131 original size:21 final size:21
Alignment explanation
Indices: 685106--685186 Score: 85
Period size: 21 Copynumber: 3.8 Consensus size: 21
685096 TTTAGTTTAA
*
685106 TTTTTATTTTTATATTTAAAT
1 TTTTTATTTTAATATTTAAAT
* *
685127 TTTTTAATTTAATATTAAAAT
1 TTTTTATTTTAATATTTAAAT
685148 TTTATT-TTATTAAATATGTT-AAT
1 TTT-TTATT-TT-AATAT-TTAAAT
685171 TTTTTATTTTAATATT
1 TTTTTATTTTAATATT
685187 ATTGTTAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
20 1 0.02
21 27 0.54
22 8 0.16
23 13 0.26
24 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (21 bp):
TTTTTATTTTAATATTTAAAT
Found at i:686400 original size:26 final size:27
Alignment explanation
Indices: 686350--686400 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
686340 GTTTTAAAGT
*
686350 TTTTCAAAATTTATTTTTTACAAAACC
1 TTTTCAAAATTTATTTTTTAAAAAACC
**
686377 TTTTCAATTTTTA-TTTTTAAAAAA
1 TTTTCAAAATTTATTTTTTAAAAAA
686401 TAATTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 10 0.48
27 11 0.52
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (27 bp):
TTTTCAAAATTTATTTTTTAAAAAACC
Found at i:686407 original size:13 final size:13
Alignment explanation
Indices: 686391--686420 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
686381 CAATTTTTAT
686391 TTTTAAAAAATAA
1 TTTTAAAAAATAA
686404 TTTTAAAAAATAA
1 TTTTAAAAAATAA
686417 TTTT
1 TTTT
686421 TTTTATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTTAAAAAATAA
Found at i:686594 original size:3 final size:3
Alignment explanation
Indices: 686586--686630 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
686576 TATGATGGAT
*
686586 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TCA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
686631 GTTTTAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:686789 original size:30 final size:30
Alignment explanation
Indices: 686728--686789 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
686718 ATATTTATCG
* ** *
686728 TATTTATTTATATCAATTAATATTGATATT
1 TATTAATTTATATCAATTAATATAAAAATT
* *
686758 TATTAATTTATATTAATTAGTATAAAAATT
1 TATTAATTTATATCAATTAATATAAAAATT
686788 TA
1 TA
686790 AATTTAAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (30 bp):
TATTAATTTATATCAATTAATATAAAAATT
Found at i:686984 original size:11 final size:11
Alignment explanation
Indices: 686970--687011 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
686960 AAATTATTAA
686970 AAAATTAAAAT
1 AAAATTAAAAT
686981 AAAATTAAAAT
1 AAAATTAAAAT
686992 --AA-TAAAAT
1 AAAATTAAAAT
*
687000 AAAATAAAAAT
1 AAAATTAAAAT
687011 A
1 A
687012 TATTTGATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
8 6 0.22
9 2 0.07
10 2 0.07
11 17 0.63
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:686987 original size:19 final size:18
Alignment explanation
Indices: 686965--687009 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
686955 AATCAAAATT
686965 ATTAAAAAATTAAAATAAA
1 ATTAAAAAA-TAAAATAAA
686984 ATTAAAATAATAAAATAAA
1 ATTAAAA-AATAAAATAAA
687003 A-TAAAAA
1 ATTAAAAA
687010 TATATTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.04
18 5 0.20
19 17 0.68
20 2 0.08
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
ATTAAAAAATAAAATAAA
Found at i:687002 original size:13 final size:14
Alignment explanation
Indices: 686978--687006 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
686968 AAAAAATTAA
686978 AATAAAATTAAAAT
1 AATAAAATTAAAAT
686992 AATAAAA-TAAAAT
1 AATAAAATTAAAAT
687005 AA
1 AA
687007 AAATATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AATAAAATTAAAAT
Found at i:688054 original size:21 final size:21
Alignment explanation
Indices: 688030--688071 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
688020 TCTTAAAATT
*
688030 TTTATTTAA-TATAATAAATAA
1 TTTATATAATTAT-ATAAATAA
688051 TTTATATAATTATATAAATAA
1 TTTATATAATTATATAAATAA
688072 ATAATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTATATAATTATATAAATAA
Found at i:688067 original size:17 final size:17
Alignment explanation
Indices: 688033--688108 Score: 50
Period size: 16 Copynumber: 4.3 Consensus size: 17
688023 TAAAATTTTT
688033 ATTTAATATAATAAATA
1 ATTTAATATAATAAATA
*
688050 ATTT-ATATAATTATATA
1 ATTTAATATAA-TAAATA
* *
688067 A-ATAA-ATAATTAAATT
1 ATTTAATATAA-TAAATA
688083 ATTTAGATAGATATATAAATA
1 ATTTA-AT--ATA-ATAAATA
688104 ATTTA
1 ATTTA
688109 TTAAAATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
16 17 0.38
17 13 0.29
18 1 0.02
21 13 0.29
22 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
ATTTAATATAATAAATA
Found at i:688087 original size:33 final size:33
Alignment explanation
Indices: 688040--688113 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
688030 TTTATTTAAT
*
688040 ATAA-TAAATAATTTATATA-ATTATATAAATAA
1 ATAATTAAATAATTTAGATAGA-TATATAAATAA
*
688072 ATAATTAAATTATTTAGATAGATATATAAATAA
1 ATAATTAAATAATTTAGATAGATATATAAATAA
* *
688105 TTTATTAAA
1 ATAATTAAA
688114 ATTTTAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 4 0.11
33 31 0.86
34 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (33 bp):
ATAATTAAATAATTTAGATAGATATATAAATAA
Found at i:688281 original size:21 final size:22
Alignment explanation
Indices: 688255--688310 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
688245 TATAATTGAT
688255 TTTAATTTTATCACT-ATAATA
1 TTTAATTTTATCACTGATAATA
* *
688276 TTTAATCTTAT-AATGATAATA
1 TTTAATTTTATCACTGATAATA
*
688297 ATTAATTTTATCAC
1 TTTAATTTTATCAC
688311 AATTATTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.07
21 25 0.89
22 1 0.04
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTAATTTTATCACTGATAATA
Found at i:689984 original size:2 final size:2
Alignment explanation
Indices: 689977--690003 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
689967 AAATTCAATT
689977 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
690004 CTTTTTTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:691642 original size:13 final size:13
Alignment explanation
Indices: 691626--691650 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
691616 AATTAATTAT
691626 AATAAATATTAAC
1 AATAAATATTAAC
691639 AATAAATATTAA
1 AATAAATATTAA
691651 TATCATATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAAATATTAAC
Found at i:692743 original size:26 final size:28
Alignment explanation
Indices: 692694--692752 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 28
692684 TCACTAAATC
* * *
692694 TTATTTTTTAATACTTAAGTAACTCATTA
1 TTATATTTTAATACTTAAG-AACTAACTA
692723 TTATATTTTAA-ACTTAA-AACTAACTA
1 TTATATTTTAATACTTAAGAACTAACTA
692749 TTAT
1 TTAT
692753 TAATATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 11 0.41
28 6 0.22
29 10 0.37
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (28 bp):
TTATATTTTAATACTTAAGAACTAACTA
Found at i:697136 original size:2 final size:2
Alignment explanation
Indices: 697129--697160 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
697119 GAAATTAAAG
697129 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
697161 CCACATGACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:700014 original size:20 final size:20
Alignment explanation
Indices: 699989--700034 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
699979 AAGAATTGAA
*
699989 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAG
**
700009 GAGGGATACTTGAGAGGGAG
1 GAGGGATACAAGAGAGGGAG
700029 GAGGGA
1 GAGGGA
700035 GCCTCTGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.50, T:0.11
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAG
Found at i:700185 original size:24 final size:27
Alignment explanation
Indices: 700112--700182 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
700102 AAACAAGCCT
* *
700112 CCATATTTGACAAATACAAAGGA-AACCA
1 CCATTTTTGACAAACACAAA--ATAACCA
700140 CCATTTTTGACAAACACAAAATAACCA
1 CCATTTTTGACAAACACAAAATAACCA
700167 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
700183 AATGGGTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAATAACCA
Found at i:702104 original size:21 final size:22
Alignment explanation
Indices: 702066--702111 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
702056 ATCTGTTGAA
* **
702066 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
702087 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
702109 ACT
1 ACT
702112 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:704589 original size:20 final size:20
Alignment explanation
Indices: 704564--704609 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
704554 AAGAATTGAA
*
704564 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAG
**
704584 GAGGGATACTTGAGAGGGAG
1 GAGGGATACAAGAGAGGGAG
704604 GAGGGA
1 GAGGGA
704610 GCCTCTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.50, T:0.11
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAG
Found at i:704752 original size:27 final size:27
Alignment explanation
Indices: 704687--704757 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
704677 AAACAAGCCT
* *
704687 CCATATTTGACAAATACAAAGGAAACCA
1 CCATTTTTGACAAACACAAA-GAAACCA
*
704715 CCATTTTTGACAAACACAAA-ATAACTA
1 CCATTTTTGACAAACACAAAGA-AACCA
704742 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
704758 AATGGGTGGC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.51
28 18 0.46
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.24
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAGAAACCA
Found at i:706418 original size:28 final size:30
Alignment explanation
Indices: 706372--706437 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 30
706362 ATTGTAATGA
* * *
706372 TATTTTTTATTTCTAAAAT-TTTA-AAAAT
1 TATTTTTAATCTCTAAAATAATTATAAAAT
* *
706400 TATTTTTAATCTCTTAAATAATTATCAAAT
1 TATTTTTAATCTCTAAAATAATTATAAAAT
706430 TATTTTTA
1 TATTTTTA
706438 TTATTTTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 16 0.52
29 3 0.10
30 12 0.39
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (30 bp):
TATTTTTAATCTCTAAAATAATTATAAAAT
Found at i:707762 original size:20 final size:20
Alignment explanation
Indices: 707737--707782 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
707727 AAGAATTGAA
*
707737 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAG
* **
707757 GAGGGATGCTTGAGAGGGAG
1 GAGGGATACAAGAGAGGGAG
707777 GAGGGA
1 GAGGGA
707783 GCCTCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.52, T:0.11
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAG
Found at i:707932 original size:24 final size:27
Alignment explanation
Indices: 707859--707929 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
707849 AAACAAGCCT
* *
707859 CCATATTTGACAAATACAAAGGA-AACCA
1 CCATTTTTGACAAACACAAA--ATAACCA
707887 CCATTTTTGACAAACACAAAATAACCA
1 CCATTTTTGACAAACACAAAATAACCA
707914 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
707930 AATGGGTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAATAACCA
Found at i:711513 original size:16 final size:16
Alignment explanation
Indices: 711492--711524 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
711482 CCCATGGAGT
711492 AGAGTTGTTTCGAGAA
1 AGAGTTGTTTCGAGAA
711508 AGAGTTGTTTCGAGAA
1 AGAGTTGTTTCGAGAA
711524 A
1 A
711525 CTCAAACTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.30
Consensus pattern (16 bp):
AGAGTTGTTTCGAGAA
Found at i:712510 original size:27 final size:28
Alignment explanation
Indices: 712449--712519 Score: 108
Period size: 27 Copynumber: 2.6 Consensus size: 28
712439 AAACAAGCCT
* *
712449 CCATATTTGACAAATACAAAGAAAACCA
1 CCATTTTTGACAAACACAAAGAAAACCA
*
712477 CCATTTTTGACAAACACAAA-ATAACCA
1 CCATTTTTGACAAACACAAAGAAAACCA
712504 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
712520 AATGGGTGAC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.48, C:0.24, G:0.06, T:0.23
Consensus pattern (28 bp):
CCATTTTTGACAAACACAAAGAAAACCA
Found at i:713180 original size:3 final size:3
Alignment explanation
Indices: 713174--713216 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
713164 CATGATGATG
713174 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
713217 GCCAAAGTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:719453 original size:22 final size:20
Alignment explanation
Indices: 719411--719456 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
719401 TATATTTTAT
**
719411 TTAAATTTAAATTAATTTTA
1 TTAAATTTAAATTAAAATTA
719431 TTAAATTTATAAATTAAAATTA
1 TTAAA-TT-TAAATTAAAATTA
719453 TTAA
1 TTAA
719457 TAAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 2 0.09
22 15 0.68
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAATTTAAATTAAAATTA
Found at i:719901 original size:52 final size:51
Alignment explanation
Indices: 719835--719934 Score: 114
Period size: 52 Copynumber: 1.9 Consensus size: 51
719825 TTATTATTAA
719835 TTTATATAAATATTTACATATTAATAATTCA-TTTTAT-TTATATTTTAACATG
1 TTTATATAAATATTT-CATATTAAT-ATT-ATTTTTATATTATATTTTAACATG
** * *
719887 TTTATATATTTATTTTATATTTATATTATTTTTTATATTATATTTTAA
1 TTTATATAAATATTTCATATTAATATTA-TTTTTATATTATATTTTAA
719935 TTATTTTCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
49 1 0.02
50 3 0.07
51 13 0.32
52 24 0.59
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (51 bp):
TTTATATAAATATTTCATATTAATATTATTTTTATATTATATTTTAACATG
Found at i:719911 original size:17 final size:18
Alignment explanation
Indices: 719891--719931 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
719881 AACATGTTTA
719891 TATATTTATTTTATAT-T
1 TATATTTATTTTATATAT
*
719908 TATA-TTATTTTTTATAT
1 TATATTTATTTTATATAT
719925 TATATTT
1 TATATTT
719932 TAATTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 10 0.48
17 9 0.43
18 2 0.10
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TATATTTATTTTATATAT
Found at i:719923 original size:12 final size:12
Alignment explanation
Indices: 719906--719951 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
719896 TTATTTTATA
719906 TTTATATTATTT
1 TTTATATTATTT
*
719918 TTTATATTATAT
1 TTTATATTATTT
719930 TTTA-ATTATTT
1 TTTATATTATTT
719941 TCTTATATTAT
1 T-TTATATTAT
719952 GTTTATGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
11 7 0.23
12 18 0.60
13 5 0.17
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTATATTATTT
Found at i:719927 original size:23 final size:24
Alignment explanation
Indices: 719895--719957 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 24
719885 TGTTTATATA
*
719895 TTTATTTTATATTTAT-ATTATTT
1 TTTATATTATATTTATAATTATTT
719918 TTTATATTATATTT-TAATTATTT
1 TTTATATTATATTTATAATTATTT
*
719941 TCTTATATTATGTTTAT
1 T-TTATATTATATTTAT
719958 GTTTTATCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 1 0.03
23 21 0.60
24 12 0.34
25 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTATATTATATTTATAATTATTT
Found at i:719957 original size:11 final size:11
Alignment explanation
Indices: 719891--719931 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
719881 AACATGTTTA
*
719891 TATATTTATTT
1 TATATTTATAT
719902 TATATTTATAT
1 TATATTTATAT
*
719913 TATTTTTTATAT
1 TA-TATTTATAT
719925 TATATTT
1 TATATTT
719932 TAATTATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATATTTATAT
Found at i:720397 original size:21 final size:21
Alignment explanation
Indices: 720371--720416 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
720361 AAATTAAATA
720371 ATGATGTATGTATCACATGGT
1 ATGATGTATGTATCACATGGT
720392 ATGATGTATGTATCACATGGT
1 ATGATGTATGTATCACATGGT
720413 ATGA
1 ATGA
720417 ATTCTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.37
Consensus pattern (21 bp):
ATGATGTATGTATCACATGGT
Found at i:721009 original size:2 final size:2
Alignment explanation
Indices: 720997--721027 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
720987 TTCTTCAGCC
720997 AT AT A- 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
721028 TACATATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:729504 original size:20 final size:20
Alignment explanation
Indices: 729491--729529 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
729481 ATAATATTTT
729491 AATT-TCTTAAATAATTATC
1 AATTATCTTAAATAATTATC
729510 AATTATCTTAAATAATTATC
1 AATTATCTTAAATAATTATC
729530 TTTAAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTATCTTAAATAATTATC
Found at i:732218 original size:16 final size:16
Alignment explanation
Indices: 732199--732229 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
732189 AAAAAAACCT
*
732199 TTAAATTATTATTAAG
1 TTAAATTATAATTAAG
732215 TTAAATTATAATTAA
1 TTAAATTATAATTAA
732230 ATATTATTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TTAAATTATAATTAAG
Found at i:734862 original size:17 final size:19
Alignment explanation
Indices: 734836--734879 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
734826 AAAGTTTTTT
*
734836 ATCAAATGAA-GACAAC-C
1 ATCAATTGAAGGACAACGC
734853 ATCAATTGAAGGACAACGC
1 ATCAATTGAAGGACAACGC
734872 AT-AATTGA
1 ATCAATTGA
734880 CCTTTACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 9 0.38
18 12 0.50
19 3 0.12
ACGTcount: A:0.48, C:0.18, G:0.16, T:0.18
Consensus pattern (19 bp):
ATCAATTGAAGGACAACGC
Found at i:735737 original size:2 final size:2
Alignment explanation
Indices: 735730--735772 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
735720 AATCACCTCG
735730 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
735772 T
1 T
735773 GCACTATCCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:735999 original size:26 final size:24
Alignment explanation
Indices: 735967--736025 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 24
735957 CCCTATTTGA
*
735967 ATTTTTTTTTTAGATTTTTTTAATTT
1 ATTTTTATTTT-GA-TTTTTTAATTT
735993 AGTTTTTAGTTTTGATTTTTTAATTT
1 A-TTTTTA-TTTTGATTTTTTAATTT
736019 ATTTTTA
1 ATTTTTA
736026 AATTATCTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 6 0.20
26 13 0.43
27 7 0.23
28 4 0.13
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (24 bp):
ATTTTTATTTTGATTTTTTAATTT
Found at i:736834 original size:17 final size:18
Alignment explanation
Indices: 736812--736845 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
736802 AATGGATAAA
736812 GGAAAGAAA-GAAAAAAG
1 GGAAAGAAAGGAAAAAAG
736829 GGAAAGAAAGGAAAAAA
1 GGAAAGAAAGGAAAAAA
736846 AAAAAGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
GGAAAGAAAGGAAAAAAG
Found at i:736842 original size:22 final size:21
Alignment explanation
Indices: 736813--736855 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
736803 ATGGATAAAG
* *
736813 GAAAGAAAGAAAAAAGGGAAA
1 GAAAGAAAAAAAAAAAGGAAA
736834 GAAAGGAAAAAAAAAAAGGAAA
1 GAAA-GAAAAAAAAAAAGGAAA
736856 AAATTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (21 bp):
GAAAGAAAAAAAAAAAGGAAA
Found at i:736952 original size:11 final size:11
Alignment explanation
Indices: 736936--737027 Score: 56
Period size: 11 Copynumber: 8.6 Consensus size: 11
736926 TTAAATTTCG
736936 TATATTTATTT
1 TATATTTATTT
736947 TATATTTA--T
1 TATATTTATTT
736956 T-TA-TT-TTT
1 TATATTTATTT
736964 TATATTATATTT
1 TATATT-TATTT
736976 TAATTATTT-TTT
1 T-A-TATTTATTT
736988 TATA-TTATATT
1 TATATTTAT-TT
* *
736999 TATGTTT-TAT
1 TATATTTATTT
*
737009 CATAATTTATTT
1 TAT-ATTTATTT
737021 TATATTT
1 TATATTT
737028 TATATTATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 26
0.66 0.06 0.28
Matches are distributed among these distances:
7 2 0.03
8 4 0.06
9 6 0.10
10 7 0.11
11 23 0.37
12 14 0.23
13 2 0.03
14 4 0.06
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (11 bp):
TATATTTATTT
Found at i:736971 original size:22 final size:23
Alignment explanation
Indices: 736940--737001 Score: 90
Period size: 24 Copynumber: 2.7 Consensus size: 23
736930 ATTTCGTATA
*
736940 TTTATTTTATATTTATTTA-TTT
1 TTTATATTATATTTATTTATTTT
*
736962 TTTATATTATATTTTAATTATTTT
1 TTTATATTATA-TTTATTTATTTT
736986 TTTATATTATATTTAT
1 TTTATATTATATTTAT
737002 GTTTTATCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
22 10 0.29
23 11 0.31
24 14 0.40
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTATATTATATTTATTTATTTT
Found at i:737001 original size:52 final size:53
Alignment explanation
Indices: 736936--737037 Score: 120
Period size: 52 Copynumber: 1.9 Consensus size: 53
736926 TTAAATTTCG
* **
736936 TATATTTATTTTATA-TTTATTTATTTTTTATATTATATTTTA-ATTATTTTTT
1 TATATTTATTTTATATTTTA-TCATAATTTATATTATATTTTATATTATTTTTT
* *
736988 TATA-TTATATTTATGTTTTATCATAATTTATTTTATATTTTATATTATTT
1 TATATTTAT-TTTATATTTTATCATAATTTATATTATATTTTATATTATTT
737038 ATCATAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
51 4 0.10
52 27 0.64
53 11 0.26
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (53 bp):
TATATTTATTTTATATTTTATCATAATTTATATTATATTTTATATTATTTTTT
Found at i:737028 original size:22 final size:22
Alignment explanation
Indices: 736953--737039 Score: 67
Period size: 22 Copynumber: 4.0 Consensus size: 22
736943 ATTTTATATT
*
736953 TATTTATTTTTTATATTATATTT-
1 TATTTATATTTTATA-TA-ATTTA
* *
736976 TAATTAT-TTTTTTAT-A-TTA
1 TATTTATATTTTATATAATTTA
*
736995 TATTTATGTTTTATCATAATTTA
1 TATTTATATTTTAT-ATAATTTA
*
737018 T-TTTATATTTTATATTATTTA
1 TATTTATATTTTATATAATTTA
737039 T
1 T
737040 CATAATAATT
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
18 2 0.04
19 7 0.13
20 5 0.09
21 11 0.21
22 18 0.34
23 10 0.19
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.69
Consensus pattern (22 bp):
TATTTATATTTTATATAATTTA
Found at i:737031 original size:35 final size:33
Alignment explanation
Indices: 736942--737051 Score: 90
Period size: 29 Copynumber: 3.5 Consensus size: 33
736932 TTCGTATATT
*
736942 TATTTT-AT-ATTTA-TTTATTTTTTATA-TTA
1 TATTTTAATAATTTATTTTATATTTTATATTTA
*
736971 TATTTTAATTATTT-TTTTATA--TTATATTTA
1 TATTTTAATAATTTATTTTATATTTTATATTTA
* *
737001 TGTTTTATCATAATTTATTTTATATTTTATATTATT
1 TATTTTA--ATAATTTATTTTATATTTTATATT-TA
**
737037 TATCATAATAATTTA
1 TATTTTAATAATTTA
737052 ATTAAAAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 15
0.74 0.08 0.17
Matches are distributed among these distances:
29 11 0.17
30 11 0.17
31 9 0.14
32 6 0.09
33 7 0.11
34 8 0.12
35 7 0.11
36 5 0.08
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (33 bp):
TATTTTAATAATTTATTTTATATTTTATATTTA
Found at i:737042 original size:31 final size:31
Alignment explanation
Indices: 736950--737045 Score: 90
Period size: 31 Copynumber: 3.1 Consensus size: 31
736940 TTTATTTTAT
* * * *
736950 ATTTA-TTTATTTTTTATATTATATTTTAATT
1 ATTTATTTTATATTTTATATTAT-TTATCATA
*
736981 ATTT-TTTTATATTATAT-TTATGTTTTATCATA
1 ATTTATTTTATATTTTATATTA---TTTATCATA
737013 ATTTATTTTATATTTTATATTATTTATCATA
1 ATTTATTTTATATTTTATATTATTTATCATA
737044 AT
1 AT
737046 AATTTAATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
30 3 0.06
31 25 0.47
32 9 0.17
33 13 0.25
34 3 0.06
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (31 bp):
ATTTATTTTATATTTTATATTATTTATCATA
Found at i:739108 original size:17 final size:17
Alignment explanation
Indices: 739086--739124 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
739076 GATGTTGTTG
* *
739086 TAATAACAAAATATTGA
1 TAATAACAAAACAATGA
*
739103 TAATAATAAAACAATGA
1 TAATAACAAAACAATGA
739120 TAATA
1 TAATA
739125 TTATGAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (17 bp):
TAATAACAAAACAATGA
Found at i:741811 original size:33 final size:33
Alignment explanation
Indices: 741721--741813 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
741711 GATAAAAAGG
** *
741721 TAATAA-AAAAATATTTATTATTTTAAATTTAA
1 TAATAATAAAAATAAATATTATTTTTAATTTAA
* * *
741753 TAATAATATAGATGAATATTATTTTTAATTTAA
1 TAATAATAAAAATAAATATTATTTTTAATTTAA
*
741786 TAATATTAAAAATAAATATTATTTTTAA
1 TAATAATAAAAATAAATATTATTTTTAA
741814 AATTTTTTAA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 6 0.12
33 44 0.88
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (33 bp):
TAATAATAAAAATAAATATTATTTTTAATTTAA
Found at i:744163 original size:19 final size:18
Alignment explanation
Indices: 744138--744185 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
744128 GATAAAAATA
**
744138 TTTTTAATTATATTTTAT
1 TTTTTAATTATAACTTAT
*
744156 TATTTTAATTTTAACTTAT
1 T-TTTTAATTATAACTTAT
744175 TTTTTAATTAT
1 TTTTTAATTAT
744186 TATTAAAGCG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTAATTATAACTTAT
Found at i:744959 original size:24 final size:24
Alignment explanation
Indices: 744898--744964 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
744888 TGTCTATAAT
* * * *
744898 TAAAAAAATTTGAGTAAAAATTAA
1 TAAAAAAAATTAATTAATAATTAA
744922 TAAAAAATAA-TAATTAATAATTAA
1 TAAAAAA-AATTAATTAATAATTAA
744946 TAAAAAAAATTAATATAAT
1 TAAAAAAAATTAAT-TAAT
744965 TTTTTTCATT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 2 0.06
24 29 0.81
25 5 0.14
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (24 bp):
TAAAAAAAATTAATTAATAATTAA
Found at i:746396 original size:34 final size:34
Alignment explanation
Indices: 746350--746567 Score: 282
Period size: 34 Copynumber: 6.5 Consensus size: 34
746340 GTAAAAACCA
*
746350 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
746384 CCATTTAGTCAACAATGGTAAGCC-ACCAAATCAC
1 CCATTTAATCAACAATGGTAA-CCTACCAAATCTC
* *
746418 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
*
746452 CCATTTAATCAACAATGGTAAGCTACCAAATCT-
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
746485 CCATTTAGTCAACAATGGCAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGG-TAACCTACCAAATCTC
* * *
746519 CCATTTAATCAACAATGGTAAACTACTAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
746552 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
746568 TCTCCCACTT
Statistics
Matches: 162, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
33 45 0.28
34 115 0.71
35 2 0.01
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Done.