Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004114.1 Hibiscus syriacus cultivar Beakdansim tig00009003_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: 1048340
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:562839 original size:268 final size:270
Alignment explanation
Indices: 562353--562950 Score: 857
Period size: 268 Copynumber: 2.2 Consensus size: 270
562343 TATCTAATTT
* * * *
562353 AAAGCCCAACTTCACAACGAATCAGCCACCTACGATTTCAACTTTACAACGAAGGATATCGTACC
1 AAAGCTCAACTTCACAACGAATGAGCCACCTACGATTTCAACTTCACAACGAAGGATATCATACC
* *
562418 CAAAAGATTGAACCAACTTCACGACGAATGAGTCATCTGCAACACAATAATGAAAAACCAATTTC
66 CAAAAGATTGAACCAACTTCACGAAGAATGAGTCATCTGCAACACAACAATGAAAAACCAATTTC
* * * * * * * *
562483 ATGCCAATGTCTTCAGGTCAAATTTCAGCTTCACGGTGAAGTATATTGGGTTATAAGACGATATA
131 ATACCAAAGTCTCCAAGTCAAATTTCAGCTTCACGGCGAAGTATATTGGGCTAGAAGACGATACA
* * *
562548 GGAGTGACTTTCCAATTCTTTGAGCCC-GTTTCAACTTCATGAAAAAGGATATCATGCTCATA-A
196 GGAGCGACTTTCCAATGCTTTGAGCCCGGTTTCAACTTCACGAAAAAGGATATCATGCTCA-AGA
562611 TTTTT-AGTTC
260 TTTTTCAGTTC
*
562621 AAAGCTCAACTTCACAACGAATGAGCCACCTACGATTTCAACTTCACAACGAATGATATCATACC
1 AAAGCTCAACTTCACAACGAATGAGCCACCTACGATTTCAACTTCACAACGAAGGATATCATACC
* * * *
562686 CAACAA-ATTGACCCAACTTCACGAAGAATGAGTCATCTGTAAGACAACAATGAAAAACCAGTTT
66 CAA-AAGATTGAACCAACTTCACGAAGAATGAGTCATCTGCAACACAACAATGAAAAACCAATTT
* *
562750 CATACCAAAGTCTCCAAGTCAAATTTCATCTTCA-GGACGAAGTATATTGGGCTAGAAGATGATA
130 CATACCAAAGTCTCCAAGTCAAATTTCAGCTTCACGG-CGAAGTATATTGGGCTAGAAGACGATA
* **
562814 CAGGCGCGACTTTCCAATGCTTTGAGCCCGGTTTCAACTTCACGACGAAGGATATCATGCTCAAG
194 CAGGAGCGACTTTCCAATGCTTTGAGCCCGGTTTCAACTTCACGAAAAAGGATATCATGCTCAAG
562879 ATTTTTCAGTTC
259 ATTTTTCAGTTC
* *
562891 AAAGCTCAACTTCACAACAAATGAGCCA-CTCACGATTTCAACTTCACAAAGAAGGATATC
1 AAAGCTCAACTTCACAACGAATGAGCCACCT-ACGATTTCAACTTCACAACGAAGGATATC
562951 GTGCCCAATG
Statistics
Matches: 294, Mismatches: 30, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
267 2 0.01
268 193 0.66
269 40 0.14
270 59 0.20
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (270 bp):
AAAGCTCAACTTCACAACGAATGAGCCACCTACGATTTCAACTTCACAACGAAGGATATCATACC
CAAAAGATTGAACCAACTTCACGAAGAATGAGTCATCTGCAACACAACAATGAAAAACCAATTTC
ATACCAAAGTCTCCAAGTCAAATTTCAGCTTCACGGCGAAGTATATTGGGCTAGAAGACGATACA
GGAGCGACTTTCCAATGCTTTGAGCCCGGTTTCAACTTCACGAAAAAGGATATCATGCTCAAGAT
TTTTCAGTTC
Found at i:563812 original size:17 final size:17
Alignment explanation
Indices: 563790--563823 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
563780 TCTCTTTAGA
563790 TTATTTATTTAATTATT
1 TTATTTATTTAATTATT
563807 TTATTTATTTAATTATT
1 TTATTTATTTAATTATT
563824 ATCTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTATTTAATTATT
Found at i:563924 original size:16 final size:15
Alignment explanation
Indices: 563904--563965 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 15
563894 TATTTCCCTT
563904 TTTTATTTTGTTTTA
1 TTTTATTTTGTTTTA
563919 TCTTTATTTTCGCACTTTTTTA
1 T-TTTATTTT-G-----TTTTA
563941 TTTTATTTTGTTTTA
1 TTTTATTTTGTTTTA
563956 TTTTTATTTT
1 -TTTTATTTT
563966 CTATTTTAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 15
0.72 0.00 0.28
Matches are distributed among these distances:
15 6 0.15
16 17 0.44
17 1 0.03
20 1 0.03
21 8 0.21
22 6 0.15
ACGTcount: A:0.13, C:0.06, G:0.05, T:0.76
Consensus pattern (15 bp):
TTTTATTTTGTTTTA
Found at i:563996 original size:17 final size:17
Alignment explanation
Indices: 563951--563998 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
563941 TTTTATTTTG
* *
563951 TTTTATTTTTATTTTCTA
1 TTTTATTATT-TTTTATA
**
563969 TTTTAACATTTTTTATA
1 TTTTATTATTTTTTATA
563986 TTTTATTATTTTT
1 TTTTATTATTTTT
563999 CTTTTCTGAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTATTATTTTTTATA
Found at i:566767 original size:41 final size:41
Alignment explanation
Indices: 566703--566824 Score: 199
Period size: 41 Copynumber: 3.0 Consensus size: 41
566693 ACCAATGGTG
* *
566703 CTGAACATTGATACACAAATGTACCGAAGCTGAACTGATAA
1 CTGAACATTGATACACGAATGTACCAAAGCTGAACTGATAA
* * *
566744 TTGAACATTGATACACGAGTGTACCAAAGCTGAATTGATAA
1 CTGAACATTGATACACGAATGTACCAAAGCTGAACTGATAA
566785 CTGAACATTGATACACGAATGTACCAAAGCTGAACTGATA
1 CTGAACATTGATACACGAATGTACCAAAGCTGAACTGATA
566825 TGTACTCACT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (41 bp):
CTGAACATTGATACACGAATGTACCAAAGCTGAACTGATAA
Found at i:569249 original size:20 final size:20
Alignment explanation
Indices: 569226--569274 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
569216 GATACACATG
569226 GCATTTAAACCAATTAAATT
1 GCATTTAAACCAATTAAATT
569246 GCATTTAAACCAATTAAATT
1 GCATTTAAACCAATTAAATT
*
569266 GAATTTAAA
1 GCATTTAAA
569275 ATTCAATTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (20 bp):
GCATTTAAACCAATTAAATT
Found at i:571346 original size:4 final size:4
Alignment explanation
Indices: 571339--571446 Score: 55
Period size: 4 Copynumber: 27.5 Consensus size: 4
571329 AAACAAACAT
** * **
571339 ATAA ATAA ATTC A-AA ATAA ATAA ATAA A-AGC ATAA ATTC A-AA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA
* * * * *
571385 ATGA ATAA ATAA TTCGAA ATAA ATAA ATAA ATAA A-AC A-AA ATTA TTAA
1 ATAA ATAA ATAA AT--AA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
*
571433 AGAA ATAA ATAA AT
1 ATAA ATAA ATAA AT
571447 TATTCAAAAT
Statistics
Matches: 75, Mismatches: 22, Indels: 14
0.68 0.20 0.13
Matches are distributed among these distances:
3 7 0.09
4 64 0.85
5 1 0.01
6 3 0.04
ACGTcount: A:0.67, C:0.05, G:0.04, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:571373 original size:27 final size:25
Alignment explanation
Indices: 571341--571415 Score: 93
Period size: 27 Copynumber: 3.0 Consensus size: 25
571331 ACAAACATAT
571341 AAATAAATTCAAAATAAATAAATAA
1 AAATAAATTCAAAATAAATAAATAA
*
571366 AAGCATAAATTCAAAATAAATGAAT--
1 AA--ATAAATTCAAAATAAATAAATAA
*
571391 AAAT-AATTCGAAATAAATAAATAA
1 AAATAAATTCAAAATAAATAAATAA
571415 A
1 A
571416 TAAAACAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
22 16 0.37
23 2 0.05
24 1 0.02
25 4 0.09
27 20 0.47
ACGTcount: A:0.67, C:0.05, G:0.04, T:0.24
Consensus pattern (25 bp):
AAATAAATTCAAAATAAATAAATAA
Found at i:571404 original size:22 final size:22
Alignment explanation
Indices: 571339--571418 Score: 88
Period size: 22 Copynumber: 3.4 Consensus size: 22
571329 AAACAAACAT
571339 ATAAATAAATTCAAAATAAATAA
1 ATAAAT-AATTCAAAATAAATAA
*
571362 ATAAAAGCATAAATTCAAAATAAATGA
1 AT--AA--AT-AATTCAAAATAAATAA
*
571389 ATAAATAATTCGAAATAAATAA
1 ATAAATAATTCAAAATAAATAA
571411 ATAAATAA
1 ATAAATAA
571419 AACAAAATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
22 22 0.44
23 4 0.08
25 4 0.08
27 20 0.40
ACGTcount: A:0.66, C:0.05, G:0.04, T:0.25
Consensus pattern (22 bp):
ATAAATAATTCAAAATAAATAA
Found at i:571455 original size:30 final size:30
Alignment explanation
Indices: 571391--571463 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
571381 ATAAATGAAT
*
571391 AAATAATTCGAAATAAATAAATAAATAAAACA
1 AAATAATT--AAAGAAATAAATAAATAAAACA
* * **
571423 AAATTATTAAAGAAATAAATAAATTATTCA
1 AAATAATTAAAGAAATAAATAAATAAAACA
571453 AAATAATTAAA
1 AAATAATTAAA
571464 AAAAATTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 28 0.80
32 7 0.20
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATAATTAAAGAAATAAATAAATAAAACA
Found at i:574216 original size:23 final size:22
Alignment explanation
Indices: 574181--574223 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
574171 ATAATTATTT
574181 AAAAAATTAAATAAAAAATACC
1 AAAAAATTAAATAAAAAATACC
*
574203 AAAAATATTTAATAAAAAATA
1 AAAAA-ATTAAATAAAAAATA
574224 AATTTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAAAATTAAATAAAAAATACC
Found at i:577489 original size:13 final size:13
Alignment explanation
Indices: 577471--577496 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
577461 TTTATACATC
577471 ATTAGGAAGACTT
1 ATTAGGAAGACTT
577484 ATTAGGAAGACTT
1 ATTAGGAAGACTT
577497 GTGATGAGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
ATTAGGAAGACTT
Found at i:590887 original size:34 final size:34
Alignment explanation
Indices: 590846--590977 Score: 246
Period size: 34 Copynumber: 3.9 Consensus size: 34
590836 CTTCATTTTC
* *
590846 TTCCTTATTCATTCATTCTTCCATATTCTCCTTT
1 TTCCTTATTCATTCATTCTTCCATCTTCTCATTT
590880 TTCCTTATTCATTCATTCTTCCATCTTCTCATTT
1 TTCCTTATTCATTCATTCTTCCATCTTCTCATTT
590914 TTCCTTATTCATTCATTCTTCCATCTTCTCATTT
1 TTCCTTATTCATTCATTCTTCCATCTTCTCATTT
590948 TTCCTTATTCATTCATTCTTCCATCTTCTC
1 TTCCTTATTCATTCATTCTTCCATCTTCTC
590978 CTCAAAGTTT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 96 1.00
ACGTcount: A:0.14, C:0.30, G:0.00, T:0.55
Consensus pattern (34 bp):
TTCCTTATTCATTCATTCTTCCATCTTCTCATTT
Found at i:592669 original size:32 final size:32
Alignment explanation
Indices: 592603--592715 Score: 174
Period size: 32 Copynumber: 3.6 Consensus size: 32
592593 ATACTAGTAA
* * *
592603 TGTTGCATTCAAATAATACAAAACA-TGTCAG
1 TGTTGCATTCAGATAATGCACAACAGTGTCAG
592634 TGTTGCATTCAGATAATGCACAACAGTGTCAG
1 TGTTGCATTCAGATAATGCACAACAGTGTCAG
*
592666 TGTTGCATTCAGATAATGCACAACAGAGTCAG
1 TGTTGCATTCAGATAATGCACAACAGTGTCAG
*
592698 TGTTGTATTCAGATAATG
1 TGTTGCATTCAGATAATG
592716 TATATATGTT
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 22 0.29
32 54 0.71
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (32 bp):
TGTTGCATTCAGATAATGCACAACAGTGTCAG
Found at i:598494 original size:26 final size:26
Alignment explanation
Indices: 598465--598516 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
598455 ATCATAAATC
598465 TATGACGCACATTGATGACACGCATT
1 TATGACGCACATTGATGACACGCATT
** * *
598491 TATGATTCACATTTATGACGCGCATT
1 TATGACGCACATTGATGACACGCATT
598517 GAGCATCATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (26 bp):
TATGACGCACATTGATGACACGCATT
Found at i:598602 original size:85 final size:83
Alignment explanation
Indices: 598513--598728 Score: 249
Period size: 85 Copynumber: 2.6 Consensus size: 83
598503 TTATGACGCG
*
598513 CATTGAGCATCATTGAAGCCCCCGTCATAAATTAAGATGACACACATTTATGTGTCATAAATTTA
1 CATTGAGCATCATTGAAGCACCCGTCATAAATTAAGATGACACACATTTATGTGTCATAAATTTA
598578 TGACACGCATGTATGACTTA
66 TGACA--CATGTATGACTTA
* * * * * *
598598 CATTGAGCGTCATTGAAACTCCCGTCATAAATCT--GCTTGACATACATTTTTGTGTCATAAATT
1 CATTGAGCATCATTGAAGCACCCGTCATAAAT-TAAG-ATGACACACATTTATGTGTCATAAATT
598661 TATGACACATGTATGACTTA
64 TATGACACATGTATGACTTA
*** * * *
598681 CATTGTTTATCATTGAAGCACACGTCATTAAA-AAAGACGACACACATT
1 CATTGAGCATCATTGAAGCACCCGTCA-TAAATTAAGATGACACACATT
598729 CGTGATTCGT
Statistics
Matches: 109, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
83 42 0.39
84 6 0.06
85 60 0.55
86 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (83 bp):
CATTGAGCATCATTGAAGCACCCGTCATAAATTAAGATGACACACATTTATGTGTCATAAATTTA
TGACACATGTATGACTTA
Found at i:602735 original size:138 final size:138
Alignment explanation
Indices: 602487--602763 Score: 545
Period size: 138 Copynumber: 2.0 Consensus size: 138
602477 TCCGAAGCAT
602487 TTCTCACATACAGTAACTGATCAATAGCATTAATAACATAAAACTCACCACCGAGTATAGATACA
1 TTCTCACATACAGTAACTGATCAATAGCATTAATAACATAAAACTCACCACCGAGTATAGATACA
602552 GACAAAATTAAATAGAAATGCCAATAAAACCTGCTAACAACCATATGACTAAAGGGATTTGTGCA
66 GACAAAATTAAATAGAAATGCCAATAAAACCTGCTAACAACCATATGACTAAAGGGATTTGTGCA
602617 CATACGTG
131 CATACGTG
*
602625 TTCTCACATACAGTAACTGATCAATAGCATTAATAACATAAAACTCACCACTGAGTATAGATACA
1 TTCTCACATACAGTAACTGATCAATAGCATTAATAACATAAAACTCACCACCGAGTATAGATACA
602690 GACAAAATTAAATAGAAATGCCAATAAAACCTGCTAACAACCATATGACTAAAGGGATTTGTGCA
66 GACAAAATTAAATAGAAATGCCAATAAAACCTGCTAACAACCATATGACTAAAGGGATTTGTGCA
602755 CATACGTG
131 CATACGTG
602763 T
1 T
602764 GTTCTGCACC
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 138 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (138 bp):
TTCTCACATACAGTAACTGATCAATAGCATTAATAACATAAAACTCACCACCGAGTATAGATACA
GACAAAATTAAATAGAAATGCCAATAAAACCTGCTAACAACCATATGACTAAAGGGATTTGTGCA
CATACGTG
Found at i:604318 original size:18 final size:18
Alignment explanation
Indices: 604295--604333 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
604285 TAAGGGACTC
604295 CATATTGAGATTCATACG
1 CATATTGAGATTCATACG
604313 CATATTGAGATTCATACG
1 CATATTGAGATTCATACG
604331 CAT
1 CAT
604334 TTGGTGGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (18 bp):
CATATTGAGATTCATACG
Found at i:611009 original size:30 final size:29
Alignment explanation
Indices: 610942--611042 Score: 136
Period size: 28 Copynumber: 3.5 Consensus size: 29
610932 AAAAAAATTG
610942 AATACTTTAGGTATCTATTTTGACC-AAA
1 AATACTTTAGGTATCTATTTTGACCAAAA
610970 AATACTTTAGGTATCTATTTTGACCAAAA
1 AATACTTTAGGTATCTATTTTGACCAAAA
* *
610999 AATAACTTTAGATA-CTTATTTTGA-TAAAA
1 AAT-ACTTTAGGTATC-TATTTTGACCAAAA
611028 AACTACTTTAGGTAT
1 AA-TACTTTAGGTAT
611043 TTAAATGAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 8
0.86 0.04 0.11
Matches are distributed among these distances:
28 25 0.38
29 22 0.34
30 18 0.28
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.40
Consensus pattern (29 bp):
AATACTTTAGGTATCTATTTTGACCAAAA
Found at i:611364 original size:22 final size:23
Alignment explanation
Indices: 611339--611383 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
611329 AGCAAAATTT
611339 GCCAAAAAACAAGGG-AAACCCC
1 GCCAAAAAACAAGGGAAAACCCC
611361 GCCAAAAAACAAGGGAAAACCCC
1 GCCAAAAAACAAGGGAAAACCCC
611384 TAATAGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.51, C:0.31, G:0.18, T:0.00
Consensus pattern (23 bp):
GCCAAAAAACAAGGGAAAACCCC
Found at i:614113 original size:221 final size:221
Alignment explanation
Indices: 613720--614149 Score: 646
Period size: 221 Copynumber: 1.9 Consensus size: 221
613710 ACCTCAGTAA
* * * * *
613720 CCAAATCAACACTCACACCATAGAGATTAGCCAGTTGTTGAGCCTCCTACTGAGCCCTCTTATCA
1 CCAAATCAACACTCACACCAGAGAGACTAGCCAATTGTTGAGCCTCCAACTGAGCCCTCTGATCA
**
613785 GTAACTCTATATAGTAAACCACCAAAATGGGTCTTATTAAACTCCCTCAAACAAGCCTTCAACCT
66 ACAACTCTATATAGTAAACCACCAAAATGGGTCTTATTAAACTCCCTCAAACAAGCCTTCAACCT
* * * *
613850 TTTGAGCTTAAAGAACAAAATCTGCAACGAATCACACACACACTCAGCCTCCTAAGAATTAGAAA
131 TCTAAGCTTAAAGAACAAAATCTGCAACGAATCACACACACACTCAACCTCCCAAGAATTAGAAA
*
613915 CACCAGTTTTAAACTCTGGGGTTAAG
196 CAACAGTTTTAAACTCTGGGGTTAAG
* * *
613941 CCAAATCAACACTCACACCAGATAGACTAGCTAATTGTTGAGCCTCCAACTGGGCCCTCTGATCA
1 CCAAATCAACACTCACACCAGAGAGACTAGCCAATTGTTGAGCCTCCAACTGAGCCCTCTGATCA
* * *
614006 ACAACTCTATGTAGTAAACCACCAAAATGGGTCTTATTAAACTCCCTTAGACAAGCCTTCAACCT
66 ACAACTCTATATAGTAAACCACCAAAATGGGTCTTATTAAACTCCCTCAAACAAGCCTTCAACCT
* * * *
614071 TCTAAG-TTTAAGAAACAAAATCTGCAATGGATCACCCACACACTCAACCTCCCAAGAATTAGAA
131 TCTAAGCTTAAAG-AACAAAATCTGCAACGAATCACACACACACTCAACCTCCCAAGAATTAGAA
614135 ACAACAGTTTTAAAC
195 ACAACAGTTTTAAAC
614150 AACTCTATGA
Statistics
Matches: 186, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
220 5 0.03
221 181 0.97
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.24
Consensus pattern (221 bp):
CCAAATCAACACTCACACCAGAGAGACTAGCCAATTGTTGAGCCTCCAACTGAGCCCTCTGATCA
ACAACTCTATATAGTAAACCACCAAAATGGGTCTTATTAAACTCCCTCAAACAAGCCTTCAACCT
TCTAAGCTTAAAGAACAAAATCTGCAACGAATCACACACACACTCAACCTCCCAAGAATTAGAAA
CAACAGTTTTAAACTCTGGGGTTAAG
Found at i:614659 original size:29 final size:28
Alignment explanation
Indices: 614561--614659 Score: 74
Period size: 33 Copynumber: 3.2 Consensus size: 28
614551 AACTTTTAAA
*
614561 ATTAATTTTTTAAAAATATTAA-AAAAATT
1 ATTAATTTTTTAAAAATA--AATAAACATT
*
614590 ATTATTCACTTTTTTAAAAATAAATAAATATT
1 ATTA---A-TTTTTTAAAAATAAATAAACATT
614622 AAATTTTAATTTTATTAAAAATAAATAAACATT
1 --A--TTAATTTT-TTAAAAATAAATAAACATT
614655 ATTAA
1 ATTAA
614660 CTGTAAAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 20
0.73 0.03 0.25
Matches are distributed among these distances:
29 8 0.14
31 3 0.05
32 11 0.19
33 32 0.55
34 1 0.02
36 3 0.05
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (28 bp):
ATTAATTTTTTAAAAATAAATAAACATT
Found at i:615196 original size:21 final size:20
Alignment explanation
Indices: 615172--615242 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 20
615162 TTACATTATA
615172 TTTTTATTGAATTTTATTCAT
1 TTTTTATT-AATTTTATTCAT
* *
615193 TTTTAATTCATTTTTATTGCA-
1 TTTTTATT-AATTTTATT-CAT
*
615214 TTTTTATTTATTTTA-T-AT
1 TTTTTATTAATTTTATTCAT
615232 TTTTTA-TAATT
1 TTTTTATTAATT
615243 AATATTATAA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
17 5 0.12
18 6 0.15
19 1 0.02
20 5 0.12
21 22 0.54
22 2 0.05
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTTTATTAATTTTATTCAT
Found at i:615218 original size:22 final size:20
Alignment explanation
Indices: 615171--615232 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
615161 TTTACATTAT
* *
615171 ATTTTTATTGAATTTTATTC
1 ATTTTTATTCATTTTTATTC
615191 ATTTTTAATTCATTTTTATTGC
1 ATTTTT-ATTCATTTTTATT-C
*
615213 ATTTTTATTTATTTTATATT
1 ATTTTTATTCATTTT-TATT
615233 TTTTATAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 6 0.17
21 19 0.53
22 11 0.31
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (20 bp):
ATTTTTATTCATTTTTATTC
Found at i:615226 original size:10 final size:10
Alignment explanation
Indices: 615171--615232 Score: 70
Period size: 11 Copynumber: 5.9 Consensus size: 10
615161 TTTACATTAT
*
615171 ATTTTTATTG
1 ATTTTTATTC
*
615181 AATTTTATTC
1 ATTTTTATTC
615191 ATTTTTAATTC
1 ATTTTT-ATTC
615202 ATTTTTATTGC
1 ATTTTTATT-C
*
615213 ATTTTTATTT
1 ATTTTTATTC
615223 ATTTTATATT
1 ATTTT-TATT
615233 TTTTATAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
10 21 0.47
11 24 0.53
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTTTATTC
Found at i:620050 original size:222 final size:222
Alignment explanation
Indices: 619664--620109 Score: 694
Period size: 222 Copynumber: 2.0 Consensus size: 222
619654 ACCTCATCAT
*
619664 CCAAATCAACACTCACACCAGAGAGATTAGCCAGTTGCTGAGCCTCCAGCTAAACACTCTTATCA
1 CCAAATCAACACTCACACCAGAGAGATTAGCCAGTTGCTGAGCCTCCAACTAAACACTCTTATCA
* * * * *
619729 GCAACTCTATGTAGTAAATCACCAAAATGGGTCTTATTAAACTCCCTCAGACAAACCTTCAACCT
66 GCAACGCGATGCAATAAACCACCAAAATGGGTCTTATTAAACTCCCTCAGACAAACCTTCAACCT
* * *
619794 TTTAAACTTAAGGAACAAAATCTGCAATGGATCACACACACACTCAGCCTCCCAAGAATTAGAAA
131 TTTAAACTTAAGGAACAAAATCTGAAACGGATCACACACACACTCAGCCTACCAAGAATTAGAAA
619859 CAACAGTTTTAAACTCCGGGTGTTGAG
196 CAACAGTTTTAAACTCCGGGTGTTGAG
* * * *
619886 CCAAATCAACACTCACACCAGAGAGATTAGCCAGTTGTTGAGCCTCCAACTGAGCCCTCTTATCA
1 CCAAATCAACACTCACACCAGAGAGATTAGCCAGTTGCTGAGCCTCCAACTAAACACTCTTATCA
* * *
619951 GCAACGCGATGCAATAAACCATCAAAATGGGTCTTATTAAACTCCCTTAGACAAACCTTTAACCT
66 GCAACGCGATGCAATAAACCACCAAAATGGGTCTTATTAAACTCCCTCAGACAAACCTTCAACCT
* ** *
620016 TTTGAGTTTAAGGAACAAAATCTGAAACGGATCACCCACACACTCAGCCTACCAAGAATTAGAAA
131 TTTAAACTTAAGGAACAAAATCTGAAACGGATCACACACACACTCAGCCTACCAAGAATTAGAAA
* *
620081 CAACGGTTTTAAACTCCGGTTGTTGAG
196 CAACAGTTTTAAACTCCGGGTGTTGAG
620108 CC
1 CC
620110 CTAAAATTAA
Statistics
Matches: 202, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
222 202 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (222 bp):
CCAAATCAACACTCACACCAGAGAGATTAGCCAGTTGCTGAGCCTCCAACTAAACACTCTTATCA
GCAACGCGATGCAATAAACCACCAAAATGGGTCTTATTAAACTCCCTCAGACAAACCTTCAACCT
TTTAAACTTAAGGAACAAAATCTGAAACGGATCACACACACACTCAGCCTACCAAGAATTAGAAA
CAACAGTTTTAAACTCCGGGTGTTGAG
Found at i:621764 original size:14 final size:14
Alignment explanation
Indices: 621745--621774 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
621735 GTGGAATTCT
621745 AAATATTTAAATAA
1 AAATATTTAAATAA
*
621759 AAATATTTATATAA
1 AAATATTTAAATAA
621773 AA
1 AA
621775 TTCATCGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATATTTAAATAA
Found at i:621835 original size:22 final size:21
Alignment explanation
Indices: 621807--621858 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
621797 TTATTTTTAA
621807 TATATATACTTTTAATAAAATT
1 TATATATACTTTTAATAAAA-T
* *
621829 TATATATAATTTTTTATAAAAT
1 TATATAT-ACTTTTAATAAAAT
621851 TATATATA
1 TATATATA
621859 AATTGGTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 15 0.56
23 11 0.41
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TATATATACTTTTAATAAAAT
Found at i:621859 original size:22 final size:23
Alignment explanation
Indices: 621806--621859 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
621796 ATTATTTTTA
621806 ATATATATACTTTTAATAAAATTT
1 ATATATA-ACTTTTAATAAAATTT
* *
621830 ATATATAATTTTTTATAAAA-TT
1 ATATATAACTTTTAATAAAATTT
621852 ATATATAA
1 ATATATAA
621860 ATTGGTAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 10 0.36
23 11 0.39
24 7 0.25
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
ATATATAACTTTTAATAAAATTT
Found at i:627317 original size:34 final size:35
Alignment explanation
Indices: 627278--627345 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
627268 GTATATATAA
* *
627278 TATAATATA-GTTTTTGAATATATTTTTGAAAACG
1 TATAATATATGATTTTGAAAATATTTTTGAAAACG
627312 TATAATATATGATTTTGAAAATATTTTTGAAAAC
1 TATAATATATGATTTTGAAAATATTTTTGAAAAC
627346 ATTTTTGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 9 0.29
35 22 0.71
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (35 bp):
TATAATATATGATTTTGAAAATATTTTTGAAAACG
Found at i:627340 original size:47 final size:47
Alignment explanation
Indices: 627288--627469 Score: 159
Period size: 47 Copynumber: 4.0 Consensus size: 47
627278 TATAATATAG
627288 TTTTTGAATATATTTTTGAAAACGTATA-ATATATGATTTTGAAAATA
1 TTTTTGAATATATTTTTGAAAACGTATATA-ATATGATTTTGAAAATA
* * *
627335 TTTTTGAAAACATTTTTGAAAACGTATATAATATGATTTTGAAAATG
1 TTTTTGAATATATTTTTGAAAACGTATATAATATGATTTTGAAAATA
* * ** *
627382 TATAT-AATATGGTTTTGAAAACG-------TATGATTTTGAAAACA
1 TTTTTGAATATATTTTTGAAAACGTATATAATATGATTTTGAAAATA
*
627421 TTTTTGAAAACGTATGGTTTTGAAAACGTATATAATAT-AGTTTTGAAAA
1 TTTTTGAATA--TAT--TTTTGAAAACGTATATAATATGA-TTTTGAAAA
627470 AAAATTTGAA
Statistics
Matches: 105, Mismatches: 16, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
39 17 0.16
40 3 0.03
42 1 0.01
44 11 0.10
46 14 0.13
47 45 0.43
48 1 0.01
50 1 0.01
51 12 0.11
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.42
Consensus pattern (47 bp):
TTTTTGAATATATTTTTGAAAACGTATATAATATGATTTTGAAAATA
Found at i:627355 original size:12 final size:12
Alignment explanation
Indices: 627324--627357 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
627314 TAATATATGA
*
627324 TTTTGAAAATAT
1 TTTTGAAAACAT
627336 TTTTGAAAACAT
1 TTTTGAAAACAT
627348 TTTTGAAAAC
1 TTTTGAAAAC
627358 GTATATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (12 bp):
TTTTGAAAACAT
Found at i:627378 original size:23 final size:23
Alignment explanation
Indices: 627348--627407 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
627338 TTGAAAACAT
627348 TTTTGAAAACGTATATAATATGA
1 TTTTGAAAACGTATATAATATGA
* *
627371 TTTTGAAAATGTATATAATATGG
1 TTTTGAAAACGTATATAATATGA
627394 TTTTGAAAACGTAT
1 TTTTGAAAACGTAT
627408 GATTTTGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (23 bp):
TTTTGAAAACGTATATAATATGA
Found at i:627413 original size:16 final size:16
Alignment explanation
Indices: 627389--627451 Score: 89
Period size: 16 Copynumber: 4.2 Consensus size: 16
627379 ATGTATATAA
627389 TATGGTTTTGAAAACG
1 TATGGTTTTGAAAACG
*
627405 TATGATTTTGAAAAC-
1 TATGGTTTTGAAAACG
627420 -AT--TTTTGAAAACG
1 TATGGTTTTGAAAACG
627433 TATGGTTTTGAAAACG
1 TATGGTTTTGAAAACG
627449 TAT
1 TAT
627452 ATAATATAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
12 10 0.24
14 4 0.10
16 28 0.67
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (16 bp):
TATGGTTTTGAAAACG
Found at i:627433 original size:28 final size:28
Alignment explanation
Indices: 627394--627447 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
627384 TATAATATGG
627394 TTTTGAAAACGTATGATTTTGAAAACAT
1 TTTTGAAAACGTATGATTTTGAAAACAT
*
627422 TTTTGAAAACGTATGGTTTTGAAAAC
1 TTTTGAAAACGTATGATTTTGAAAAC
627448 GTATATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (28 bp):
TTTTGAAAACGTATGATTTTGAAAACAT
Found at i:627562 original size:17 final size:17
Alignment explanation
Indices: 627540--627623 Score: 71
Period size: 19 Copynumber: 4.6 Consensus size: 17
627530 ATAATATATG
627540 TTATATAGTTTT-TATTA
1 TTATATA-TTTTATATTA
627557 TTATATATTATTTATATTA
1 TTATATA-T-TTTATATTA
*
627576 TTATTTATTTTATATTTA
1 TTATATATTTTATA-TTA
**
627594 TTATATTATGATATATTA
1 TTATA-TATTTTATATTA
*
627612 TTTATTTATTTT
1 -TTATATATTTT
627624 TTAATAGGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
17 14 0.26
18 18 0.33
19 22 0.41
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
TTATATATTTTATATTA
Found at i:627564 original size:28 final size:28
Alignment explanation
Indices: 627550--627618 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 28
627540 TTATATAGTT
627550 TTTATTATTATATATTATTTATATTATTA
1 TTTATT-TTATATATTATTTATATTATTA
627579 TTTATTTTATATTTATTATATTATGATATATTA
1 TTTATTTTATA--TATTAT-TTAT-AT-TATTA
627612 TTTATTT
1 TTTATTT
627619 ATTTTTTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
28 5 0.14
29 6 0.17
30 6 0.17
31 4 0.11
32 2 0.06
33 12 0.34
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (28 bp):
TTTATTTTATATATTATTTATATTATTA
Found at i:627597 original size:26 final size:27
Alignment explanation
Indices: 627550--627621 Score: 94
Period size: 26 Copynumber: 2.7 Consensus size: 27
627540 TTATATAGTT
*
627550 TTTATTATTATATATTATTTATATTATTA
1 TTTATTATTATAT-TTA-TTATATTATGA
627579 TTTATT-TTATATTTATTATATTATGA
1 TTTATTATTATATTTATTATATTATGA
*
627605 TATATTATT-TATTTATT
1 TTTATTATTATATTTATT
627622 TTTTAATAGG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 23 0.57
27 5 0.12
28 6 0.15
29 6 0.15
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (27 bp):
TTTATTATTATATTTATTATATTATGA
Found at i:635972 original size:20 final size:21
Alignment explanation
Indices: 635936--635981 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
635926 ATCGACTTAA
*
635936 CTTC-ACAATGAATGAGTCAT
1 CTTCAACAATGAAGGAGTCAT
*
635956 CTTCAACAATG-AGGAGTTAT
1 CTTCAACAATGAAGGAGTCAT
635976 C-TCAAC
1 CTTCAAC
635982 TAAAGTCATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.22
20 12 0.52
21 6 0.26
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (21 bp):
CTTCAACAATGAAGGAGTCAT
Found at i:636594 original size:23 final size:23
Alignment explanation
Indices: 636564--636624 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
636554 TTTTGAAAAC
636564 GTTTTGAAAACATATATAATATA
1 GTTTTGAAAACATATATAATATA
*
636587 GTTTTGAAAACGTATATAATATA
1 GTTTTGAAAACATATATAATATA
636610 GTTTTGAAAACATAT
1 GTTTTGAAAACATAT
636625 TTTGAAAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.39
Consensus pattern (23 bp):
GTTTTGAAAACATATATAATATA
Found at i:636629 original size:13 final size:13
Alignment explanation
Indices: 636611--636637 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
636601 TATAATATAG
636611 TTTTGAAAACATA
1 TTTTGAAAACATA
636624 TTTTGAAAACATA
1 TTTTGAAAACATA
636637 T
1 T
636638 ATAAATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (13 bp):
TTTTGAAAACATA
Found at i:636745 original size:26 final size:25
Alignment explanation
Indices: 636695--636748 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
636685 TATATAGTTT
*
636695 TTATTATTATTATATATTATTTATA
1 TTATTATTATTATATATTATCTATA
*
636720 TTATTATTTATTTTATATT-TACTATA
1 TTATTA-TTATTATATATTAT-CTATA
636746 TTA
1 TTA
636749 GGATATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
TTATTATTATTATATATTATCTATA
Found at i:636776 original size:12 final size:11
Alignment explanation
Indices: 636694--636787 Score: 63
Period size: 12 Copynumber: 8.6 Consensus size: 11
636684 TTATATAGTT
636694 TTTA-TTATTA
1 TTTATTTATTA
*
636704 -TTATATATTA
1 TTTATTTATTA
636714 TTTATATTATTA
1 TTTAT-TTATTA
636726 TTTATTT-TATA
1 TTTATTTAT-TA
*
636737 TTTACTATATTA
1 TTTA-TTTATTA
** *
636749 -GGATATATTA
1 TTTATTTATTA
636759 TTTATTTATTAA
1 TTTATTTATT-A
*
636771 TTTATTTAAT-
1 TTTATTTATTA
636781 TTTATTT
1 TTTATTT
636788 TTTTAACAGG
Statistics
Matches: 67, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
9 3 0.04
10 20 0.30
11 19 0.28
12 24 0.36
13 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:639469 original size:4 final size:4
Alignment explanation
Indices: 639460--639500 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
639450 TTAGATTATA
*
639460 AAAT AAAT AAAT AAAT AAAT AAAT -ATT AAAT AAAT CAAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT A
639501 GATTTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 2 0.06
4 27 0.82
5 4 0.12
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:639644 original size:9 final size:9
Alignment explanation
Indices: 639632--639661 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
639622 ATTTTAAAGG
639632 AAATAAAAA
1 AAATAAAAA
639641 AAATAAAAA
1 AAATAAAAA
639650 AAATAAATAA
1 AAATAAA-AA
639660 AA
1 AA
639662 GATTTAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.80
10 4 0.20
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (9 bp):
AAATAAAAA
Found at i:640916 original size:22 final size:22
Alignment explanation
Indices: 640870--641026 Score: 102
Period size: 23 Copynumber: 6.8 Consensus size: 22
640860 ATTGGACCTG
* *
640870 TAAAAATGAAATTAAATAAATAAA
1 TAAAAAT-AAAATATAT-AATAAA
*
640894 TAAAAATAAAATATGTAATAAA
1 TAAAAATAAAATATATAATAAA
* *
640916 TATAAATATAATAATATAATAAA
1 TAAAAATAAAAT-ATATAATAAA
* * *
640939 TATAATATATATATAATATAA-GAA
1 TA-AAAATA-AAAT-ATATAATAAA
*
640963 TAAGAATAAGAATATATAATAAA
1 TAAAAATAA-AATATATAATAAA
*
640986 TAATAAATAATATTAATATAATAAA
1 TAA-AAATAA-AAT-ATATAATAAA
* *
641011 T-AATATAATATATATA
1 TAAAAATAAAATATATA
641027 TACATACTAT
Statistics
Matches: 105, Mismatches: 21, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
21 5 0.05
22 24 0.23
23 33 0.31
24 23 0.22
25 20 0.19
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (22 bp):
TAAAAATAAAATATATAATAAA
Found at i:640916 original size:30 final size:29
Alignment explanation
Indices: 640882--641020 Score: 92
Period size: 30 Copynumber: 4.6 Consensus size: 29
640872 AAAATGAAAT
640882 TAAATAAATAAATAA-AAATAAAATATGTAA
1 TAAATAAATAAATAATAAAT-AAATAT-TAA
640912 TAAATATAAATATAATAATATAATAAATA-TAA
1 T-AA-ATAAATA-AATAATA-AATAAATATTAA
* * *
640944 TATATATATAATATAA-GAATAAGA-A-TAA
1 TAAATAAATAA-ATAATAAATAA-ATATTAA
*
640972 GAATATATAATAAATAATAAAT-AATATTAA
1 TAA-ATA-AATAAATAATAAATAAATATTAA
641002 TATAATAAATAATATAATA
1 TA-AATAAATAA-ATAATA
641021 TATATATACA
Statistics
Matches: 87, Mismatches: 8, Indels: 28
0.71 0.07 0.23
Matches are distributed among these distances:
28 11 0.13
29 16 0.18
30 31 0.36
31 4 0.05
32 11 0.13
33 5 0.06
34 6 0.07
35 3 0.03
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (29 bp):
TAAATAAATAAATAATAAATAAATATTAA
Found at i:640924 original size:17 final size:16
Alignment explanation
Indices: 640897--640957 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 16
640887 AAATAAATAA
640897 AAATA-AAATATGTAAT
1 AAATATAAATAT-TAAT
640913 AAATATAAATA-TAAT
1 AAATATAAATATTAAT
640928 AATATAATAAATA-TAAT
1 AA-AT-ATAAATATTAAT
*
640945 ATATATATAATAT
1 AAATATA-AATAT
640958 AAGAATAAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
15 9 0.23
16 13 0.33
17 17 0.44
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
AAATATAAATATTAAT
Found at i:640997 original size:52 final size:53
Alignment explanation
Indices: 640884--641111 Score: 143
Period size: 52 Copynumber: 4.3 Consensus size: 53
640874 AATGAAATTA
* * * * *
640884 AATAAATAA-ATAAAAATAAAATATGTAATA-AATATAAATATA-ATAATATAAT
1 AATAAATAATATATATATAATATAAG-AATAGAATATAGATATATATAATA-AAT
*
640936 AA-ATATAATATATATATAATATAAGAATAAGAATA-AGA-ATATATAATAAAT
1 AATAAATAATATATATATAATATAAGAAT-AGAATATAGATATATATAATAAAT
* * * * * *
640987 AATAAATAATAT-TAATATAATA-AATAATATAATATATATATACATACTATAT
1 AATAAATAATATAT-ATATAATATAAGAATAGAATATAGATATATATAATAAAT
* * * * *
641039 AATAAAT-ATATAT-TATAATATATGTAATATAAAATATATATGTATAATAATAT
1 AATAAATAATATATATATAATATAAG-AATAGAATATAGATATATATAATAA-AT
* *
641092 TATATATAGATATATTATAT
1 AATAAATA-ATATA-TATAT
641112 GTATACTATA
Statistics
Matches: 138, Mismatches: 22, Indels: 27
0.74 0.12 0.14
Matches are distributed among these distances:
50 12 0.09
51 29 0.21
52 77 0.56
53 11 0.08
55 5 0.04
56 1 0.01
57 3 0.02
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (53 bp):
AATAAATAATATATATATAATATAAGAATAGAATATAGATATATATAATAAAT
Found at i:641023 original size:75 final size:69
Alignment explanation
Indices: 640892--641105 Score: 193
Period size: 72 Copynumber: 3.0 Consensus size: 69
640882 TAAATAAATA
*
640892 AATAAAAATAAAATATGTAATAAATATAAATATAATAATATAATAAATATAATATATATATAATA
1 AATAAAAATAAAATATATAATAAATATAAATATAATAATATAATAAATATAATATATATATAATA
640957 TAAG
66 TAAG
* *
640961 AATAAGAATAAGAATATATAATAAATAATAAATAATATTAATATAAT-AA-ATAATATA-ATATA
1 AATAAAAATAA-AATATATAATAAAT-ATAAAT-ATAATAATATAATAAATATAATATATATATA
*
641023 TATATACAT
63 -ATATA-AG
* * * * **
641032 ACTATATAATAAATATATATTATAATATATGTAATATAA-AATATATATGTATAATAATATTATA
1 AATA-AAAATAAA-ATATATAATAA-ATAT-AAATATAATAATATA-ATAAAT-ATAATA-TATA
641096 TATAGATATA
59 TATA-ATATA
641106 TTATATGTAT
Statistics
Matches: 119, Mismatches: 11, Indels: 22
0.78 0.07 0.14
Matches are distributed among these distances:
69 15 0.13
70 26 0.22
71 19 0.16
72 35 0.29
73 6 0.05
75 6 0.05
76 2 0.02
77 10 0.08
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.36
Consensus pattern (69 bp):
AATAAAAATAAAATATATAATAAATATAAATATAATAATATAATAAATATAATATATATATAATA
TAAG
Found at i:641105 original size:21 final size:21
Alignment explanation
Indices: 641034--641105 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
641024 ATATACATAC
641034 TATATA-ATA-AATATATATTA
1 TATATAGATATAATA-ATATTA
* * **
641054 TA-ATATATGTAAT-ATAAAA
1 TATATAGATATAATAATATTA
641073 TATATATG-TATAATAATATTA
1 TATATA-GATATAATAATATTA
641094 TATATAGATATA
1 TATATAGATATA
641106 TTATATGTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
19 9 0.23
20 13 0.33
21 17 0.44
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (21 bp):
TATATAGATATAATAATATTA
Found at i:641239 original size:52 final size:52
Alignment explanation
Indices: 640911--641239 Score: 170
Period size: 48 Copynumber: 6.5 Consensus size: 52
640901 AAAATATGTA
* * * *
640911 ATAAATATAAATATAATAATATAATAAATATAATATATATATAATATAA-GAATAAGA
1 ATAAATATATATATACT-AT-TAAT-AATAT-ATATATATATAATATAATTAAT-A-T
* *
640968 ATAAGA-ATATATA-A-TA--AATAATAAATA-ATAT-TAATATAATAAATAAT
1 ATAA-ATATATATATACTATTAATAATATATATATATATAATATAATTAAT-AT
641015 ATAATATATATATACATACTATATAATAA-ATATATAT-TATAATAT-ATGTAATAT
1 ATAA-ATATATAT--ATACTAT-TAATAATATATATATATATAATATAAT-TAATAT
* * * * *
641069 A-AAATATATATGTA-TAATAATATTATATATAGATATATTAT-ATGT-ATACT
1 ATAAATATATATATACTATTAATAATATATATATATATAATATAAT-TAATA-T
* *
641119 ATATAA-ATCTATA-ACT-TT-ATAATATA-ATATATA-ACTATATAA-TAATGT
1 ATA-AATATATATATACTATTAATAATATATATATATATA--ATATAATTAATAT
* *
641167 AT-ACTATATA-ATA-TAATAATAATATATATACTATATAATATAATTAATAT
1 ATAAATATATATATACTATTAATAATATATATA-TATATAATATAATTAATAT
641217 ATAAATATATATATACT-TTAATA
1 ATAAATATATATATACTATTAATA
641240 TATTCCCGAA
Statistics
Matches: 213, Mismatches: 25, Indels: 73
0.68 0.08 0.23
Matches are distributed among these distances:
46 3 0.01
47 20 0.09
48 38 0.18
49 36 0.17
50 34 0.16
51 19 0.09
52 20 0.09
53 3 0.01
54 11 0.05
55 17 0.08
56 1 0.00
57 10 0.05
58 1 0.00
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (52 bp):
ATAAATATATATATACTATTAATAATATATATATATATAATATAATTAATAT
Found at i:641242 original size:2 final size:2
Alignment explanation
Indices: 640974--641231 Score: 110
Period size: 2 Copynumber: 141.5 Consensus size: 2
640964 AAGAATAAGA
* * *
640974 AT AT AT A- AT AA AT A- AT AA AT A- AT AT -T A- AT AT A- AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
641010 AT A- AT AT A- AT AT AT AT AT AC AT ACT AT AT A- AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
* * *
641050 AT -T AT A- AT AT AT GT A- AT AT A- AA AT AT AT AT GT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
641087 A- AT AT -T AT AT AT AG AT AT AT -T AT AT GT AT ACT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* *
641127 CT AT A- ACT TT AT A- AT AT A- AT AT AT A- ACT AT AT A- AT A- AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
*
641165 GT AT ACT AT AT A- AT AT A- AT A- AT A- AT AT AT AT ACT AT AT A-
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
*
641204 AT AT A- AT -T A- AT AT AT AA AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
641232 CTTTAATATA
Statistics
Matches: 190, Mismatches: 29, Indels: 74
0.65 0.10 0.25
Matches are distributed among these distances:
1 31 0.16
2 150 0.79
3 9 0.05
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (2 bp):
AT
Found at i:642102 original size:21 final size:21
Alignment explanation
Indices: 642078--642143 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 21
642068 ACAACTCGTA
642078 AATTGCACCGAAGTGCCAAAT
1 AATTGCACCGAAGTGCCAAAT
*
642099 AATTGTC-CCGAAG-GACCATAT
1 AATTG-CACCGAAGTG-CCAAAT
* *
642120 AGGTTTGCACCAAAGTGCCAAAT
1 A--ATTGCACCGAAGTGCCAAAT
642143 A
1 A
642144 TTTGTTCCGA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
20 1 0.03
21 17 0.49
22 2 0.06
23 14 0.40
24 1 0.03
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (21 bp):
AATTGCACCGAAGTGCCAAAT
Found at i:642838 original size:20 final size:20
Alignment explanation
Indices: 642813--642862 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
642803 CTTGAAAATG
642813 GTATCGATACCATACCCA-TA
1 GTATCGATACC-TACCCACTA
642833 GTATCGATA-CTACCCACTTA
1 GTATCGATACCTACCCAC-TA
642853 GTATCGATAC
1 GTATCGATAC
642863 ATTCTGCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 6 0.22
19 1 0.04
20 20 0.74
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (20 bp):
GTATCGATACCTACCCACTA
Found at i:643542 original size:31 final size:31
Alignment explanation
Indices: 643499--643563 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
643489 CTTTATCATG
*
643499 AAAATACCATATTGCCCTCTCCAATATACCA
1 AAAAGACCATATTGCCCTCTCCAATATACCA
*
643530 AAAAGACCATATTTCCCTCTCCAATATACCA
1 AAAAGACCATATTGCCCTCTCCAATATACCA
643561 AAA
1 AAA
643564 TTGCTATTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.42, C:0.31, G:0.03, T:0.25
Consensus pattern (31 bp):
AAAAGACCATATTGCCCTCTCCAATATACCA
Found at i:657293 original size:19 final size:21
Alignment explanation
Indices: 657271--657313 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
657261 AGCTTTTATA
657271 TCTCTCA-TTT-CATTTTCTT
1 TCTCTCATTTTCCATTTTCTT
657290 TCTCTCATTTTCCATTTTCTT
1 TCTCTCATTTTCCATTTTCTT
657311 TCT
1 TCT
657314 TCTGTTAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 7 0.32
20 3 0.14
21 12 0.55
ACGTcount: A:0.09, C:0.28, G:0.00, T:0.63
Consensus pattern (21 bp):
TCTCTCATTTTCCATTTTCTT
Found at i:660019 original size:19 final size:19
Alignment explanation
Indices: 659981--660025 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
659971 CAAGAGCATT
* **
659981 TATTTTCATTTAAATTATG
1 TATTTTCATTAAAAACATG
660000 TATTTTCATTAAAAACATG
1 TATTTTCATTAAAAACATG
*
660019 TGTTTTC
1 TATTTTC
660026 GAAGGGGTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (19 bp):
TATTTTCATTAAAAACATG
Found at i:660360 original size:14 final size:14
Alignment explanation
Indices: 660341--660380 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
660331 TATAAGATAC
660341 TATTTCCATCACCA
1 TATTTCCATCACCA
660355 TATTTCCATCACCA
1 TATTTCCATCACCA
*
660369 TAGTT-CATCACC
1 TATTTCCATCACC
660381 TTCACGCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 7 0.28
14 18 0.72
ACGTcount: A:0.28, C:0.35, G:0.03, T:0.35
Consensus pattern (14 bp):
TATTTCCATCACCA
Found at i:661047 original size:16 final size:16
Alignment explanation
Indices: 661013--661061 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
661003 GTAAGTTATC
* * *
661013 TTCATTTGCTTACTAT
1 TTCATTTTCTTATTCT
661029 TTCATTTTCTTATTCT
1 TTCATTTTCTTATTCT
661045 TTCATCTATTCTTATTC
1 TTCAT-T-TTCTTATTC
661062 CATTGCCTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 18 0.64
17 1 0.04
18 9 0.32
ACGTcount: A:0.16, C:0.20, G:0.02, T:0.61
Consensus pattern (16 bp):
TTCATTTTCTTATTCT
Found at i:664497 original size:14 final size:14
Alignment explanation
Indices: 664478--664517 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
664468 TATAAGATAC
664478 TATTTCCATCACCA
1 TATTTCCATCACCA
664492 TATTTCCATCACCA
1 TATTTCCATCACCA
*
664506 TAGTT-CATCACC
1 TATTTCCATCACC
664518 TTCAAGCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 7 0.28
14 18 0.72
ACGTcount: A:0.28, C:0.35, G:0.03, T:0.35
Consensus pattern (14 bp):
TATTTCCATCACCA
Found at i:669515 original size:23 final size:22
Alignment explanation
Indices: 669459--669517 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 22
669449 AATTCTAAAA
669459 AAAACTAAAAATCCTAAATAAT
1 AAAACTAAAAATCCTAAATAAT
*
669481 AAATATTAAAAATCCTAAATAAT
1 AAA-ACTAAAAATCCTAAATAAT
669504 AGTAAACTAAAAAT
1 A--AAACTAAAAAT
669518 TCTATGCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 3 0.09
23 19 0.59
24 8 0.25
25 2 0.06
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.25
Consensus pattern (22 bp):
AAAACTAAAAATCCTAAATAAT
Found at i:674607 original size:14 final size:13
Alignment explanation
Indices: 674588--674641 Score: 51
Period size: 12 Copynumber: 4.3 Consensus size: 13
674578 ATTGACATCA
674588 TATATATTAATATG
1 TATATATT-ATATG
*
674602 TATATAATATA-G
1 TATATATTATATG
*
674614 TTTATATTATAT-
1 TATATATTATATG
*
674626 TATATA-TATTTG
1 TATATATTATATG
674638 TATA
1 TATA
674642 ATTTCCATCC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
11 4 0.12
12 19 0.58
13 3 0.09
14 7 0.21
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (13 bp):
TATATATTATATG
Found at i:676199 original size:47 final size:47
Alignment explanation
Indices: 676098--676204 Score: 121
Period size: 49 Copynumber: 2.2 Consensus size: 47
676088 TTATTTATTA
* * *
676098 AAAAGCATGAGAACTAGAAGAATATGCGGTTAGGTTTTATATTTTCAT
1 AAAAGCATGAGAACTAGAAAAATAT-CGGTTAGGATTTATATTGTCAT
676146 ACAAAGCAT-ATGAACTAGAAAAATAT-GGTTAGGATTTAT-TTGTCAAAT
1 A-AAAGCATGA-GAACTAGAAAAATATCGGTTAGGATTTATATTGTC--AT
676194 AAAAGCATGAG
1 AAAAGCATGAG
676205 GGTAAATATC
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
46 4 0.08
47 20 0.39
48 6 0.12
49 21 0.41
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (47 bp):
AAAAGCATGAGAACTAGAAAAATATCGGTTAGGATTTATATTGTCAT
Found at i:679146 original size:18 final size:18
Alignment explanation
Indices: 679099--679165 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 18
679089 TCAACATGCA
* *
679099 TTTACATTTTATTTACAT
1 TTTATATTTTATTTACTT
* *
679117 TTCA-AGTTTATTTACTT
1 TTTATATTTTATTTACTT
679134 TTTATATTTTATTTGTA-TT
1 TTTATATTTTA-TT-TACTT
679153 TTTATA-TTTATTT
1 TTTATATTTTATTT
679166 GTATTTGGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
16 1 0.02
17 16 0.39
18 12 0.29
19 10 0.24
20 2 0.05
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTATATTTTATTTACTT
Found at i:679166 original size:18 final size:19
Alignment explanation
Indices: 679132--679171 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
679122 GTTTATTTAC
679132 TTTTTATATTTTATTTGTA
1 TTTTTATATTTTATTTGTA
679151 TTTTTATA-TTTATTTGTA
1 TTTTTATATTTTATTTGTA
679169 TTT
1 TTT
679172 GGAATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (19 bp):
TTTTTATATTTTATTTGTA
Found at i:679183 original size:18 final size:18
Alignment explanation
Indices: 679141--679179 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
679131 CTTTTTATAT
**
679141 TTTATTTGTATTTTTATA
1 TTTATTTGTATTTGGATA
679159 TTTATTTGTATTTGGA-A
1 TTTATTTGTATTTGGATA
679176 TTTA
1 TTTA
679180 ATTTTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (18 bp):
TTTATTTGTATTTGGATA
Found at i:686127 original size:14 final size:12
Alignment explanation
Indices: 686108--686180 Score: 51
Period size: 13 Copynumber: 5.8 Consensus size: 12
686098 CACGTACCTG
686108 AAGAAAAAAGGGAA
1 AAGAAAAAA--GAA
686122 AAGAAAAAAGAA
1 AAGAAAAAAGAA
*
686134 AATGAAAAAATAA
1 AA-GAAAAAAGAA
686147 AA-AAAGAAA-AA
1 AAGAAA-AAAGAA
* *
686158 ATAAAAAGAAAAAA
1 A-AGAAA-AAAGAA
686172 AAGAAAAAA
1 AAGAAAAAA
686181 TAAATGCAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
11 6 0.12
12 12 0.23
13 22 0.42
14 12 0.23
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (12 bp):
AAGAAAAAAGAA
Found at i:686130 original size:7 final size:7
Alignment explanation
Indices: 686108--686180 Score: 67
Period size: 7 Copynumber: 10.3 Consensus size: 7
686098 CACGTACCTG
686108 AAGAAAA
1 AAGAAAA
**
686115 AAGGGAA
1 AAGAAAA
686122 AAGAAAA
1 AAGAAAA
686129 AAG-AAA
1 AAGAAAA
*
686135 ATGAAAA
1 AAGAAAA
*
686142 AATAAAAA
1 AA-GAAAA
686150 AAGAAAA
1 AAGAAAA
*
686157 AATAAAA
1 AAGAAAA
*
686164 AGAAAAAA
1 A-AGAAAA
686172 AAGAAAA
1 AAGAAAA
686179 AA
1 AA
686181 TAAATGCAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
6 5 0.10
7 35 0.67
8 12 0.23
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (7 bp):
AAGAAAA
Found at i:686143 original size:15 final size:13
Alignment explanation
Indices: 686120--686178 Score: 64
Period size: 13 Copynumber: 4.3 Consensus size: 13
686110 GAAAAAAGGG
*
686120 AAAAGAAAAAAGA
1 AAAAGAAAAAAAA
*
686133 AAATGAAAAAATAAA
1 AAAAG-AAAAA-AAA
*
686148 AAAAGAAAAAATA
1 AAAAGAAAAAAAA
686161 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
686174 GAAAA
1 -AAAA
686179 AATAAATGCA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
13 18 0.47
14 14 0.37
15 6 0.16
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (13 bp):
AAAAGAAAAAAAA
Found at i:686149 original size:21 final size:20
Alignment explanation
Indices: 686125--686184 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 20
686115 AAGGGAAAAG
686125 AAAAAAGAAAATGAAAAAATA
1 AAAAAAGAAAA-GAAAAAATA
*
686146 AAAAAAGAAAA-AATAAA-A
1 AAAAAAGAAAAGAAAAAATA
*
686164 AGAAAA-AAAAGAAAAAATA
1 AAAAAAGAAAAGAAAAAATA
686183 AA
1 AA
686185 TGCAATGGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.12
18 11 0.33
19 7 0.21
21 11 0.33
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.07
Consensus pattern (20 bp):
AAAAAAGAAAAGAAAAAATA
Found at i:686151 original size:28 final size:29
Alignment explanation
Indices: 686111--686180 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
686101 GTACCTGAAG
** *
686111 AAAAAAGGGAAAAGAAAAAAGAAAATGAA
1 AAAAAAGAAAAAAGAAAAAAGAAAAAGAA
* *
686140 AAAATA-AAAAAAGAAAAAATAAAAAGAA
1 AAAAAAGAAAAAAGAAAAAAGAAAAAGAA
686168 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
686181 TAAATGCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 23 0.68
29 11 0.32
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (29 bp):
AAAAAAGAAAAAAGAAAAAAGAAAAAGAA
Found at i:686157 original size:22 final size:21
Alignment explanation
Indices: 686125--686184 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 21
686115 AAGGGAAAAG
686125 AAAAAAG-AAAATGAAAAA-ATA
1 AAAAAAGAAAAAT-AAAAAGA-A
686146 AAAAAAGAAAAAATAAAAAGAA
1 AAAAAAG-AAAAATAAAAAGAA
686168 AAAAAAGAAAAAATAAA
1 AAAAAAG-AAAAATAAA
686185 TGCAATGGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.19
22 23 0.64
23 6 0.17
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.07
Consensus pattern (21 bp):
AAAAAAGAAAAATAAAAAGAA
Found at i:686179 original size:15 final size:15
Alignment explanation
Indices: 686125--686179 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
686115 AAGGGAAAAG
*
686125 AAAAAAGAAAATGAA
1 AAAAAAGAAAAAGAA
686140 AAAATAA-AAAAAG--
1 AAAA-AAGAAAAAGAA
*
686153 AAAAAATAAAAAGAA
1 AAAAAAGAAAAAGAA
686168 AAAAAAGAAAAA
1 AAAAAAGAAAAA
686180 ATAAATGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
12 2 0.06
13 10 0.29
15 20 0.59
16 2 0.06
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.05
Consensus pattern (15 bp):
AAAAAAGAAAAAGAA
Found at i:689677 original size:22 final size:20
Alignment explanation
Indices: 689652--689693 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
689642 TATTAATATG
689652 TATATA-ATATA-GTTTACA
1 TATATATATATATGTTTACA
*
689670 TATATATATATATGTTTTCA
1 TATATATATATATGTTTACA
689690 TATA
1 TATA
689694 GTTTGCTTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 5 0.24
20 10 0.48
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (20 bp):
TATATATATATATGTTTACA
Found at i:689683 original size:32 final size:31
Alignment explanation
Indices: 689636--689697 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
689626 ACATTGGCAT
689636 CATATATATTAATATGTATATAATATAGTTTA
1 CATATATATTAATATGT-TATAATATAGTTTA
* *
689668 CATATATA-TATATATGTTTTCATATAGTTT
1 CATATATATTA-ATATGTTATAATATAGTTT
689698 GCTTCCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.50
Consensus pattern (31 bp):
CATATATATTAATATGTTATAATATAGTTTA
Found at i:693717 original size:20 final size:19
Alignment explanation
Indices: 693692--693731 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
693682 AAAGATTAGA
*
693692 TTATTCAATCTAATCTAATC
1 TTATTCAATCCAATC-AATC
693712 TTATTCAATCCAATCAATC
1 TTATTCAATCCAATCAATC
693731 T
1 T
693732 AATTTTACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (19 bp):
TTATTCAATCCAATCAATC
Found at i:697217 original size:66 final size:66
Alignment explanation
Indices: 697143--697270 Score: 220
Period size: 66 Copynumber: 1.9 Consensus size: 66
697133 AAATAGAGAC
* * * *
697143 TATAATTAATAATGTTTTCCTAAAGTATCTATTATTTATTGTTTTAATTATTTAATATATATATA
1 TATAATTAATAATGTTTTACTAAAGTATCTAATATTTACTATTTTAATTATTTAATATATATATA
697208 A
66 A
697209 TATAATTAATAATGTTTTACTAAAGTATCTAATATTTACTATTTTAATTATTTAATATATAT
1 TATAATTAATAATGTTTTACTAAAGTATCTAATATTTACTATTTTAATTATTTAATATATAT
697271 GTATGTAACG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (66 bp):
TATAATTAATAATGTTTTACTAAAGTATCTAATATTTACTATTTTAATTATTTAATATATATATA
A
Found at i:702999 original size:39 final size:40
Alignment explanation
Indices: 702913--702999 Score: 99
Period size: 39 Copynumber: 2.2 Consensus size: 40
702903 TATTAGTGAA
*
702913 AAATAATTTAAGAAATTAAGAATTTAGAATGTTATGGTAG
1 AAATAATTTAAGAAATTAAGAATTTAGAAAGTTATGGTAG
* * * *
702953 CAA-AATTTAATAAATTAGGAATTTTGAAAGTTA-GAGT-G
1 AAATAATTTAAGAAATTAAGAATTTAGAAAGTTATG-GTAG
702991 AAATAATTT
1 AAATAATTT
703000 GAAAAATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
38 4 0.10
39 33 0.85
40 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.16, T:0.36
Consensus pattern (40 bp):
AAATAATTTAAGAAATTAAGAATTTAGAAAGTTATGGTAG
Found at i:703036 original size:17 final size:17
Alignment explanation
Indices: 703004--703042 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
702994 TAATTTGAAA
703004 AATAT-AAATAAAAAATT
1 AATATAAAATAAAAAA-T
703021 AATATAAAAT-AAAAAT
1 AATATAAAATAAAAAAT
703037 AATATA
1 AATATA
703043 TATATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 10 0.48
18 4 0.19
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AATATAAAATAAAAAAT
Found at i:703043 original size:18 final size:18
Alignment explanation
Indices: 703004--703046 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
702994 TAATTTGAAA
*
703004 AATAT-AAATAAAAAATT
1 AATATAAAATAAAAAAAT
703021 AATATAAAATAAAAATAAT
1 AATATAAAATAAAAA-AAT
703040 ATATATA
1 A-ATATA
703047 TATAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 9 0.41
19 3 0.14
20 5 0.23
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AATATAAAATAAAAAAAT
Found at i:704249 original size:20 final size:20
Alignment explanation
Indices: 704224--704272 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
704214 AGAAACCTTT
704224 AGAAGATGTAAATTCCAAGG
1 AGAAGATGTAAATTCCAAGG
704244 AGAAGATGTAAATTCCAAGG
1 AGAAGATGTAAATTCCAAGG
*
704264 AGAGGATGT
1 AGAAGATGT
704273 GTGAAGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.43, C:0.08, G:0.29, T:0.20
Consensus pattern (20 bp):
AGAAGATGTAAATTCCAAGG
Found at i:705106 original size:27 final size:27
Alignment explanation
Indices: 705064--705120 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
705054 AGCTAAGTTC
*
705064 AGGACTAAGGGAAGCTGGAGGTAGCTG
1 AGGACTAAGGGAAGCTAGAGGTAGCTG
*
705091 AGGACTAAGGGCAGCTAGAGGTAGCTG
1 AGGACTAAGGGAAGCTAGAGGTAGCTG
705118 AGG
1 AGG
705121 TGGAAGCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.12, G:0.44, T:0.14
Consensus pattern (27 bp):
AGGACTAAGGGAAGCTAGAGGTAGCTG
Found at i:705172 original size:23 final size:23
Alignment explanation
Indices: 705146--705198 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
705136 TGGAGTGTAA
705146 CTAGCTAGCTATCTTGTGTTTAC
1 CTAGCTAGCTATCTTGTGTTTAC
705169 CTAGCTAGCTATCTTGTGTTTAC
1 CTAGCTAGCTATCTTGTGTTTAC
705192 CTAGCTA
1 CTAGCTA
705199 ATACTCACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.42
Consensus pattern (23 bp):
CTAGCTAGCTATCTTGTGTTTAC
Found at i:706735 original size:25 final size:25
Alignment explanation
Indices: 706693--706757 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
706683 AATTTGACTT
706693 GACTCGACTCAAAATTTATAAAACC
1 GACTCGACTCAAAATTTATAAAACC
*
706718 GACTCGACT-AAAATTTTATAAAATC
1 GACTCGACTCAAAA-TTTATAAAACC
706743 GACTCGACTCGAAAA
1 GACTCGACTC-AAAA
706758 AAAATTCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
24 4 0.11
25 28 0.78
27 4 0.11
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.25
Consensus pattern (25 bp):
GACTCGACTCAAAATTTATAAAACC
Found at i:708990 original size:65 final size:64
Alignment explanation
Indices: 708865--709000 Score: 184
Period size: 65 Copynumber: 2.1 Consensus size: 64
708855 ACACCCTATT
* * *
708865 TCGAATGCATTTTGTATACCGATGCACAGCCATGCATCGATGCACTCTTGATTTTATTGAAACA
1 TCGAATGCATTTTATATACCGATGCACAGCCATGCATCGATGCACTCTGGATCTTATTGAAACA
* * *
708929 TCGAATGCATTTTATGTACCGATGCATAGACCATGCATCGATGCACTCATGGCTCTT-TTGAAAC
1 TCGAATGCATTTTATATACCGATGCACAG-CCATGCATCGATGCACTC-TGGATCTTATTGAAAC
708993 A
64 A
*
708994 TTGAATG
1 TCGAATG
709001 TAATTAGTGT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
64 26 0.41
65 32 0.51
66 5 0.08
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (64 bp):
TCGAATGCATTTTATATACCGATGCACAGCCATGCATCGATGCACTCTGGATCTTATTGAAACA
Found at i:709012 original size:65 final size:64
Alignment explanation
Indices: 708865--709020 Score: 172
Period size: 65 Copynumber: 2.4 Consensus size: 64
708855 ACACCCTATT
* * * * *
708865 TCGAATGCATTTTGTATACCGATGCACAGCCATGCATCGATGCACTCTTGATTTTATTGAAACA
1 TCGAATGCATATTATGTACCGATGCACAGCCATGCATCGATGCACTCTGGATCTTATTGAAACA
* * *
708929 TCGAATGCATTTTATGTACCGATGCATAGACCATGCATCGATGCACTCATGGCTCTT-TTGAAAC
1 TCGAATGCATATTATGTACCGATGCACAG-CCATGCATCGATGCACTC-TGGATCTTATTGAAAC
708993 A
64 A
* * *
708994 TTGAATGTA-ATTAGTGTACTGATGCAC
1 TCGAATGCATATTA-TGTACCGATGCAC
709021 CCCTAGTGTA
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 29 0.37
65 44 0.56
66 5 0.06
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (64 bp):
TCGAATGCATATTATGTACCGATGCACAGCCATGCATCGATGCACTCTGGATCTTATTGAAACA
Found at i:714843 original size:44 final size:44
Alignment explanation
Indices: 714770--714873 Score: 127
Period size: 44 Copynumber: 2.4 Consensus size: 44
714760 TGTGCACTAT
* * *
714770 GCATCGATACACTATGAAAGTGTATCGATGCATTCCTTGAATAC
1 GCATCGATACACTATGAAAGTGCACCGATGCATACCTTGAATAC
* * * **
714814 GCATTGATACACTTTGAAGGTGCACCGATGCATACCTTGAATGT
1 GCATCGATACACTATGAAAGTGCACCGATGCATACCTTGAATAC
*
714858 ACATCGATACACTATG
1 GCATCGATACACTATG
714874 CAGTGCATCG
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (44 bp):
GCATCGATACACTATGAAAGTGCACCGATGCATACCTTGAATAC
Found at i:718641 original size:20 final size:20
Alignment explanation
Indices: 718616--718665 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
718606 TAAGCCATTC
718616 AGTATCAATATTGACCTC-T
1 AGTATCAATATTGACCTCAT
* *
718635 GAGTATCGATATTGGCCTCAT
1 -AGTATCAATATTGACCTCAT
718656 AGTATCAATA
1 AGTATCAATA
718666 CTAACTGGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (20 bp):
AGTATCAATATTGACCTCAT
Found at i:728573 original size:42 final size:42
Alignment explanation
Indices: 728506--728585 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
728496 ACTTAGTAAG
* *
728506 TCCTTCGGGCCATCAATAAGTCTTTTGAGCATGATGATTAAA
1 TCCTTCGGGCCATCAATAAGCCTTTTGAGCAAGATGATTAAA
* * *
728548 TCCTTTGGGTCATCTATAAGCCTTTTGAGCAAGATGAT
1 TCCTTCGGGCCATCAATAAGCCTTTTGAGCAAGATGAT
728586 AAGTCATTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (42 bp):
TCCTTCGGGCCATCAATAAGCCTTTTGAGCAAGATGATTAAA
Found at i:728628 original size:238 final size:238
Alignment explanation
Indices: 728199--728822 Score: 941
Period size: 238 Copynumber: 2.6 Consensus size: 238
728189 GTAAGCTAAG
* *
728199 CAAATCTTTTTTGAAAATGAAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTTAG
1 CAAATCTTTTATGAAAATGAAATTTTTGAAAAGTAAGAAAGTGATTTCTAAAGTTTCTTACTTAG
* *
728264 TAAGTCCTTCGGCCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATCTATAA
66 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATAA
* * *
728329 GTCTTTCGAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAG
131 GTCTTTCGAGCAAGATGATAAGTCATTCAGCCCATCCATAAGACCTTCGGGCAGAATGTTTTCAG
*
728394 TGATTTTCAAAAAATGAGAAAGCGATTTTCAAAATTTCTCATT
196 TGATTTTCAAAAAATGAGAAAGCGATTTCCAAAATTTCTCATT
* * * *
728437 CAAATCTTTTCTGAAAATGAAAATTTTGAAAAGTAAGAAAGCGATTTCTAAAGTTTCGTACTTAG
1 CAAATCTTTTATGAAAATGAAATTTTTGAAAAGTAAGAAAGTGATTTCTAAAGTTTCTTACTTAG
* * *
728502 TAAGTCCTTCGGGCCATCAATAAGTCTTTTGAGCATGATGATTAAATCCTTTGGGTCATCTATAA
66 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATAA
* * *
728567 GCCTTTTGAGCAAGATGATAAGTCATTCAGCCCATCCATAAGACCCTT-GGGCATAATGTTTTCA
131 GTCTTTCGAGCAAGATGATAAGTCATTCAGCCCATCCATAAGA-CCTTCGGGCAGAATGTTTTCA
*
728631 GTGATTTTCAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATT
195 GTGATTTTCAAAAAATGAGAAAGCGATTTCCAAAATTTCTCATT
* *
728675 -TAATCTTTTATGAAAAATGAAATTTTTG-AAAGTAAGAAAGTGATTT-TCAAGGTTTCTTACTT
1 CAAATCTTTTATG-AAAATGAAATTTTTGAAAAGTAAGAAAGTGATTTCT-AAAGTTTCTTACTT
*** * * *
728737 AGTAAGTCCTTTAAGCCATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTGT
64 AGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTAT
*
728802 AAGTCTTTCGAACAAGATGAT
129 AAGTCTTTCGAGCAAGATGAT
728823 TCGGGTATGA
Statistics
Matches: 347, Mismatches: 36, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
236 1 0.00
237 113 0.33
238 229 0.66
239 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (238 bp):
CAAATCTTTTATGAAAATGAAATTTTTGAAAAGTAAGAAAGTGATTTCTAAAGTTTCTTACTTAG
TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATAA
GTCTTTCGAGCAAGATGATAAGTCATTCAGCCCATCCATAAGACCTTCGGGCAGAATGTTTTCAG
TGATTTTCAAAAAATGAGAAAGCGATTTCCAAAATTTCTCATT
Found at i:728993 original size:210 final size:210
Alignment explanation
Indices: 728622--729032 Score: 641
Period size: 211 Copynumber: 2.0 Consensus size: 210
728612 CTTGGGCATA
*
728622 ATGTTTTCAGTGATTTTCAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATCTTTTATG
1 ATGTTTTCAGTGATTTTCAAAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAATCTTTTATG
* * *
728687 AAAAATGAAATTTTTGAAAGTAAGAAAGTGATTTTCAAGGTTTCTTACTTAGTAAGTCCTTTAAG
66 AAAAATGAAATTTTTGAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCATTTAAG
* * *
728752 CCATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTCAGGTCA-TCTGTAAGTCTTTCGAACA
131 CCATCAGTAAGCCTTCCGAGCATGATGATTAAATCATTCAGGTCATTC-ATAAGTCTTTCGAACA
728816 AGATGATTCGGGTATG
195 AGATGATTCGGGTATG
*
728832 ATGTTTTCAGTGATTTTCAAAAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAAATCTTTTC
1 ATGTTTTCAGTGATTTTC-AAAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTT-AATCTTTTA
728897 TG-AAAATGAAA-TTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCATTT
64 TGAAAAATGAAATTTTTG-AAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCATTT
* * * *
728960 -GGCCATCAGTAAGCCTTCCGTGCATGATGATTAAATCATTCGGGTCATTCATAAGTCTTTCGAG
128 AAGCCATCAGTAAGCCTTCCGAGCATGATGATTAAATCATTCAGGTCATTCATAAGTCTTTCGAA
*
729024 TAAGATGAT
193 CAAGATGAT
729033 AAGTCCTTCG
Statistics
Matches: 184, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
210 85 0.46
211 89 0.48
212 10 0.05
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (210 bp):
ATGTTTTCAGTGATTTTCAAAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAATCTTTTATG
AAAAATGAAATTTTTGAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCATTTAAG
CCATCAGTAAGCCTTCCGAGCATGATGATTAAATCATTCAGGTCATTCATAAGTCTTTCGAACAA
GATGATTCGGGTATG
Found at i:732933 original size:19 final size:20
Alignment explanation
Indices: 732901--732938 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
732891 TTTTCTCATC
732901 TCTTCTTCCTTCTT-TCTTA
1 TCTTCTTCCTTCTTCTCTTA
732920 TCTTCTTCAC-TCTTCTCTT
1 TCTTCTTC-CTTCTTCTCTT
732939 CTTCCAAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.05, C:0.34, G:0.00, T:0.61
Consensus pattern (20 bp):
TCTTCTTCCTTCTTCTCTTA
Found at i:733961 original size:22 final size:21
Alignment explanation
Indices: 733907--733970 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
733897 AGTCGAGGGT
733907 TTCATAGGTCCTTCGGGACAA
1 TTCATAGGTCCTTCGGGACAA
*
733928 CTCATAGGTCCTTCGGGACATA
1 TTCATAGGTCCTTCGGGACA-A
*
733950 TTCACAGGTCCTTCGGGACAA
1 TTCATAGGTCCTTCGGGACAA
733971 ATTTCATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
21 20 0.51
22 19 0.49
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (21 bp):
TTCATAGGTCCTTCGGGACAA
Found at i:734480 original size:11 final size:11
Alignment explanation
Indices: 734466--734502 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
734456 CATTTTTACG
734466 GCAGTACTGTA
1 GCAGTACTGTA
734477 GCAGTACTGTA
1 GCAGTACTGTA
*
734488 ACAGTACTGTA
1 GCAGTACTGTA
734499 GCAG
1 GCAG
734503 GGGAATCGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (11 bp):
GCAGTACTGTA
Found at i:734519 original size:22 final size:22
Alignment explanation
Indices: 734494--734539 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
734484 TGTAACAGTA
*
734494 CTGTAGCAGGGGAATCGGTTCC
1 CTGTAGCAGGGGAATCGATTCC
734516 CTGTAGCAGGGGAATCGATTCC
1 CTGTAGCAGGGGAATCGATTCC
734538 CT
1 CT
734540 ATTTGTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.24
Consensus pattern (22 bp):
CTGTAGCAGGGGAATCGATTCC
Found at i:734589 original size:13 final size:13
Alignment explanation
Indices: 734571--734619 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
734561 ACATTTCGGG
734571 TACTGTAGCAGGT
1 TACTGTAGCAGGT
734584 TACTGTAGCAGGT
1 TACTGTAGCAGGT
*
734597 TACTGT-TCACGG-
1 TACTGTAGCA-GGT
734609 TACTGTAGCAG
1 TACTGTAGCAG
734620 ATTATTGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 9 0.28
13 23 0.72
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (13 bp):
TACTGTAGCAGGT
Found at i:734976 original size:25 final size:23
Alignment explanation
Indices: 734935--734983 Score: 55
Period size: 25 Copynumber: 2.0 Consensus size: 23
734925 CTGATATGGT
*
734935 AATGAGTATGTTGTTTTGCTAATAG
1 AATGAGTATGTTATTTT--TAATAG
734960 AATGA-TATGTTTATTTTTAATAG
1 AATGAGTATG-TTATTTTTAATAG
734983 A
1 A
734984 TGTCCGGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 7 0.32
24 4 0.18
25 11 0.50
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (23 bp):
AATGAGTATGTTATTTTTAATAG
Found at i:739830 original size:19 final size:20
Alignment explanation
Indices: 739798--739835 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
739788 TTTTCTCATC
739798 TCTTCTTCCTTCTT-TCTTA
1 TCTTCTTCCTTCTTATCTTA
739817 TCTTCTTCAC-TCTTATCTT
1 TCTTCTTC-CTTCTTATCTT
739836 CTTCCAAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.08, C:0.32, G:0.00, T:0.61
Consensus pattern (20 bp):
TCTTCTTCCTTCTTATCTTA
Found at i:740834 original size:21 final size:21
Alignment explanation
Indices: 740808--740870 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
740798 GTTGAGGGTT
740808 TCATAGGTCTTTCGGGACAAC
1 TCATAGGTCTTTCGGGACAAC
* *
740829 TCATAGGTCCTTCGGGACAAAT
1 TCATAGGTCTTTCGGGAC-AAC
*
740851 TCACAGGT-TCTTCGGGACAA
1 TCATAGGTCT-TTCGGGACAA
740871 ATTTCATATG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 19 0.53
22 17 0.47
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (21 bp):
TCATAGGTCTTTCGGGACAAC
Found at i:740863 original size:22 final size:22
Alignment explanation
Indices: 740807--740873 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 22
740797 AGTTGAGGGT
* *
740807 TTCATAGGTCTTTCGGGAC-AA
1 TTCACAGGTCCTTCGGGACAAA
* *
740828 CTCATAGGTCCTTCGGGACAAA
1 TTCACAGGTCCTTCGGGACAAA
*
740850 TTCACAGGTTCTTCGGGACAAA
1 TTCACAGGTCCTTCGGGACAAA
740872 TT
1 TT
740874 TCATATGCCA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
21 17 0.43
22 23 0.57
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (22 bp):
TTCACAGGTCCTTCGGGACAAA
Found at i:741380 original size:11 final size:11
Alignment explanation
Indices: 741366--741402 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
741356 CATTTTTACG
741366 GCAGTACTGTA
1 GCAGTACTGTA
741377 GCAGTACTGTA
1 GCAGTACTGTA
* *
741388 ACAGTATTGTA
1 GCAGTACTGTA
741399 GCAG
1 GCAG
741403 GGGAATCGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (11 bp):
GCAGTACTGTA
Found at i:741419 original size:22 final size:22
Alignment explanation
Indices: 741394--741437 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
741384 TGTAACAGTA
*
741394 TTGTAGCAGGGGAATCGGTTCC
1 TTGTAGCAGGGGAATCGATTCC
741416 TTGTAGCAGGGGAATCGATTCC
1 TTGTAGCAGGGGAATCGATTCC
741438 CTATTTGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.27
Consensus pattern (22 bp):
TTGTAGCAGGGGAATCGATTCC
Found at i:741489 original size:13 final size:13
Alignment explanation
Indices: 741471--741507 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
741461 ACATTTCGGG
741471 TACTGTAGCAGGT
1 TACTGTAGCAGGT
741484 TACTGTAGCAGGT
1 TACTGTAGCAGGT
741497 TACTGTAGCAG
1 TACTGTAGCAG
741508 ATTATTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (13 bp):
TACTGTAGCAGGT
Found at i:742602 original size:16 final size:16
Alignment explanation
Indices: 742570--742617 Score: 78
Period size: 16 Copynumber: 2.9 Consensus size: 16
742560 AAAAAATTAA
*
742570 TTCTATTTTATTTTTAC
1 TTCTATTTT-CTTTTAC
742587 TTCTATTTTCTTTTAC
1 TTCTATTTTCTTTTAC
742603 TTCTATTTTCTTTTA
1 TTCTATTTTCTTTTA
742618 TTATTATCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 21 0.70
17 9 0.30
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (16 bp):
TTCTATTTTCTTTTAC
Found at i:743256 original size:30 final size:31
Alignment explanation
Indices: 743187--743256 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
743177 TAACTGAATT
* *
743187 AATCGAACTTTTTTTTCTTAAACCGTTAACCG
1 AATCGAA-TTTTTTTTCTTAAAACATTAACCG
* * *
743219 AACCGAATTTTTTTTC-TAAAATATTAATCG
1 AATCGAATTTTTTTTCTTAAAACATTAACCG
743249 AATCGAAT
1 AATCGAAT
743257 AAATTTCGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 17 0.53
31 9 0.28
32 6 0.19
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (31 bp):
AATCGAATTTTTTTTCTTAAAACATTAACCG
Found at i:743606 original size:181 final size:178
Alignment explanation
Indices: 743307--743688 Score: 572
Period size: 182 Copynumber: 2.1 Consensus size: 178
743297 ATTTTCTAAT
* * * * * *
743307 TTATATAAAAATTAAATGTTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATAATTA
1 TTATATATATATTTAATATTTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATAATTA
743372 TAAATAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAA-TTATTGGAT
66 TAAATAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGAT
*
743436 CTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTTAGCCCATAT-A
131 CTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGA
743483 TTATATATATATTTAATATTTTTTAATTAAAAAAACAGTTTACAATTAATTTAAATAATATATAA
1 TTATATATATATTTAATATTTTTTAATTAAAAAAA-AGTTTACAATTAATTTAAAT-A-ATATAA
* *
743548 TTATAAAAATAAAAATTTTATAT-AATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
63 TTAT--AAAT-AAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
* *
743612 TTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTGAGCCCATATGT
125 TTGGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGA
743666 TATATATAATATATTTAATATTT
1 T-TATAT-ATATATTTAATATTT
743689 AAAATTTAAT
Statistics
Matches: 185, Mismatches: 11, Indels: 11
0.89 0.05 0.05
Matches are distributed among these distances:
176 30 0.16
177 19 0.10
178 1 0.01
179 10 0.05
181 41 0.22
182 63 0.34
183 1 0.01
184 5 0.03
185 15 0.08
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (178 bp):
TTATATATATATTTAATATTTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATAATTA
TAAATAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGAT
CTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGA
Found at i:745396 original size:17 final size:17
Alignment explanation
Indices: 745376--745408 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
745366 CTAACTAACC
*
745376 CTTTTATTTTTTGTTCT
1 CTTTTATTTTGTGTTCT
745393 CTTTTATTTTGTGTTC
1 CTTTTATTTTGTGTTC
745409 ATCGTTTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.09, T:0.73
Consensus pattern (17 bp):
CTTTTATTTTGTGTTCT
Found at i:746049 original size:18 final size:18
Alignment explanation
Indices: 746026--746071 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 18
746016 ATTTAGACAT
746026 TTTGCATTTCTTATTTTC
1 TTTGCATTTCTTATTTTC
*
746044 TTTGCATTTTTTTTATTTTC
1 TTTGCA--TTTCTTATTTTC
746064 TTTGCATT
1 TTTGCATT
746072 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 8 0.32
20 17 0.68
ACGTcount: A:0.11, C:0.13, G:0.07, T:0.70
Consensus pattern (18 bp):
TTTGCATTTCTTATTTTC
Found at i:749885 original size:165 final size:164
Alignment explanation
Indices: 749471--750155 Score: 813
Period size: 165 Copynumber: 4.2 Consensus size: 164
749461 ACCTGCCACC
749471 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
*** * * *
749536 AAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
* *
749601 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTAACCA
* * *
749635 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAAGCACATCATTTGCAGAATAGCTTAAGTCAAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
749700 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
* *
749765 CATAACTCAAGGCTAGGAGGGTTATCTGTGACCAA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTAACC-A
* *
749800 AAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGAATAGCTTAAGTCGA
*
749864 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCA
65 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACA
* * * * *
749929 GCATAACTTAAGTCGAGAATGGTTATCTGCCAACCA
130 GCATAACTCAAGGCTAGAAGGGTTATCTG-TAACCA
** * * * * * * * * * *
749965 AAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTA
1 AAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGA
* ** * * * *
750030 GAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
65 GAAGGGCTATC--TG-CC-AAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
* * * * * *
750094 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCA
126 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCA
** * *
750130 AAGACCCCCGAGTTCGATTACACTCA
1 AAGACCTTCGAGTTCGACTACGCTCA
750156 ACTTCGAGGT
Statistics
Matches: 467, Mismatches: 45, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
164 154 0.33
165 199 0.43
166 40 0.09
167 1 0.00
168 2 0.00
169 46 0.10
170 25 0.05
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (164 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
CATAACTCAAGGCTAGAAGGGTTATCTGTAACCA
Found at i:749996 original size:250 final size:246
Alignment explanation
Indices: 749669--750164 Score: 868
Period size: 250 Copynumber: 2.0 Consensus size: 246
749659 CAGCTCCAAA
*
749669 GCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATT
1 GCACATCATTTGCAGAATAACTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATT
*
749734 ACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGGTTATCTGTGACCA
66 ACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCA
*
749799 AAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGCATAGCTTAAGTCG
131 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCG
*
749863 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGG
195 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGG
* * * *
749915 GCACATCATTTGCAGCATAACTTAAGTCGAGAATGGTTATCTGCCAACCAAAGACCCCCGAGTTC
1 GCACATCATTTGCAGAATAACTTAAGTCAAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTC
749980 GATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTG
62 GATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTG
750045 ACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAG
127 ACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAG
750110 TCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGG
192 TCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGG
750165 TCATATCGTT
Statistics
Matches: 237, Mismatches: 8, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
246 38 0.16
250 196 0.83
251 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (246 bp):
GCACATCATTTGCAGAATAACTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATT
ACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCA
AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGG
Found at i:750804 original size:37 final size:35
Alignment explanation
Indices: 750751--751010 Score: 215
Period size: 37 Copynumber: 7.3 Consensus size: 35
750741 ATATATATAG
*
750751 ATATATAT-ATATTATAGTTTTAAAATATTTTTAAA
1 ATATATATAATA-TATAGTTTTAAAATATTTTGAAA
*
750786 ACCTATATATAATATATAGTTTTGAAAACATGTTTGAAA
1 A--TATATATAATATATAGTTTT-AAAATAT-TTTGAAA
* * * *
750825 ATATTTATATTATATAGTTTTTAAA-GTTTTGAAA
1 ATATATATAATATATAGTTTTAAAATATTTTGAAA
* *
750859 ATA-A-ATAATATATAGTTTTTACATATTTTCGAAA
1 ATATATATAATATATAGTTTTAAAATATTTT-GAAA
* * *
750893 ATATATGTATTATATAGTTTTTAAAGTATTTTGAAA
1 ATATATATAATATATAG-TTTTAAAATATTTTGAAA
* * * * *
750929 ATAAATATACTATATAATTTTTAAAACATTTTTTTTAAA
1 ATATATATAATATAT-AGTTTT-AAA-A-TATTTTGAAA
* * *
750968 A-ATATATATTATATAGTTTTTAAACATTTTGAAA
1 ATATATATAATATATAGTTTTAAAATATTTTGAAA
751002 ATATATATA
1 ATATATATA
751011 GTTTTTAAAA
Statistics
Matches: 181, Mismatches: 29, Indels: 30
0.75 0.12 0.12
Matches are distributed among these distances:
32 17 0.09
33 4 0.02
34 25 0.14
35 11 0.06
36 34 0.19
37 54 0.30
38 20 0.11
39 16 0.09
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (35 bp):
ATATATATAATATATAGTTTTAAAATATTTTGAAA
Found at i:750911 original size:36 final size:35
Alignment explanation
Indices: 750751--751010 Score: 242
Period size: 36 Copynumber: 7.3 Consensus size: 35
750741 ATATATATAG
* *
750751 ATATATATA-TATTATAGTTTTAAAATATTTTTAAA
1 ATATATATATTA-TATAGTTTTTAAATATTTTGAAA
* * *
750786 ACCTATATATAATATATAGTTTTGAAAACATGTTTGAAA
1 A--TATATATATTATATAGTTTT-TAAATAT-TTTGAAA
* *
750825 ATATTTATATTATATAGTTTTTAAA-GTTTTGAAA
1 ATATATATATTATATAGTTTTTAAATATTTTGAAA
* *
750859 ATA-A-ATAATATATAGTTTTTACATATTTTCGAAA
1 ATATATATATTATATAGTTTTTAAATATTTT-GAAA
*
750893 ATATATGTATTATATAGTTTTTAAAGTATTTTGAAA
1 ATATATATATTATATAGTTTTTAAA-TATTTTGAAA
* * * * *
750929 ATAAATATACTATATAATTTTTAAAACATTTTTTTTAAA
1 ATATATATATTATATAGTTTTT--AA-A-TATTTTGAAA
*
750968 A-ATATATATTATATAGTTTTTAAACATTTTGAAA
1 ATATATATATTATATAGTTTTTAAATATTTTGAAA
751002 ATATATATA
1 ATATATATA
751011 GTTTTTAAAA
Statistics
Matches: 185, Mismatches: 26, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
32 17 0.09
33 4 0.02
34 25 0.14
35 11 0.06
36 43 0.23
37 41 0.22
38 27 0.15
39 17 0.09
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (35 bp):
ATATATATATTATATAGTTTTTAAATATTTTGAAA
Found at i:751160 original size:70 final size:73
Alignment explanation
Indices: 751070--751209 Score: 200
Period size: 70 Copynumber: 2.0 Consensus size: 73
751060 AAATCATTTC
*
751070 AAAAACTTATAATATATAATTTTAAAAAACATTTTTAAAAA-A-ACTATATA-A-TTTTGG-AAA
1 AAAAACATATAATATATAATTTT--AAAACATTTTTAAAAATATACTATATAGATTTTTGGAAAA
751130 TGTTTTTAAA
64 TGTTTTTAAA
* *
751140 AAAAACATATAATATATAATTTTAAAATATTTTTAAAAATATATTATATAGATTTTTGGAAAATG
1 AAAAACATATAATATATAATTTTAAAACATTTTTAAAAATATACTATATAGATTTTTGGAAAATG
751205 TTTTT
66 TTTTT
751210 TAGTTTATTT
Statistics
Matches: 62, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
68 15 0.24
69 1 0.02
70 29 0.47
71 1 0.02
72 6 0.10
73 10 0.16
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (73 bp):
AAAAACATATAATATATAATTTTAAAACATTTTTAAAAATATACTATATAGATTTTTGGAAAATG
TTTTTAAA
Found at i:751188 original size:32 final size:33
Alignment explanation
Indices: 750931--751195 Score: 109
Period size: 36 Copynumber: 7.6 Consensus size: 33
750921 TTTTGAAAAT
* *
750931 AAATATACTATATAATTTTTAAAACATTTTTTTTAA
1 AAATATAATATATAA-TTTTAAAA-A-TATTTTTAA
* * * *
750967 AAATATATATTATATAGTTTT-TAAACA-TTTTGA
1 AAATATA-A-TATATAATTTTAAAAATATTTTTAA
751000 AAATAT-ATATAGT--TTTTAAAAAATATTTTTTGAA
1 AAATATAATATA-TAATTTT-AAAAATA-TTTTT-AA
* *
751034 GAACATATATATATTATATAGTTTT-TAAATCA-TTTCAA
1 -AA-ATATA-ATA-TATA-A-TTTTAAAAAT-ATTTTTAA
*
751072 AAACTTATAATATATAATTTTAAAAAACATTTTTAA
1 AAA--TATAATATATAATTTT-AAAAATATTTTTAA
* ** *
751108 AAA-A-ACTATATAATTTTGGAAATGTTTTTAAAAAA
1 AAATATAATATATAATTTTAAAAATATTTTT----AA
751143 AACATATAATATATAATTTT-AAAATATTTTTAA
1 AA-ATATAATATATAATTTTAAAAATATTTTTAA
*
751176 AAATATATTATATAGATTTT
1 AAATATAATATATA-ATTTT
751196 TGGAAAATGT
Statistics
Matches: 175, Mismatches: 23, Indels: 65
0.67 0.09 0.25
Matches are distributed among these distances:
29 4 0.02
30 4 0.02
31 14 0.08
32 23 0.13
33 25 0.14
34 5 0.03
35 9 0.05
36 30 0.17
37 19 0.11
38 28 0.16
39 5 0.03
40 4 0.02
41 1 0.01
42 4 0.02
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (33 bp):
AAATATAATATATAATTTTAAAAATATTTTTAA
Found at i:751220 original size:12 final size:11
Alignment explanation
Indices: 751205--751287 Score: 55
Period size: 12 Copynumber: 7.4 Consensus size: 11
751195 TTGGAAAATG
751205 TTTTTTAGTTTA
1 TTTTTTA-TTTA
751217 TTTTTTATTTA
1 TTTTTTATTTA
**
751228 TTTATTTACCT-
1 TTT-TTTATTTA
*
751239 TTTGTTATTTA
1 TTTTTTATTTA
*
751250 -TTATTA-TTA
1 TTTTTTATTTA
751259 TTTTACTTATTTA
1 TTTT--TTATTTA
*
751272 TTTTTATTTTTA
1 TTTTT-TATTTA
751284 TTTT
1 TTTT
751288 GTTGCAGGGT
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
9 3 0.05
10 11 0.20
11 11 0.20
12 24 0.43
13 7 0.12
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (11 bp):
TTTTTTATTTA
Found at i:751269 original size:36 final size:33
Alignment explanation
Indices: 751205--751271 Score: 82
Period size: 36 Copynumber: 1.9 Consensus size: 33
751195 TTGGAAAATG
*
751205 TTTTTTAGTTTATTTTTTATTTATTTATTTACC
1 TTTTTTAGTTTATTTTTTATTTACTTATTTACC
751238 TTTTGTTA-TTTATTATTATTATTTTACTTATTTA
1 TTTT-TTAGTTTATT-TT-TTA-TTTACTTATTTA
751272 TTTTTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 10 0.34
34 5 0.17
35 3 0.10
36 11 0.38
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.72
Consensus pattern (33 bp):
TTTTTTAGTTTATTTTTTATTTACTTATTTACC
Found at i:752672 original size:12 final size:12
Alignment explanation
Indices: 752655--752679 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
752645 TCGAATCGAG
752655 TAATTTAAATTT
1 TAATTTAAATTT
752667 TAATTTAAATTT
1 TAATTTAAATTT
752679 T
1 T
752680 TCGCAATCAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAATTTAAATTT
Found at i:754267 original size:20 final size:21
Alignment explanation
Indices: 754244--754294 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
754234 GTTTACCAGT
*
754244 TCTTTGTTTTATT-T-AACTAG
1 TCTTTGTTTT-TTGTCAACTAA
754264 TC-TTGTTTTTTGTCAACTAA
1 TCTTTGTTTTTTGTCAACTAA
754284 TCTTGTGTTTT
1 TCTT-TGTTTT
754295 GTGTTTCTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.08
19 8 0.31
20 9 0.35
21 1 0.04
22 6 0.23
ACGTcount: A:0.16, C:0.12, G:0.12, T:0.61
Consensus pattern (21 bp):
TCTTTGTTTTTTGTCAACTAA
Found at i:754295 original size:20 final size:20
Alignment explanation
Indices: 754258--754296 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
754248 TGTTTTATTT
* *
754258 AACTAGTCTTGTTTTTTGTC
1 AACTAATCTTGTGTTTTGTC
754278 AACTAATCTTGTGTTTTGT
1 AACTAATCTTGTGTTTTGT
754297 GTTTCTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.13, G:0.15, T:0.54
Consensus pattern (20 bp):
AACTAATCTTGTGTTTTGTC
Done.