Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_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: 6938204
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 25
Found at i:326461 original size:4 final size:4
Alignment explanation
Indices: 326446--326480 Score: 61
Period size: 4 Copynumber: 8.5 Consensus size: 4
326436 CCTTTCATTC
326446 TTAT TATAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT T-TAT TTAT TTAT TTAT TTAT TTAT TTAT TT
326481 TGTTATGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:326508 original size:15 final size:15
Alignment explanation
Indices: 326488--326596 Score: 54
Period size: 15 Copynumber: 7.5 Consensus size: 15
326478 TTTTGTTATG
326488 TTTTTATTCTTATTA
1 TTTTTATTCTTATTA
326503 TTTTTATTC--A-TA
1 TTTTTATTCTTATTA
* *
326515 TTTTT-TAC-CATT-
1 TTTTTATTCTTATTA
*
326527 TTCTTT-TTCCTTATTT
1 TT-TTTATT-CTTATTA
326543 TTGGTTTATT-TTATTA
1 TT--TTTATTCTTATTA
* *
326559 TTATTATTATTATTA
1 TTTTTATTCTTATTA
* *
326574 TTATTATTATTATTA
1 TTTTTATTCTTATTA
*
326589 TTATTATT
1 TTTTTATT
326597 ATATTTTTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
11 2 0.03
12 10 0.13
13 6 0.08
14 6 0.08
15 41 0.52
16 9 0.11
17 3 0.04
18 2 0.03
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (15 bp):
TTTTTATTCTTATTA
Found at i:326509 original size:9 final size:9
Alignment explanation
Indices: 326446--326596 Score: 55
Period size: 9 Copynumber: 16.9 Consensus size: 9
326436 CCTTTCATTC
*
326446 TTATTATAT
1 TTATTATTT
*
326455 TTATT-TAT
1 TTATTATTT
*
326463 TTATT-TAT
1 TTATTATTT
326471 TTATT-TATT
1 TTATTAT-TT
* *
326480 TTGTTATGT
1 TTATTATTT
*
326489 TT-TTATTC
1 TTATTATTT
326497 TTATTATTT
1 TTATTATTT
326506 TTATTCATATT
1 TTATT-AT-TT
***
326517 TT-TTACCA
1 TTATTATTT
*
326525 TT-TTCTTT
1 TTATTATTT
*
326533 TTCCTTATTT
1 TT-ATTATTT
*
326543 TTGGTTTAT-T
1 TT-AT-TATTT
*
326553 TTATTATTA
1 TTATTATTT
*
326562 TTATTATTA
1 TTATTATTT
*
326571 TTATTATTA
1 TTATTATTT
*
326580 TTATTATTA
1 TTATTATTT
326589 TTATTATT
1 TTATTATT
326597 ATATTTTTTT
Statistics
Matches: 115, Mismatches: 18, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
8 32 0.28
9 60 0.52
10 16 0.14
11 7 0.06
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (9 bp):
TTATTATTT
Found at i:326561 original size:3 final size:3
Alignment explanation
Indices: 326548--326598 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
326538 TATTTTTGGT
326548 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
326595 TTA T
1 TTA T
326599 ATTTTTTTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:326770 original size:17 final size:16
Alignment explanation
Indices: 326744--326783 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
326734 ATTCGTTTCT
326744 TTATTTTTATTAAATA
1 TTATTTTTATTAAATA
*
326760 TTATATTTTATTATATA
1 TTAT-TTTTATTAAATA
326777 TT-TTTTT
1 TTATTTTT
326784 CTTGTTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 5 0.23
17 13 0.59
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTTATTAAATA
Found at i:326838 original size:5 final size:5
Alignment explanation
Indices: 326821--326927 Score: 57
Period size: 5 Copynumber: 21.4 Consensus size: 5
326811 ATGATATTTG
* *
326821 TTTTC TTTT- TTTTA -TTT- TTTTA TTTTTA TATTTT TCTTTA TTTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA T-TTTA T-TTTA -TTTTA
*
326867 TTTTA TTTTA TGTTGT- TTTTA TTTTA -TTT- TTTTA TTTT- TTATGA
1 TTTTA TTTTA T-TT-TA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA
* *
326911 GTTTG TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TT
326928 GTTTTGTTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 26
0.70 0.08 0.23
Matches are distributed among these distances:
4 19 0.24
5 39 0.49
6 20 0.25
7 2 0.03
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:326846 original size:16 final size:16
Alignment explanation
Indices: 326827--326906 Score: 74
Period size: 16 Copynumber: 4.9 Consensus size: 16
326817 TTTGTTTTCT
326827 TTTTTTTATTTTTTTA
1 TTTTTTTATTTTTTTA
*
326843 TTTTTATATTTTTCTTTA
1 TTTTTTTA-TTTT-TTTA
*
326861 TTTTTATT-TTATTTTA
1 TTTTT-TTATTTTTTTA
* *
326877 TGTTGTTT-TTATTTTA
1 T-TTTTTTATTTTTTTA
326893 TTTTTTTATTTTTT
1 TTTTTTTATTTTTT
326907 ATGAGTTTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
15 5 0.09
16 28 0.53
17 10 0.19
18 9 0.17
19 1 0.02
ACGTcount: A:0.14, C:0.01, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTTTTTATTTTTTTA
Found at i:326906 original size:21 final size:20
Alignment explanation
Indices: 326827--326908 Score: 83
Period size: 21 Copynumber: 3.8 Consensus size: 20
326817 TTTGTTTTCT
326827 TTTTTTTATTTTTTTATTTTTA
1 TTTTTTT-TTTTTTTA-TTTTA
326849 TATTTTTCTTTATTTTTATTTTA
1 T-TTTTT-TTT-TTTTTATTTTA
* *
326872 TTTTATGTTGTTTTTATTTTA
1 TTTT-TTTTTTTTTTATTTTA
*
326893 TTTTTTTATTTTTTAT
1 TTTTTTTTTTTTTTAT
326909 GAGTTTGTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
20 9 0.18
21 15 0.29
22 6 0.12
23 14 0.27
24 7 0.14
ACGTcount: A:0.15, C:0.01, G:0.02, T:0.82
Consensus pattern (20 bp):
TTTTTTTTTTTTTTATTTTA
Found at i:328364 original size:17 final size:17
Alignment explanation
Indices: 328342--328375 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
328332 CATATCATCG
328342 TTGAAAATATGTTAGCA
1 TTGAAAATATGTTAGCA
328359 TTGAAAATATGTTAGCA
1 TTGAAAATATGTTAGCA
328376 GTTATGTTAA
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:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (17 bp):
TTGAAAATATGTTAGCA
Found at i:334493 original size:29 final size:28
Alignment explanation
Indices: 334423--334563 Score: 137
Period size: 28 Copynumber: 5.0 Consensus size: 28
334413 GAAAATACCA
*
334423 AAATGTCACTTTTTT-AAAATAATT-CCT
1 AAATGTCACTTTTTTCAAAA-AATTCCCG
*
334450 AGAATGTCACCTTTTTCAAAAAATTCCCG
1 A-AATGTCACTTTTTTCAAAAAATTCCCG
* *
334479 AAATGTCATATTTTTTTAAAAAATTCCC-
1 AAATGTCA-CTTTTTTCAAAAAATTCCCG
*
334507 AGAATGTCACTTTATT-ACAAAAATTCCCG
1 A-AATGTCACTTTTTTCA-AAAAATTCCCG
* *
334536 AAATATCACCTTTTTCAAAATAATTCCC
1 AAATGTCACTTTTTTCAAAA-AATTCCC
334564 AGAATATAAC
Statistics
Matches: 95, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
27 2 0.02
28 54 0.57
29 39 0.41
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.37
Consensus pattern (28 bp):
AAATGTCACTTTTTTCAAAAAATTCCCG
Found at i:334511 original size:57 final size:57
Alignment explanation
Indices: 334430--334568 Score: 185
Period size: 57 Copynumber: 2.4 Consensus size: 57
334420 CCAAAATGTC
* *
334430 ACTTTTTTAAAATAATTCCTAGAATGTCACCTTT-TT-CAAAAAATTCCCGAAATGTCA
1 ACTTTTTTAAAATAATTCCCAGAATGTCA-CTTTATTAC-AAAAATTCCCGAAATATCA
*
334487 TATTTTTTTAAAA-AATTCCCAGAATGTCACTTTATTACAAAAATTCCCGAAATATCA
1 -ACTTTTTTAAAATAATTCCCAGAATGTCACTTTATTACAAAAATTCCCGAAATATCA
* *
334544 CCTTTTTCAAAATAATTCCCAGAAT
1 ACTTTTTTAAAATAATTCCCAGAAT
334569 ATAACATTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
56 13 0.18
57 47 0.65
58 12 0.17
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (57 bp):
ACTTTTTTAAAATAATTCCCAGAATGTCACTTTATTACAAAAATTCCCGAAATATCA
Found at i:334569 original size:29 final size:28
Alignment explanation
Indices: 334430--334600 Score: 127
Period size: 28 Copynumber: 6.0 Consensus size: 28
334420 CCAAAATGTC
* * *
334430 ACTTTTTTAAAATAATTCCTAGAATGTCA
1 ACTTTTTCAAAA-AATTCCCAGAATATCA
* *
334459 CCTTTTTCAAAAAATTCCC-GAAATGTCA
1 ACTTTTTCAAAAAATTCCCAG-AATATCA
* * *
334487 TATTTTTTTAAAAAATTCCCAGAATGTC-
1 -ACTTTTTCAAAAAATTCCCAGAATATCA
334515 ACTTTATT-ACAAAAATTCCC-GAAATATCA
1 ACTTT-TTCA-AAAAATTCCCAG-AATATCA
*
334544 CCTTTTTCAAAATAATTCCCAGAATAT-A
1 ACTTTTTCAAAA-AATTCCCAGAATATCA
* * *
334572 ACATTTTCATAATAATTCCCAAAATATCA
1 ACTTTTTCA-AAAAATTCCCAGAATATCA
334601 TCGGGTCGGG
Statistics
Matches: 117, Mismatches: 13, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
27 7 0.06
28 56 0.48
29 52 0.44
30 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (28 bp):
ACTTTTTCAAAAAATTCCCAGAATATCA
Found at i:334589 original size:57 final size:54
Alignment explanation
Indices: 334423--334600 Score: 178
Period size: 57 Copynumber: 3.1 Consensus size: 54
334413 GAAAATACCA
* * *
334423 AAATGTCACTTTTTTAAAATAATTCCTAGAATGTCACCTTTTTCAAAAAATTCCCG
1 AAATATCACTTTTTTAAAATAATTCCCAGAATGT-AACTTTTTC-AAAAATTCCCG
* * *
334479 AAATGTCATATTTTTTTAAAA-AATTCCCAGAATGTCACTTTATTACAAAAATTCCCG
1 AAATATC--ACTTTTTTAAAATAATTCCCAGAATGTAACTTT-TT-CAAAAATTCCCG
* * * *
334536 AAATATCACCTTTTTCAAAATAATTCCCAGAATATAACATTTTCATAATAATTCCCA
1 AAATATCA-CTTTTTTAAAATAATTCCCAGAATGTAACTTTTTCA-AA-AATTCCCG
334593 AAATATCA
1 AAATATCA
334601 TCGGGTCGGG
Statistics
Matches: 103, Mismatches: 11, Indels: 15
0.80 0.09 0.12
Matches are distributed among these distances:
55 3 0.03
56 24 0.23
57 64 0.62
58 12 0.12
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (54 bp):
AAATATCACTTTTTTAAAATAATTCCCAGAATGTAACTTTTTCAAAAATTCCCG
Found at i:335826 original size:17 final size:18
Alignment explanation
Indices: 335804--335840 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
335794 TCTTATGCAC
335804 ATCAATA-GT-TTTATCAG
1 ATCAATATGTCTTT-TCAG
335821 ATCAATATGTCTTTTCAG
1 ATCAATATGTCTTTTCAG
335839 AT
1 AT
335841 TTATTAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 8 0.44
19 3 0.17
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
ATCAATATGTCTTTTCAG
Found at i:337709 original size:29 final size:29
Alignment explanation
Indices: 337530--337712 Score: 169
Period size: 29 Copynumber: 6.4 Consensus size: 29
337520 CACATTCAAA
* * *
337530 AATTACCAAAATGTTACTTTTTTCAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
* *
337559 AATTCCCAGAATGTCACCTTTTTTACAAA-
1 AATTCCCAAAATGTCACCTTTTTCA-AAAT
* * * *
337588 AATTCCCGAAATGTTATCTTCTT-AAGAAT
1 AATTCCCAAAATGTCACCTTTTTCAA-AAT
** * *
337617 AATTCCCAATTTGTCA-ATTTTAC-AAA-
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
* *
337643 AATTCTCGAAATGTCACCTTTTTCAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
*
337672 AATTCCCAAAATGTCACCTTTTTCATAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
337701 AATTCCCAAAAT
1 AATTCCCAAAAT
337713 ATTATCGGGT
Statistics
Matches: 121, Mismatches: 26, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
26 12 0.10
27 8 0.07
28 10 0.08
29 88 0.73
30 3 0.02
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.37
Consensus pattern (29 bp):
AATTCCCAAAATGTCACCTTTTTCAAAAT
Found at i:337752 original size:17 final size:18
Alignment explanation
Indices: 337718--337763 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
337708 AAAATATTAT
337718 CGGGTCGGGTCGGGTCAA
1 CGGGTCGGGTCGGGTCAA
*
337736 CTGGTCGGGTC-GGTCAA
1 CGGGTCGGGTCGGGTCAA
*
337753 CGGGCCGGGTC
1 CGGGTCGGGTC
337764 AGACCGGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.09, C:0.26, G:0.48, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCGGGTCAA
Found at i:338955 original size:19 final size:19
Alignment explanation
Indices: 338933--338982 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 19
338923 AAGTAAAACT
338933 AATATTTCTTATTCACATC
1 AATATTTCTTATTCACATC
* *
338952 AATAGTT-TTA-TCAGATC
1 AATATTTCTTATTCACATC
*
338969 AATATGTCTT-TTCA
1 AATATTTCTTATTCA
338983 AATTTATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
17 11 0.44
18 8 0.32
19 6 0.24
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.46
Consensus pattern (19 bp):
AATATTTCTTATTCACATC
Found at i:341966 original size:29 final size:28
Alignment explanation
Indices: 341903--342093 Score: 192
Period size: 29 Copynumber: 6.8 Consensus size: 28
341893 GTCCACATTC
* *
341903 AAAAATTACCAAAATGTCA-ATTTTTCA
1 AAAAATTCCCAAAATGTCACCTTTTTCA
*
341930 AAATAATTCACAAAATGTCACCTTTTTCA
1 AAA-AATTCCCAAAATGTCACCTTTTTCA
* *
341959 CAAAAATTCCCGAAATGTCATCTTTTTCA
1 -AAAAATTCCCAAAATGTCACCTTTTTCA
***
341988 AAATAATTCCTTGAATGTCA--TTTTTCA
1 AAA-AATTCCCAAAATGTCACCTTTTTCA
* *
342015 CAAAAA-TCCCGAAATGTAACCTTTTTCA
1 -AAAAATTCCCAAAATGTCACCTTTTTCA
342043 AAATAATTCCCAAAATGTCACCTTTTTCA
1 AAA-AATTCCCAAAATGTCACCTTTTTCA
* *
342072 TAATAATTCCCAAAATATCACC
1 -AAAAATTCCCAAAATGTCACC
342094 GGGTCGGGTC
Statistics
Matches: 137, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
26 9 0.07
27 15 0.11
28 29 0.21
29 79 0.58
30 5 0.04
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (28 bp):
AAAAATTCCCAAAATGTCACCTTTTTCA
Found at i:342041 original size:84 final size:86
Alignment explanation
Indices: 341915--342081 Score: 234
Period size: 84 Copynumber: 2.0 Consensus size: 86
341905 AAATTACCAA
* *
341915 AATGTCAATTTTTCAAAATAATTCACAAAATGTCACCTTTTTCACAAA-AATTCCCGAAATGTCA
1 AATGTCAATTTTTCAAAATAATTCACAAAATGTAACCTTTTTCA-AAATAATTCCCAAAATGTCA
*
341979 TCTTTTTCAAAATAATTCCTTG
65 CCTTTTTCAAAATAATTCCTTG
* *
342001 AATGTC-ATTTTTCACAAA-AA-TCCCGAAATGTAACCTTTTTCAAAATAATTCCCAAAATGTCA
1 AATGTCAATTTTTCA-AAATAATTCACAAAATGTAACCTTTTTCAAAATAATTCCCAAAATGTCA
*
342063 CCTTTTTCATAATAATTCC
65 CCTTTTTCAAAATAATTCC
342082 CAAAATATCA
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
83 3 0.04
84 51 0.70
85 10 0.14
86 9 0.12
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (86 bp):
AATGTCAATTTTTCAAAATAATTCACAAAATGTAACCTTTTTCAAAATAATTCCCAAAATGTCAC
CTTTTTCAAAATAATTCCTTG
Found at i:342046 original size:55 final size:56
Alignment explanation
Indices: 341902--342087 Score: 209
Period size: 55 Copynumber: 3.3 Consensus size: 56
341892 AGTCCACATT
* *
341902 CAAAAATTACCAAAATGTCAA--TTTTTCAAAATAATTCACAAAATGTCACCTTTTTCA
1 CAAAAATTCCCGAAATGT-AACCTTTTTCAAAATAATTC-CAAAATGTCA-CTTTTTCA
* * **
341959 CAAAAATTCCCGAAATGTCATCTTTTTCAAAATAATTCCTTGAATGTCA-TTTTTCA
1 CAAAAATTCCCGAAATGTAACCTTTTTCAAAATAATTCC-AAAATGTCACTTTTTCA
342015 CAAAAA-TCCCGAAATGTAACCTTTTTCAAAATAATTCCCAAAATGTCACCTTTTTCA
1 CAAAAATTCCCGAAATGTAACCTTTTTCAAAATAATT-CCAAAATGTCA-CTTTTTCA
* * *
342072 TAATAATTCCCAAAAT
1 CAAAAATTCCCGAAAT
342088 ATCACCGGGT
Statistics
Matches: 110, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
55 35 0.32
56 16 0.15
57 28 0.25
58 31 0.28
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (56 bp):
CAAAAATTCCCGAAATGTAACCTTTTTCAAAATAATTCCAAAATGTCACTTTTTCA
Found at i:342140 original size:17 final size:18
Alignment explanation
Indices: 342108--342146 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
342098 CGGGTCAACT
*
342108 GGTCGAGTCAACGGGTTG
1 GGTCGAGTCAACGGGTCG
*
342126 GGTCG-GTCAATGGGTCG
1 GGTCGAGTCAACGGGTCG
342143 GGTC
1 GGTC
342147 AGACCGGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.13, C:0.18, G:0.46, T:0.23
Consensus pattern (18 bp):
GGTCGAGTCAACGGGTCG
Found at i:345074 original size:29 final size:29
Alignment explanation
Indices: 345033--345194 Score: 156
Period size: 29 Copynumber: 5.6 Consensus size: 29
345023 CATATTCGAA
* *
345033 AATTACCAAAATGTCACTTTTTTCAAAAT
1 AATTCCCAGAATGTCACTTTTTTCAAAAT
345062 AATTCCCAGAATGTCAC--TTTTCACAAA-
1 AATTCCCAGAATGTCACTTTTTTCA-AAAT
*
345089 AATTCCC-GAAATGTCA-TATTTTTCAAAAAA
1 AATTCCCAG-AATGTCACT-TTTTTC-AAAAT
345119 AATTCCCAGAATGTCACATTTTTT-AAAAT
1 AATTCCCAGAATGTCAC-TTTTTTCAAAAT
* * * *
345148 AATTTCAAGAATGTCACATTTTTCACAAT
1 AATTCCCAGAATGTCACTTTTTTCAAAAT
* *
345177 AATTCCCAAAATATCACT
1 AATTCCCAGAATGTCACT
345195 GGGTCGGGTC
Statistics
Matches: 110, Mismatches: 12, Indels: 22
0.76 0.08 0.15
Matches are distributed among these distances:
26 1 0.01
27 20 0.18
28 8 0.07
29 59 0.54
30 15 0.14
31 6 0.05
32 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.35
Consensus pattern (29 bp):
AATTCCCAGAATGTCACTTTTTTCAAAAT
Found at i:345232 original size:17 final size:18
Alignment explanation
Indices: 345195--345232 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
345185 AAATATCACT
345195 GGGTCGGGTCTGGTCAAC
1 GGGTCGGGTCTGGTCAAC
*
345213 GGGTCGGGTC-GGTTAAC
1 GGGTCGGGTCTGGTCAAC
345230 GGG
1 GGG
345233 CTAGGTCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.11, C:0.18, G:0.50, T:0.21
Consensus pattern (18 bp):
GGGTCGGGTCTGGTCAAC
Found at i:349141 original size:4 final size:4
Alignment explanation
Indices: 349132--349158 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
349122 TTTAAAGTGA
349132 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
349159 AAACCCCCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:356463 original size:2 final size:2
Alignment explanation
Indices: 356388--356454 Score: 52
Period size: 2 Copynumber: 34.5 Consensus size: 2
356378 CTTTTATGAA
* *
356388 AT AT AT AT AT AT AT AT AT AT A- AT AA AGT A- AT -T GT CA- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT -AT AT AT
* *
356428 AT AT AT AT AT GT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
356455 AACATATATT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
1 4 0.08
2 47 0.90
3 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (2 bp):
AT
Found at i:357969 original size:3 final size:3
Alignment explanation
Indices: 357955--357986 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
357945 AAGCCTGCAA
*
357955 AAT AAA AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
357987 AGGTTACAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:359723 original size:25 final size:26
Alignment explanation
Indices: 359668--359735 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
359658 ATTTTAAATA
359668 ATGAAAGAATTTTAAAAAAATGTTTG
1 ATGAAAGAATTTTAAAAAAATGTTTG
* *
359694 ATGAAAGAATTTT-GAAACATGTTTG
1 ATGAAAGAATTTTAAAAAAATGTTTG
* *
359719 TTG-AAG-TTTTTAAAAAA
1 ATGAAAGAATTTTAAAAAA
359736 TGGTGCTCCT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 4 0.11
24 6 0.17
25 12 0.34
26 13 0.37
ACGTcount: A:0.46, C:0.01, G:0.16, T:0.37
Consensus pattern (26 bp):
ATGAAAGAATTTTAAAAAAATGTTTG
Found at i:360104 original size:156 final size:156
Alignment explanation
Indices: 359815--360126 Score: 570
Period size: 156 Copynumber: 2.0 Consensus size: 156
359805 ATCAACTACT
359815 CTTATAATCCTTCAAGAATTATAGCTCTTTGACAAGTGTCAAGATTAATGCTAACTTTTAGGTGT
1 CTTATAATCCTTCAAGAATTATAGCTCTTTGACAAGTGTCAAGATTAATGCTAACTTTTAGGTGT
*
359880 AGGTTGATTTGGGGTAGGTGGTGGTACTTTAGGTTTGCTTCTTTAGTCAAGATCTAGCATTTTCA
66 AGGTTGATTTGGGGTAGGTGGTGGTACTTTAGGTTGGCTTCTTTAGTCAAGATCTAGCATTTTCA
* *
359945 ATTCTCTGGTGCTTATTGATCTGATA
131 ATTCTATGGTGCTCATTGATCTGATA
*
359971 CTTATAATCCTTCAAGAATTATAGCTCTTTGATAAGTGTCAAGATTAATGCTAACTTTTAGGTGT
1 CTTATAATCCTTCAAGAATTATAGCTCTTTGACAAGTGTCAAGATTAATGCTAACTTTTAGGTGT
*
360036 AGGTTGATTTGGGGTAGGTGGTGGTACTTTAGGTTGGCTTCTTTAGTCAAGATCTAGCATTTTTA
66 AGGTTGATTTGGGGTAGGTGGTGGTACTTTAGGTTGGCTTCTTTAGTCAAGATCTAGCATTTTCA
*
360101 ATTCTATGGTGCTCGTTGATCTGATA
131 ATTCTATGGTGCTCATTGATCTGATA
360127 GAGTGGCTAT
Statistics
Matches: 150, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
156 150 1.00
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.41
Consensus pattern (156 bp):
CTTATAATCCTTCAAGAATTATAGCTCTTTGACAAGTGTCAAGATTAATGCTAACTTTTAGGTGT
AGGTTGATTTGGGGTAGGTGGTGGTACTTTAGGTTGGCTTCTTTAGTCAAGATCTAGCATTTTCA
ATTCTATGGTGCTCATTGATCTGATA
Found at i:365569 original size:16 final size:16
Alignment explanation
Indices: 365548--365592 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
365538 TCGACAAAAT
365548 TTTTACTATTCACAAA
1 TTTTACTATTCACAAA
365564 TTTTACTATTCACAAA
1 TTTTACTATTCACAAA
*
365580 ATTTACTATTCAC
1 TTTTACTATTCAC
365593 TTGAATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTTACTATTCACAAA
Found at i:366348 original size:32 final size:33
Alignment explanation
Indices: 366271--366355 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 33
366261 GTGACTTTCT
* **
366271 TGCCTCAAAGAGAGGTAAATGTATGAATTTGGG
1 TGCCTTAAAGAGAGGTAGTTGTATGAATTTGGG
* *
366304 TGCTTTAAAGAGAGGTAGTTGTATGACTTT-GG
1 TGCCTTAAAGAGAGGTAGTTGTATGAATTTGGG
*
366336 TGCCTTAGAGAGAGGTAGTT
1 TGCCTTAAAGAGAGGTAGTT
366356 TCAAAATTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
32 20 0.44
33 25 0.56
ACGTcount: A:0.28, C:0.08, G:0.32, T:0.32
Consensus pattern (33 bp):
TGCCTTAAAGAGAGGTAGTTGTATGAATTTGGG
Found at i:368831 original size:13 final size:13
Alignment explanation
Indices: 368813--368878 Score: 53
Period size: 13 Copynumber: 4.8 Consensus size: 13
368803 ATATATATAT
368813 ATAATAAAATAAA
1 ATAATAAAATAAA
* *
368826 ATAATAATATATA
1 ATAATAAAATAAA
* *
368839 CTAATAAAA-ATA
1 ATAATAAAATAAA
368851 ATATATAAACATATAA
1 ATA-ATAAA-ATA-AA
368867 ATAATATAAATA
1 ATAATA-AAATA
368879 TAATGTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
12 5 0.12
13 23 0.55
14 1 0.02
15 7 0.17
16 6 0.14
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAATAAAATAAA
Found at i:368864 original size:27 final size:25
Alignment explanation
Indices: 368795--368881 Score: 81
Period size: 25 Copynumber: 3.5 Consensus size: 25
368785 GTTAGCATAT
* *
368795 AATAATTTATATATATATATAATAA
1 AATAATATATAAATATATATAATAA
*
368820 AATAAAATA-ATAATATATACTAATAAA
1 AATAATATATA-AATATATA-TAAT-AA
*
368847 AATAATATATAAACATATA-AATAA
1 AATAATATATAAATATATATAATAA
*
368871 TATAA-ATATAA
1 AATAATATATAA
368882 TGTAAAATAC
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
23 6 0.12
24 7 0.13
25 17 0.33
26 4 0.08
27 17 0.33
28 1 0.02
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
AATAATATATAAATATATATAATAA
Found at i:368866 original size:21 final size:21
Alignment explanation
Indices: 368823--368874 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 21
368813 ATAATAAAAT
*
368823 AAAATAATAATATATACTAATA
1 AAAATAAT-ATATAAACTAATA
368845 AAAATAATATATAAAC--ATA
1 AAAATAATATATAAACTAATA
*
368864 TAAATAATATA
1 AAAATAATATA
368875 AATATAATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.46
21 7 0.25
22 8 0.29
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATAATATATAAACTAATA
Found at i:368868 original size:19 final size:18
Alignment explanation
Indices: 368811--368874 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 18
368801 TTATATATAT
368811 ATATAATAAA-ATAAAATA
1 ATAT-ATAAACATAAAATA
*
368829 ATAATATATACTAATAAAAATA
1 AT-ATATAAAC--AT-AAAATA
368851 ATATATAAACATATAAATA
1 ATATATAAACATA-AAATA
368870 ATATA
1 ATATA
368875 AATATAATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
18 7 0.18
19 14 0.37
21 9 0.24
22 8 0.21
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
ATATATAAACATAAAATA
Found at i:368887 original size:11 final size:11
Alignment explanation
Indices: 368805--368915 Score: 56
Period size: 11 Copynumber: 10.3 Consensus size: 11
368795 AATAATTTAT
*
368805 ATATATATATA
1 ATATAAATATA
*
368816 ATA-AAATAAA
1 ATATAAATATA
368826 ATAATAATATATA
1 AT-ATAA-ATATA
* *
368839 CTAATAAAAATA
1 AT-ATAAATATA
368851 ATAT--ATA-A
1 ATATAAATATA
*
368859 ACATATAA-ATA
1 ATATA-AATATA
368870 ATATAAATATA
1 ATATAAATATA
*
368881 ATGTAAA-AT-
1 ATATAAATATA
* *
368890 ACATAAATACA
1 ATATAAATATA
368901 ATATAATATATA
1 ATATAA-ATATA
368913 ATA
1 ATA
368916 CTAAGTGACA
Statistics
Matches: 74, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
8 4 0.05
9 7 0.09
10 13 0.18
11 26 0.35
12 14 0.19
13 10 0.14
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (11 bp):
ATATAAATATA
Found at i:368889 original size:40 final size:40
Alignment explanation
Indices: 368811--368915 Score: 101
Period size: 40 Copynumber: 2.6 Consensus size: 40
368801 TTATATATAT
*
368811 ATATAATAAAATAAAATAATAATATATACTAATAAAAATA
1 ATATAATAAAATAAAATAATAATAAATACTAATAAAAATA
*
368851 ATAT-ATAAACATATAAATAAT-ATAAATA-TAATGTAAAATA
1 ATATAATAAA-ATA-AAATAATAATAAATACTAAT-AAAAATA
* *
368891 CATA-AATACAATATAATATATAATA
1 -ATATAATAAAATAAAATA-ATAATA
368916 CTAAGTGACA
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
39 13 0.24
40 24 0.44
41 17 0.31
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (40 bp):
ATATAATAAAATAAAATAATAATAAATACTAATAAAAATA
Found at i:368926 original size:25 final size:25
Alignment explanation
Indices: 368867--368916 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
368857 AAACATATAA
*
368867 ATAATATA-AATATAATGTAAAATAC
1 ATAA-ATACAATATAATATAAAATAC
*
368892 ATAAATACAATATAATATATAATAC
1 ATAAATACAATATAATATAAAATAC
368917 TAAGTGACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (25 bp):
ATAAATACAATATAATATAAAATAC
Found at i:368949 original size:8 final size:7
Alignment explanation
Indices: 368930--369000 Score: 65
Period size: 8 Copynumber: 9.6 Consensus size: 7
368920 GTGACAAAAC
368930 ATAATA-
1 ATAATAT
368936 ATAATAT
1 ATAATAT
368943 GATAATAT
1 -ATAATAT
368951 ATAATGAT
1 ATAAT-AT
*
368959 AACAATAT
1 -ATAATAT
368967 ACTATATAT
1 A-TA-ATAT
368976 ATATATAT
1 ATA-ATAT
368984 ATAATAT
1 ATAATAT
368991 A-AATAT
1 ATAATAT
368997 ATAA
1 ATAA
369001 GAATAATAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
6 12 0.21
7 13 0.23
8 22 0.39
9 9 0.16
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:368959 original size:13 final size:12
Alignment explanation
Indices: 368930--369000 Score: 51
Period size: 13 Copynumber: 5.9 Consensus size: 12
368920 GTGACAAAAC
368930 ATAATA-ATAAT
1 ATAATATATAAT
*
368941 ATGATA-AT-AT
1 ATAATATATAAT
*
368951 ATAATGATAACAAT
1 ATAAT-AT-ATAAT
*
368965 ATACTATAT-AT
1 ATAATATATAAT
368976 ATATATATATAAT
1 ATA-ATATATAAT
368989 ATAAATATATAA
1 AT-AATATATAA
369001 GAATAATAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
10 6 0.13
11 13 0.28
12 6 0.13
13 15 0.32
14 7 0.15
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (12 bp):
ATAATATATAAT
Found at i:368985 original size:19 final size:19
Alignment explanation
Indices: 368963--368999 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
368953 AATGATAACA
* *
368963 ATATACTATATATATATAT
1 ATATAATATAAATATATAT
368982 ATATAATATAAATATATA
1 ATATAATATAAATATATA
369000 AGAATAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATAATATAAATATATAT
Found at i:368997 original size:25 final size:23
Alignment explanation
Indices: 368803--369000 Score: 62
Period size: 24 Copynumber: 8.6 Consensus size: 23
368793 ATAATAATTT
*
368803 ATATATATATATAATA-AAATAAA
1 ATATA-ATATATAATATAAATATA
* *
368826 ATAATAATATATACTAATAAAAATA
1 AT-ATAATATATAAT-ATAAATATA
368851 ATAT-ATA-A-ACATAT-AA-ATA
1 ATATAATATATA-ATATAAATATA
*
368870 ATATAA-ATATAATGTAAA-AT-
1 ATATAATATATAATATAAATATA
* *
368890 ACATAA-ATACAATATAATATATA
1 ATATAATATATAATATAA-ATATA
* * *
368913 ATACTAAGTGACAAAACAT-AATAATA
1 ATA-TAA-T-ATATAATATAAAT-ATA
* *
368939 ATATGATA-AT-ATATAATGATAACA
1 ATATAATATATAATATAA--AT-ATA
* *
368963 ATATACTATATATATATATATATA
1 ATATAATATATA-ATATAAATATA
368987 ATATAAATATATAA
1 ATAT-AATATATAA
369001 GAATAATAAA
Statistics
Matches: 131, Mismatches: 21, Indels: 45
0.66 0.11 0.23
Matches are distributed among these distances:
19 8 0.06
20 21 0.16
21 12 0.09
22 6 0.05
23 16 0.12
24 28 0.21
25 22 0.17
26 7 0.05
27 11 0.08
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (23 bp):
ATATAATATATAATATAAATATA
Found at i:384551 original size:215 final size:218
Alignment explanation
Indices: 384180--384612 Score: 845
Period size: 215 Copynumber: 2.0 Consensus size: 218
384170 CTAACTGCAG
384180 TAGACCGAACATTATGTTTAGTGTTTGCTTATGTGCTAGATTTCAATCATGTCCTAAGGAATCAC
1 TAGACCGAACATTATGTTTAGTGTTTGCTTATGTGCTAGATTTCAATCATGTCCTAAGGAATCAC
384245 ATTTACTAGCTGTTAAGAGAATCTTTAGATACCTTAAGGACACTCCTAGTTTAGGACTTTGGTAT
66 ATTTACTAGCTGTTAAGAGAATCTTTAGATACCTTAAGGACACTCCTAGTTTAGGACTTTGGTAT
384310 CCTAGAGATTATAGCTTTAGCTTGCATGTTTTTTCTAATACGGATTAT-GAAGATGC-AATTAGA
131 CCTAGAGATTATAGCTTTAGCTTGCATGTTTTTTCTAATACGGATTATGGAAGATGCAAATTAGA
384373 TAGGAAAAGAACCTCC-GTACTT
196 TAGGAAAAGAACCTCCGGTACTT
384395 TAGACCGAACATTATGTTTAGTGTTTGCTTATGTGCTAGATTTCAATCATGTCCTAAGGAATCAC
1 TAGACCGAACATTATGTTTAGTGTTTGCTTATGTGCTAGATTTCAATCATGTCCTAAGGAATCAC
384460 ATTTACTAGCTGTTAAGAGAATCTTTAGATACCTTAAGGACACTCCTAGTTTAGGACTTTGGTAT
66 ATTTACTAGCTGTTAAGAGAATCTTTAGATACCTTAAGGACACTCCTAGTTTAGGACTTTGGTAT
384525 CCTAGAGATTATAGCTTTAGCTTGCATGTTTTTTCTAATACGGATTATGGAAGATGCAAATTAGA
131 CCTAGAGATTATAGCTTTAGCTTGCATGTTTTTTCTAATACGGATTATGGAAGATGCAAATTAGA
384590 TAGGAAAAGAACCTCCGGTACTT
196 TAGGAAAAGAACCTCCGGTACTT
384613 GCCAATTCCT
Statistics
Matches: 215, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
215 178 0.83
216 8 0.04
217 23 0.11
218 6 0.03
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (218 bp):
TAGACCGAACATTATGTTTAGTGTTTGCTTATGTGCTAGATTTCAATCATGTCCTAAGGAATCAC
ATTTACTAGCTGTTAAGAGAATCTTTAGATACCTTAAGGACACTCCTAGTTTAGGACTTTGGTAT
CCTAGAGATTATAGCTTTAGCTTGCATGTTTTTTCTAATACGGATTATGGAAGATGCAAATTAGA
TAGGAAAAGAACCTCCGGTACTT
Found at i:396062 original size:35 final size:35
Alignment explanation
Indices: 396016--396091 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
396006 AAAACAGTCC
* *
396016 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
396051 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
396086 TCAATT
1 TCAATT
396092 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:396633 original size:130 final size:130
Alignment explanation
Indices: 396487--396734 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
396477 TATTTATATA
* **
396487 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
396552 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCAACTAATTATTTATATATGCT
396617 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
396682 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCAACTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCAACTAATTA
396735 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCAACTAATTATTTATATATGCT
Found at i:396765 original size:130 final size:129
Alignment explanation
Indices: 396501--396765 Score: 300
Period size: 130 Copynumber: 2.0 Consensus size: 129
396491 ATTTGGTCCT
* ** *
396501 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * *** * * **** *
396566 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCAACTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
396631 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * * *
396696 TGATATATGTTATTGGTGACACATGTCACCAACTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCAACTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
396760 -A
128 CA
396761 AAATT
1 AAATT
396766 TGGGTCTTGG
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
130 99 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCAACTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:398886 original size:29 final size:31
Alignment explanation
Indices: 398850--398935 Score: 90
Period size: 33 Copynumber: 2.8 Consensus size: 31
398840 CTCTATTTAA
398850 TAATAATAGTGATAATAAC-AAGT-AC-TAAT
1 TAATAATAGTGATAATAACTAA-TAACATAAT
*
398879 TAATAATAGTGATTAATCACTAATAACATTAAT
1 TAATAATAGTGA-TAATAACTAATAACA-TAAT
*
398912 TAATAATAATGATAATTAA-TAATA
1 TAATAATAGTGATAA-TAACTAATA
398936 TTATATGCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
29 12 0.25
30 7 0.15
31 4 0.08
32 8 0.17
33 17 0.35
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (31 bp):
TAATAATAGTGATAATAACTAATAACATAAT
Found at i:398918 original size:16 final size:16
Alignment explanation
Indices: 398875--398935 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
398865 TAACAAGTAC
*
398875 TAATTAATAATAGTGAT
1 TAATTAATAATA-AGAT
* * *
398892 TAATCACTAATAACAT
1 TAATTAATAATAAGAT
398908 TAATTAATAATAATGA-
1 TAATTAATAATAA-GAT
398924 TAATTAATAATA
1 TAATTAATAATA
398936 TTATATGCAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
16 25 0.69
17 11 0.31
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (16 bp):
TAATTAATAATAAGAT
Found at i:398938 original size:29 final size:29
Alignment explanation
Indices: 398846--398938 Score: 91
Period size: 29 Copynumber: 3.1 Consensus size: 29
398836 TATACTCTAT
*
398846 TTAA-TAATAATAGTGATAA-TAACAAGTA
1 TTAATTAATAATAGTGATAATTAATAA-TA
* *
398874 CTAATTAATAATAGTGATTAATCACTAATAACA
1 TTAATTAATAATAGTGA-TAAT---TAATAATA
*
398907 TTAATTAATAATAATGATAATTAATAATA
1 TTAATTAATAATAGTGATAATTAATAATA
398936 TTA
1 TTA
398939 TATGCAATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
28 3 0.06
29 22 0.42
30 3 0.06
32 4 0.08
33 16 0.30
34 5 0.09
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (29 bp):
TTAATTAATAATAGTGATAATTAATAATA
Found at i:399263 original size:52 final size:52
Alignment explanation
Indices: 399207--399362 Score: 177
Period size: 52 Copynumber: 3.0 Consensus size: 52
399197 CGTCTGATCA
* * *
399207 TATTTTGACAGATCAATTCGACATGGTCCTTCATGATGAGGGCGTTTAGTCG
1 TATTTTGACGGATCAATTCGACATGGTCATTCATGATGAGGACGTTTAGTCG
* * ** *
399259 TATTTTAACGGATCAATTTGACATGGTTTTTCATGATAAGGACGTTTAGTCG
1 TATTTTGACGGATCAATTCGACATGGTCATTCATGATGAGGACGTTTAGTCG
* * * * * * *
399311 TGTTTTGATGGATCATTTCAATACGGTCATTTATGATGAGGACGTTTAGTCG
1 TATTTTGACGGATCAATTCGACATGGTCATTCATGATGAGGACGTTTAGTCG
399363 AGTTCAAATG
Statistics
Matches: 85, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
52 85 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.38
Consensus pattern (52 bp):
TATTTTGACGGATCAATTCGACATGGTCATTCATGATGAGGACGTTTAGTCG
Found at i:400349 original size:20 final size:20
Alignment explanation
Indices: 400301--400376 Score: 89
Period size: 20 Copynumber: 3.7 Consensus size: 20
400291 ATACCAATAG
*
400301 GGGTATCGGTACCATAGTAGA
1 GGGTATCGGTACCATGGTA-A
**
400322 GTGGTATCGGTAAAATGGTAA
1 G-GGTATCGGTACCATGGTAA
*
400343 GGGTATCGATACCATGGTAA
1 GGGTATCGGTACCATGGTAA
*
400363 GGGTATCGATACCA
1 GGGTATCGGTACCA
400377 GACAACATCG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
20 30 0.62
21 3 0.06
22 15 0.31
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (20 bp):
GGGTATCGGTACCATGGTAA
Found at i:400417 original size:114 final size:116
Alignment explanation
Indices: 400238--400448 Score: 259
Period size: 115 Copynumber: 1.8 Consensus size: 116
400228 TAGTATTGAC
* * *
400238 ACCATGATAATGGGCATCGACACCGAGAAACATTGAATCTAATTTTGGTATCGATACCAATA-GG
1 ACCATGATAATGGGCATCGACACCGAGAAACATCGAACCTAATTTTGGTATCGAAACCAATAGGG
* **
400302 GGTATCGGTACCATAGTAGAGTGGTATCGGTAAAATGGTAAGGGTATCGAT
66 GGTATCAGTACCATAGTAGAGAAGTATCGGTAAAATGGTAAGGGTATCGAT
* * * * * *
400353 ACCATGGTAA-GGGTATCGATACC-AGACAACATCGAACCTATTTTTGGTATTGAAACTCGA-AG
1 ACCATGATAATGGGCATCGACACCGAGA-AACATCGAACCTAATTTTGGTATCGAAAC-CAATAG
*
400415 GGGGTATCAGTACCATAGTATAGAAGTATCGGTA
64 GGGGTATCAGTACCATAGTAGAGAAGTATCGGTA
400449 CTAGAGTAGT
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
113 3 0.04
114 36 0.45
115 41 0.51
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (116 bp):
ACCATGATAATGGGCATCGACACCGAGAAACATCGAACCTAATTTTGGTATCGAAACCAATAGGG
GGTATCAGTACCATAGTAGAGAAGTATCGGTAAAATGGTAAGGGTATCGAT
Found at i:400892 original size:39 final size:39
Alignment explanation
Indices: 400838--400915 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
400828 CATCATGAGT
400838 TGATGAATCACCGTACAAACACTTAGTATGCATATTCAC
1 TGATGAATCACCGTACAAACACTTAGTATGCATATTCAC
** * *
400877 TGATGAATCACCGTACATGCACTTTGTCTGCATATTCAC
1 TGATGAATCACCGTACAAACACTTAGTATGCATATTCAC
400916 AGAATTCATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (39 bp):
TGATGAATCACCGTACAAACACTTAGTATGCATATTCAC
Found at i:400964 original size:55 final size:55
Alignment explanation
Indices: 400877--401104 Score: 298
Period size: 55 Copynumber: 4.1 Consensus size: 55
400867 GCATATTCAC
* * * *
400877 TGATGAATCACCGTACATGCACTTTGTCTGCATATTCACAGAATTCATTATGAGT
1 TGATGAATCACCGTACATGAACTTCGTGTGCATATTCACAGAATTCATCATGAGT
* *
400932 TGATGAATCACCGTACAAGAACTTCGTGTGCATATTCACAGAATTCATCTTGAGT
1 TGATGAATCACCGTACATGAACTTCGTGTGCATATTCACAGAATTCATCATGAGT
* * * *
400987 TGATGAATCACCGTATAGGTACTTCATGTGCATATTCACAGAATTCATCATGAGT
1 TGATGAATCACCGTACATGAACTTCGTGTGCATATTCACAGAATTCATCATGAGT
* * * *
401042 TGATGAATCACCGTACATGCACCTT-GTGTGCAAATCCAC-GTATTTCATCATGAGT
1 TGATGAATCACCGTACATG-AACTTCGTGTGCATATTCACAG-AATTCATCATGAGT
401097 TGATGAAT
1 TGATGAAT
401105 TCTCGTATAG
Statistics
Matches: 152, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
54 1 0.01
55 148 0.97
56 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (55 bp):
TGATGAATCACCGTACATGAACTTCGTGTGCATATTCACAGAATTCATCATGAGT
Found at i:403866 original size:20 final size:20
Alignment explanation
Indices: 403841--403902 Score: 124
Period size: 20 Copynumber: 3.1 Consensus size: 20
403831 TCGATGCTGG
403841 GGTATCGATACCAATATTAT
1 GGTATCGATACCAATATTAT
403861 GGTATCGATACCAATATTAT
1 GGTATCGATACCAATATTAT
403881 GGTATCGATACCAATATTAT
1 GGTATCGATACCAATATTAT
403901 GG
1 GG
403903 AAGTATCGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (20 bp):
GGTATCGATACCAATATTAT
Found at i:404451 original size:23 final size:24
Alignment explanation
Indices: 404419--404492 Score: 75
Period size: 23 Copynumber: 3.2 Consensus size: 24
404409 GAGTTGAGGG
* *
404419 TTCTACGTGGTTCTTCAGA-ATAA
1 TTCTATGTGGTTCTTCAGAGACAA
404442 TTCTATGTGG-TCATT-AGAGACAA
1 TTCTATGTGGTTC-TTCAGAGACAA
* *
404465 TTCTATGTGGTCCTTC-GGGACAA
1 TTCTATGTGGTTCTTCAGAGACAA
404488 TTCTA
1 TTCTA
404493 CGCGGTCATT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
22 5 0.12
23 37 0.86
24 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (24 bp):
TTCTATGTGGTTCTTCAGAGACAA
Found at i:404475 original size:46 final size:46
Alignment explanation
Indices: 404419--404518 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 46
404409 GAGTTGAGGG
* * * * *
404419 TTCTACGTGGTTCTTCAGAATAATTCTATGTGGTCATTAGAGACAA
1 TTCTATGTGGTCCTTCAGAACAATTCTACGCGGTCATTAGAGACAA
* * * *
404465 TTCTATGTGGTCCTTCGGGACAATTCTACGCGGTCATTCGGGACAA
1 TTCTATGTGGTCCTTCAGAACAATTCTACGCGGTCATTAGAGACAA
*
404511 ATCTATGT
1 TTCTATGT
404519 AGCACTTTAA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (46 bp):
TTCTATGTGGTCCTTCAGAACAATTCTACGCGGTCATTAGAGACAA
Found at i:404499 original size:23 final size:23
Alignment explanation
Indices: 404440--404515 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 23
404430 TCTTCAGAAT
* * * *
404440 AATTCTATGTGGTCATTAGAGAC
1 AATTCTACGCGGTCATTCGGGAC
* * *
404463 AATTCTATGTGGTCCTTCGGGAC
1 AATTCTACGCGGTCATTCGGGAC
404486 AATTCTACGCGGTCATTCGGGAC
1 AATTCTACGCGGTCATTCGGGAC
*
404509 AAATCTA
1 AATTCTA
404516 TGTAGCACTT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (23 bp):
AATTCTACGCGGTCATTCGGGAC
Found at i:413775 original size:53 final size:53
Alignment explanation
Indices: 413709--413837 Score: 170
Period size: 53 Copynumber: 2.4 Consensus size: 53
413699 TGCCTTTACA
* ** *
413709 TTGTAAGATCTTTTGAAAGATTGTTTGGTGCCTCGGA-AAAACATACCTAGTCT
1 TTGTAAGAGCTTTTGAAAGATTGACTGGTGCCTC-AACAAAACATACCTAGTCT
*
413762 TTGTAAGAGCTTTTGATAGATTGACTGGTGCCTCAACAAAACATACCTAGTCT
1 TTGTAAGAGCTTTTGAAAGATTGACTGGTGCCTCAACAAAACATACCTAGTCT
* * *
413815 TTGTAAGTGTTTTTGAGAGATTG
1 TTGTAAGAGCTTTTGAAAGATTG
413838 CCATTTTCCT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 1 0.01
53 66 0.99
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (53 bp):
TTGTAAGAGCTTTTGAAAGATTGACTGGTGCCTCAACAAAACATACCTAGTCT
Found at i:414139 original size:16 final size:16
Alignment explanation
Indices: 414118--414152 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
414108 AAATCCTGTC
414118 GTACAACATAGGCATG
1 GTACAACATAGGCATG
414134 GTACAACATAGGCATG
1 GTACAACATAGGCATG
414150 GTA
1 GTA
414153 AACGTAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (16 bp):
GTACAACATAGGCATG
Found at i:416423 original size:134 final size:133
Alignment explanation
Indices: 416238--416552 Score: 420
Period size: 134 Copynumber: 2.4 Consensus size: 133
416228 TATGATGAGG
* * * *
416238 GATTTGTTCTGCTTTTAT-TTG-GGGAAAATCAAATCTGGGGATGTTGATTCATTCCACTGTCAC
1 GATTTGTTATGCTTTT-TCTTGAGGGAAAATCAAATATGGGGATATTGATTCATTCCACTATCAC
* * *
416301 TCATGGAAGATTGAATCGAGGCAAACTTGTTCCACTGTTACTCAGGTAATATCAAATCTTGAAAG
65 TCAGGGAAGATTGAATCGAGGCAAACTTGTTCCACTGTTACTCAGGGAATATCAAATATTGAAAG
416366 AGAGA
130 AGA-A
* * *
416371 GATTTGTTATGCTTTTTCTCGAGGGAAAATCAGATATGGGGATTTTGATTCATTCCACTATCACT
1 GATTTGTTATGCTTTTTCTTGAGGGAAAATCAAATATGGGGATATTGATTCATTCCACTATCACT
* * * * *
416436 CAGGGAAGATTGAATTGAGGTAGACTTGTTCCACTGTTACTCAGGGATTATCAAATATTGAATGA
66 CAGGGAAGATTGAATCGAGGCAAACTTGTTCCACTGTTACTCAGGGAATATCAAATATTGAAAGA
416501 GAA
131 GAA
* ** *
416504 GAATTGTTATAATTCTTCTTGA-GGAAAATCAAATATGGGGATATTGATT
1 GATTTGTTATGCTTTTTCTTGAGGGAAAATCAAATATGGGGATATTGATT
416553 AATTATGTTG
Statistics
Matches: 159, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
132 26 0.16
133 35 0.22
134 98 0.62
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (133 bp):
GATTTGTTATGCTTTTTCTTGAGGGAAAATCAAATATGGGGATATTGATTCATTCCACTATCACT
CAGGGAAGATTGAATCGAGGCAAACTTGTTCCACTGTTACTCAGGGAATATCAAATATTGAAAGA
GAA
Found at i:417878 original size:21 final size:19
Alignment explanation
Indices: 417848--417896 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
417838 GCTTGTCTTA
417848 TTTTTCTTTTTCCATTCATT
1 TTTTTCTTTTT-CATTCATT
*
417868 TTTTTCATTTTTCATTTATT
1 TTTTTC-TTTTTCATTCATT
*
417888 ATTTTCTTT
1 TTTTTCTTT
417897 CTTATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 3 0.12
20 18 0.69
21 5 0.19
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTCTTTTTCATTCATT
Found at i:418535 original size:4 final size:4
Alignment explanation
Indices: 418526--420821 Score: 4008
Period size: 4 Copynumber: 587.8 Consensus size: 4
418516 TGTTCTTCAA
418526 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
418574 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AGAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
418622 ATAC -TAC ATAC ATAC ATAC -TAC ATAC A-AC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
418667 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
418715 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
418763 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
418811 --AC ATAC A-AC ATAC ATAC ATTAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC A-TAC ATAC ATAC ATAC ATAC ATAC ATAC
*
418857 ATAC -TAC ATAC ATCC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
418904 ATAC ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
418951 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATACC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC
*
419000 ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC CTAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
419047 ATAC ATAC ATAC ATAC ATAC ATAC ATA- ACAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419094 ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419141 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419187 ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
419234 ATAC AT-C ATAC ATAC ATAC ATAC ATAC CTAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419281 ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
419327 ATAC ATAC ATAC ATAC AGAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419375 ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC --AC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419420 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATACC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC
419469 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419517 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419565 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419613 A-AC AT-C ATAC -TAC ATAC ATAC -TAC ATAC ATAC --AC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419655 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419703 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419751 ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419798 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-AC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
419845 ATAC ATAC ATAC ATAC ATAC ATAC A-AC CTAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419892 ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
419939 ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC CTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
419985 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420031 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
420078 ATAC ATAC ATAC ATAC AGAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420125 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
420171 ATCC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420218 ATAC ATAC ATAC ATAC AT-- ATAC ATAC --AC ATAC AT-C ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420261 -TAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
420307 ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC CTAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
420354 -TAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC CTAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
420400 ATAC ATAC ATAC ATAC ATAC ATAC ATAC CTAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
420448 ATAC ATAC ATAC ACAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
420495 ATAC ATAC ATAC ATAC ATAC --AC ATAC ATA- ATAC AGAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420540 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420588 ATAC ATAC ATAC -TAC ATAC A-AC ATAC ATAC ATAC ATAC AT-C ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420633 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAAC ATAC ATAC AT-- ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-AC ATAC ATAC ATAC ATAC
420680 ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420727 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
420775 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
420822 TAATAACGCT
Statistics
Matches: 2199, Mismatches: 30, Indels: 126
0.93 0.01 0.05
Matches are distributed among these distances:
2 22 0.01
3 109 0.05
4 2052 0.93
5 16 0.01
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:421435 original size:53 final size:53
Alignment explanation
Indices: 421271--421428 Score: 253
Period size: 53 Copynumber: 3.0 Consensus size: 53
421261 ACTAAGGTAA
* * *
421271 CGAAAAGGTAATTCACAAACTCATTATGAATACCATGGGTGCACAGATAGTGC
1 CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGC
**
421324 CAGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCATTCATAGTGC
1 C-GAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGC
*
421378 CGAAATGGTAATTCACAAACTCATTTTGAATACCATGGATGCACACATAGT
1 CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGT
421429 TTCGAAAGTA
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
53 48 0.50
54 48 0.50
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (53 bp):
CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGC
Found at i:422014 original size:19 final size:20
Alignment explanation
Indices: 421978--422015 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
421968 TTTGGCAATG
* *
421978 TACATCAATTATTGAGTAAT
1 TACATCAATCATTCAGTAAT
421998 TACA-CAATCATTCAGTAA
1 TACATCAATCATTCAGTAA
422016 CTTTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (20 bp):
TACATCAATCATTCAGTAAT
Found at i:429097 original size:131 final size:131
Alignment explanation
Indices: 428871--429197 Score: 390
Period size: 131 Copynumber: 2.5 Consensus size: 131
428861 GTGAAAACAA
*
428871 TAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCGTACCTTAAGACAATCATTTATTAC
1 TAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAGACAATCATTTATTAC
* * ** ** *
428936 CCCAATCGAAATGAAGATGTGTCATTATTCCATCTTA-AAATTCAATATCGATTCGAGGGAAAAT
66 CCCAATCGAAATAAAGATGTATCACCATTCCATCTTAGAAA-TCAATATCGATTCGAGAAAAAAG
429000 GG
130 GG
* * * *
429002 TAATATCTAATAATTTCCAATCGAGAATAAATGACCTCTCATACCTTAA-AGCAGTTATTTATTG
1 TAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAGA-CAATCATTTATTA
* * *
429066 CTCCAATTGAAATAAAGA-GATATCACCATTCCATCTTAGAAATCAATATTGATTCGAGAAAAAA
65 CCCCAATCGAAATAAAGATG-TATCACCATTCCATCTTAGAAATCAATATCGATTCGAGAAAAAA
429130 GGG
129 GGG
* * * * * * * * *
429133 TAATATCAAATTATTTCTAATCGAGAATAAATCATCTCCCATGCCCTAAAACAGTCATTTATTAC
1 TAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAGACAATCATTTATTAC
429198 TCTGACCAAA
Statistics
Matches: 167, Mismatches: 25, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
130 2 0.01
131 161 0.96
132 4 0.02
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (131 bp):
TAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAGACAATCATTTATTAC
CCCAATCGAAATAAAGATGTATCACCATTCCATCTTAGAAATCAATATCGATTCGAGAAAAAAGG
G
Found at i:429457 original size:138 final size:139
Alignment explanation
Indices: 429209--429485 Score: 547
Period size: 138 Copynumber: 2.0 Consensus size: 139
429199 CTGACCAAAA
429209 TGAGAAGATATTATTATTCTCAATGTTTATTTGAATGTTATTATTTTGAAAAACTTATCGGGAAA
1 TGAGAAGATATTATTATTCTCAATGTTTATTTGAATGTTATTATTTTGAAAAACTTATCGGGAAA
429274 ATACATGCAAAAATAAAGCGAATTAAAAGCGTATATCAAGCAAGTATAATTAATTAATCA-TTTA
66 ATACATGCAAAAATAAAGCGAATTAAAAGCGTATATCAAGCAAGTATAATTAATTAATCATTTTA
429338 CCAATATTT
131 CCAATATTT
429347 TGAGAAGATATTATTATTCTCAATGTTTATTTGAATGTTATTATTTTGAAAAACTTATCGGGAAA
1 TGAGAAGATATTATTATTCTCAATGTTTATTTGAATGTTATTATTTTGAAAAACTTATCGGGAAA
429412 ATACATGCAAAAATAAAGCGAATTAAAAGCGTATATCAAGCAAGTATAATTAATTAATCATTTTA
66 ATACATGCAAAAATAAAGCGAATTAAAAGCGTATATCAAGCAAGTATAATTAATTAATCATTTTA
429477 CCAATATTT
131 CCAATATTT
429486 AATGAGAAAT
Statistics
Matches: 138, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
138 125 0.91
139 13 0.09
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.36
Consensus pattern (139 bp):
TGAGAAGATATTATTATTCTCAATGTTTATTTGAATGTTATTATTTTGAAAAACTTATCGGGAAA
ATACATGCAAAAATAAAGCGAATTAAAAGCGTATATCAAGCAAGTATAATTAATTAATCATTTTA
CCAATATTT
Found at i:429558 original size:91 final size:91
Alignment explanation
Indices: 429403--429584 Score: 364
Period size: 91 Copynumber: 2.0 Consensus size: 91
429393 TGAAAAACTT
429403 ATCGGGAAAATACATGCAAAAATAAAGCGAATTAAAAGCGTATATCAAGCAAGTATAATTAATTA
1 ATCGGGAAAATACATGCAAAAATAAAGCGAATTAAAAGCGTATATCAAGCAAGTATAATTAATTA
429468 ATCATTTTACCAATATTTAATGAGAA
66 ATCATTTTACCAATATTTAATGAGAA
429494 ATCGGGAAAATACATGCAAAAATAAAGCGAATTAAAAGCGTATATCAAGCAAGTATAATTAATTA
1 ATCGGGAAAATACATGCAAAAATAAAGCGAATTAAAAGCGTATATCAAGCAAGTATAATTAATTA
429559 ATCATTTTACCAATATTTAATGAGAA
66 ATCATTTTACCAATATTTAATGAGAA
429585 TAAGGATGTT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.27
Consensus pattern (91 bp):
ATCGGGAAAATACATGCAAAAATAAAGCGAATTAAAAGCGTATATCAAGCAAGTATAATTAATTA
ATCATTTTACCAATATTTAATGAGAA
Found at i:436213 original size:27 final size:27
Alignment explanation
Indices: 436156--436213 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
436146 AATAGGGAGA
*
436156 ATATTTTATTTAAAACTATTTTATTTT
1 ATATTTTATTTAAAACTATTATATTTT
*
436183 -TATTTTCATTTAAAAGTA-TATATTTT
1 ATATTTT-ATTTAAAACTATTATATTTT
436209 ATATT
1 ATATT
436214 AAAATTTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (27 bp):
ATATTTTATTTAAAACTATTATATTTT
Found at i:436411 original size:31 final size:32
Alignment explanation
Indices: 436348--436412 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 32
436338 GACCACTTCA
* * **
436348 TAATTAAATAAAAAATTAAATTGACCTTATCT
1 TAATTAAATAAAAAATAAAAGTGACCAAATCT
*
436380 TAATT-AATTAAAAATAAAAGTGACCAAATCT
1 TAATTAAATAAAAAATAAAAGTGACCAAATCT
436411 TA
1 TA
436413 TTTTTTTGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 23 0.82
32 5 0.18
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (32 bp):
TAATTAAATAAAAAATAAAAGTGACCAAATCT
Found at i:436518 original size:14 final size:15
Alignment explanation
Indices: 436501--436535 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
436491 TCATAATAGT
436501 ATATTTTAA-ATAAA
1 ATATTTTAAGATAAA
*
436515 ATATTTTAAGGTAAA
1 ATATTTTAAGATAAA
436530 ATATTT
1 ATATTT
436536 ATGAGCGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (15 bp):
ATATTTTAAGATAAA
Found at i:437789 original size:48 final size:49
Alignment explanation
Indices: 437718--437814 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 49
437708 TATTATGGAA
437718 AATGAGGCCAGAGTTGTTTTTCAGTCTGAAAGACCTATAAA-ATGATGT
1 AATGAGGCCAGAGTTGTTTTTCAGTCTGAAAGACCTATAAATATGATGT
437766 AATGAGGCCAGAGTTGTTTTTCAGTCTGAAAGACCTATAAATATGATGT
1 AATGAGGCCAGAGTTGTTTTTCAGTCTGAAAGACCTATAAATATGATGT
437815 TCAAAAGGGA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 41 0.85
49 7 0.15
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (49 bp):
AATGAGGCCAGAGTTGTTTTTCAGTCTGAAAGACCTATAAATATGATGT
Found at i:445404 original size:84 final size:84
Alignment explanation
Indices: 445263--445430 Score: 336
Period size: 84 Copynumber: 2.0 Consensus size: 84
445253 TAAGTTTAAA
445263 TAAAGGTTAAATTAACATCAAATTACATGAAATTTCATGAAACTTAGGCCATTTTTTCAGCTCCA
1 TAAAGGTTAAATTAACATCAAATTACATGAAATTTCATGAAACTTAGGCCATTTTTTCAGCTCCA
445328 TTTCGTGCTCCCCATGACC
66 TTTCGTGCTCCCCATGACC
445347 TAAAGGTTAAATTAACATCAAATTACATGAAATTTCATGAAACTTAGGCCATTTTTTCAGCTCCA
1 TAAAGGTTAAATTAACATCAAATTACATGAAATTTCATGAAACTTAGGCCATTTTTTCAGCTCCA
445412 TTTCGTGCTCCCCATGACC
66 TTTCGTGCTCCCCATGACC
445431 AAGGTAAGAA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (84 bp):
TAAAGGTTAAATTAACATCAAATTACATGAAATTTCATGAAACTTAGGCCATTTTTTCAGCTCCA
TTTCGTGCTCCCCATGACC
Found at i:451019 original size:22 final size:21
Alignment explanation
Indices: 450981--451021 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
450971 CATATTCATT
*
450981 TCATCCTCAACACCATCAACA
1 TCATCCTCAACAACATCAACA
*
451002 TCATCCATCAAGAACATCAA
1 TCATCC-TCAACAACATCAA
451022 TTCCACAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.41, C:0.37, G:0.02, T:0.20
Consensus pattern (21 bp):
TCATCCTCAACAACATCAACA
Found at i:451364 original size:23 final size:23
Alignment explanation
Indices: 451338--451388 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
451328 AGAAAAGACT
* *
451338 AAAAGA-AGAAAAAATTCAGAAAA
1 AAAAGATAAAAAAAAGTCA-AAAA
451361 AAAAGATAAAAAAAAGTCAAAAA
1 AAAAGATAAAAAAAAGTCAAAAA
*
451384 GAAAG
1 AAAAG
451389 CAAGCCAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.75, C:0.04, G:0.14, T:0.08
Consensus pattern (23 bp):
AAAAGATAAAAAAAAGTCAAAAA
Found at i:453769 original size:21 final size:22
Alignment explanation
Indices: 453730--453770 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
453720 TATTGAAAAG
* *
453730 CAAAGAGTGGTAATTCTTCATC
1 CAAAGAATGGTAATCCTTCATC
453752 CAAAGAAT-GTAATCCTTCA
1 CAAAGAATGGTAATCCTTCA
453771 AGAATCGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.29
Consensus pattern (22 bp):
CAAAGAATGGTAATCCTTCATC
Found at i:457774 original size:2 final size:2
Alignment explanation
Indices: 457767--457832 Score: 116
Period size: 2 Copynumber: 33.5 Consensus size: 2
457757 AATTTTGAGT
*
457767 TA TA TA TA TA TA TA TA TA GA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
457808 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
457833 TATGCGATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:466185 original size:54 final size:54
Alignment explanation
Indices: 466098--466314 Score: 303
Period size: 54 Copynumber: 4.0 Consensus size: 54
466088 GATGTATATG
466098 TTGT-AATTACCATATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
1 TTGTGAATTACCATATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* * * * *
466151 TTGTGAATTATCATATCGACACTATGTATACAACCCACGTAATTCATAGTGAGT
1 TTGTGAATTACCATATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* *
466205 TTGTGAATTACCGTATCGGCACTATGTGTGCAATCCACGTAATTCATAATGAGT
1 TTGTGAATTACCATATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* * * *
466259 TTGTGAATTACCGTATCGTCACTATGTGTGCAAAACCACATAAATT-ATAATGAGT
1 TTGTGAATTACCATATCGGCACTATGTGTGC-AACCCACGT-AATTCATAATGAGT
466314 T
1 T
466315 GAAATATTCA
Statistics
Matches: 146, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
53 4 0.03
54 121 0.83
55 17 0.12
56 4 0.03
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (54 bp):
TTGTGAATTACCATATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
Found at i:469531 original size:58 final size:58
Alignment explanation
Indices: 469449--469770 Score: 247
Period size: 59 Copynumber: 5.5 Consensus size: 58
469439 ATGGCCCCTT
* * *
469449 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATAGAGCACCTG
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTATATGGATTTCCAGATAGAGCA-CTG
* ** * * * *
469508 GTGTGCT-AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTT
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTATATGGATTTCCAGATAGAGCA-CTG
* * * * * * * * *
469566 ATGTGCTAAAATGGTAAGGAAATCACATTTAGTGTATAGATTTCCATATGGAGCACTG
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTATATGGATTTCCAGATAGAGCACTG
* * * ** * *
469624 AGTGAG-TTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATA-AGGCATTTT
1 -GTGTGCTAAAATGATAAGGAAATCATACTGAGTATATGGATTTCCAGATAGA-GCA-CTG
* * * * * * *
469683 ATGGGCTAAAATGGTAAGGGAATCATACTGAGTATATGGATTTCTAGATAAAGTACTAAG
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTATATGGATTTCCAGATAGAGCACT--G
*
469743 G-GTGCTACAATGATAAGGAAATCATACT
1 GTGTGCTAAAATGATAAGGAAATCATACT
469771 AATGGTATGG
Statistics
Matches: 201, Mismatches: 54, Indels: 16
0.74 0.20 0.06
Matches are distributed among these distances:
57 1 0.00
58 89 0.44
59 110 0.55
60 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (58 bp):
GTGTGCTAAAATGATAAGGAAATCATACTGAGTATATGGATTTCCAGATAGAGCACTG
Found at i:469656 original size:117 final size:117
Alignment explanation
Indices: 469450--469817 Score: 461
Period size: 117 Copynumber: 3.1 Consensus size: 117
469440 TGGCCCCTTG
*
469450 TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATAGAGCACCTG-GTGTGC
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATAGAGCA-CTGAGTGTGC
469514 TAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
65 TAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
* * * * * *
469567 TGTGCTAAAATGGTAAGGAAATCACATTTAGTGTATAGATTTCCATATGGAGCACTGAGTGAGTT
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATAGAGCACTGAGTGTGCT
* *
469632 AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAAGGCATTTTA
66 AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
* * * * * * * * * *
469684 TGGGCTAAAATGGTAAGGGAATCATACTGAGTATATGGATTTCTAGATAAAGTACTAAGGGTGCT
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATAGAGCACTGAGTGTGCT
* ** * ** *
469749 ACAATGATAAGGAAATCATACT-AATGGTATGGATTTTCTCATAGGGCATTTGA
66 A-AATGATAAGGAAATCATATTGAA-AATATGGATTTCCAAATAGGGCATTTTA
469802 TGTGCTAAAATGGTAA
1 TGTGCTAAAATGGTAA
469818 CAAAATTATA
Statistics
Matches: 214, Mismatches: 34, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
116 3 0.01
117 156 0.73
118 55 0.26
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (117 bp):
TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATAGAGCACTGAGTGTGCT
AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
Found at i:469807 original size:59 final size:59
Alignment explanation
Indices: 469744--469877 Score: 157
Period size: 59 Copynumber: 2.3 Consensus size: 59
469734 AGTACTAAGG
* * * *
469744 GTGCTACAATGATAAGGAAATCATACTAATGGTATGGATTTTCT-CATAGGGCA-TTTGAT
1 GTGCTAAAATGATAAGGAAATCATACTAATGGTATGAATTTT-TGAATAGGACACTTTG-T
* ** *
469803 GTGCTAAAATGGTAACAAAATTATACTAATGGTATGAATTTTTGAATAGGACACTTTGT
1 GTGCTAAAATGATAAGGAAATCATACTAATGGTATGAATTTTTGAATAGGACACTTTGT
469862 GTGCTAAAATGA-AAGG
1 GTGCTAAAATGATAAGG
469878 GGAAGCATAC
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
58 3 0.05
59 55 0.89
60 4 0.06
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.33
Consensus pattern (59 bp):
GTGCTAAAATGATAAGGAAATCATACTAATGGTATGAATTTTTGAATAGGACACTTTGT
Found at i:470114 original size:45 final size:45
Alignment explanation
Indices: 470007--470762 Score: 1057
Period size: 44 Copynumber: 17.2 Consensus size: 45
469997 AAATGAGGTT
* * *
470007 AATGG-AAGTATATTGGTAAATTAAGCTTATGAGCTTATGTAAT-
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
470050 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
*
470095 AATGGTAAGTATGTTGGTAAAATAAGCTTACGAGCTTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
*
470140 AATGGTAAGTATGTTGGTAAAATAAGCTTACGAGCTTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
* * *
470185 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCATATGGGAT-
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
*
470229 AATGGTAA--ATA----T---ATAAGCTTACGAGATTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
** * *
470265 AATGGTAAGTACGTTGGTAAAATAAGTTTATGAGCTTAT-GAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
* * *
470309 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAACTTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
* *
470354 AATGTTAAGTATGTTGGTAAAAT-AGACTTACGAGCTTATGGAAT-
1 AATGGTAAGTATATTGGTAAAATAAG-CTTACGAGCTTATGGAATA
470398 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAT-
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
470442 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAT-
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
* * *
470486 AATGGTAACTATATTGGTAAAATAGGCTTACGAGCTTATGAAAT-
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
*
470530 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
* *
470575 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAAT-
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
** *
470619 AATGGTAAACATATTGGTAAAATAGGCTTACGAGCTTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
* *
470664 AATGGTAAGTATGTTAGTAAAATAAGCTTACGAGCTTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
* * *
470709 GATGGTAAGTATGTTGGTAAAAATAAGTTTACGAGCTTATAGG-ATA
1 AATGGTAAGTATATTGGT-AAAATAAGCTTACGAGCTTAT-GGAATA
470755 AATGGTAA
1 AATGGTAA
470763 ATTTATTGAT
Statistics
Matches: 649, Mismatches: 45, Indels: 35
0.89 0.06 0.05
Matches are distributed among these distances:
35 19 0.03
36 8 0.01
38 2 0.00
42 4 0.01
43 5 0.01
44 290 0.45
45 289 0.45
46 30 0.05
47 2 0.00
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.32
Consensus pattern (45 bp):
AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
Found at i:470348 original size:89 final size:89
Alignment explanation
Indices: 470245--470762 Score: 758
Period size: 89 Copynumber: 5.8 Consensus size: 89
470235 AAATATATAA
* ** * *
470245 GCTTACGAGATTATGGAATAAATGGTAAGTACGTTGGTAAAATAAGTTTATGAGCTTAT-GAATA
1 GCTTACGAGCTTATGGAAT-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
470309 AATGGTAAGTATGTTGGTAAAATAG
65 AATGGTAAGTATGTTGGTAAAATAG
* * *
470334 GCTTACGAACTTATGGAATAAATGTTAAGTATGTTGGTAAAAT-AGACTTACGAGCTTATGGAAT
1 GCTTACGAGCTTATGGAAT-AATGGTAAGTATATTGGTAAAATAAG-CTTACGAGCTTATGGAAT
* *
470398 -AATGGTAAGTATATTGGTAAAATAA
64 AAATGGTAAGTATGTTGGTAAAATAG
470423 GCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAT-A
1 GCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAA
* *
470487 ATGGTAACTATATTGGTAAAATAG
66 ATGGTAAGTATGTTGGTAAAATAG
* *
470511 GCTTACGAGCTTATGAAATAATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATAA
1 GCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAA
470576 ATGGTAAGTATGTTGGTAAAATAG
66 ATGGTAAGTATGTTGGTAAAATAG
** *
470600 GCTTACGAGCTTATGGAATAATGGTAAACATATTGGTAAAATAGGCTTACGAGCTTATGGAATAA
1 GCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAA
* *
470665 ATGGTAAGTATGTTAGTAAAATAA
66 ATGGTAAGTATGTTGGTAAAATAG
* *
470689 GCTTACGAGCTTATGGAATAGATGGTAAGTATGTTGGTAAAAATAAGTTTACGAGCTTATAGG-A
1 GCTTACGAGCTTATGGAATA-ATGGTAAGTATATTGGT-AAAATAAGCTTACGAGCTTAT-GGAA
470753 TAAATGGTAA
63 TAAATGGTAA
470763 ATTTATTGAT
Statistics
Matches: 395, Mismatches: 27, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
88 125 0.32
89 220 0.56
90 18 0.05
91 30 0.08
92 2 0.01
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.32
Consensus pattern (89 bp):
GCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAA
ATGGTAAGTATGTTGGTAAAATAG
Found at i:472868 original size:36 final size:37
Alignment explanation
Indices: 472828--472904 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 37
472818 ATATAAATAA
472828 ATAAAAAC-AGAAATAGAATATTAAGAAAAAATATAT
1 ATAAAAACGAGAAATAGAATATTAAGAAAAAATATAT
* *
472864 ATAAAAACGTATAAATATAATATTAAGAAAAAATATAT
1 ATAAAAACG-AGAAATAGAATATTAAGAAAAAATATAT
472902 ATA
1 ATA
472905 CATAGTAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 8 0.22
38 29 0.78
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (37 bp):
ATAAAAACGAGAAATAGAATATTAAGAAAAAATATAT
Found at i:472985 original size:25 final size:25
Alignment explanation
Indices: 472939--472987 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
472929 ACATCTATAC
* *
472939 ATATATATATATATAATGATATAAG
1 ATATATATATATAAAATAATATAAG
472964 ATATATATA-ATAAAAATAATATAA
1 ATATATATATAT-AAAATAATATAA
472988 TATAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (25 bp):
ATATATATATATAAAATAATATAAG
Found at i:473007 original size:23 final size:23
Alignment explanation
Indices: 472964--473009 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
472954 ATGATATAAG
* *
472964 ATATATATAATAAAAATAATATA
1 ATATAAATAATAAAAAGAATATA
472987 ATATAAATAA-AAAAAGGAATATA
1 ATATAAATAATAAAAA-GAATATA
473010 GTAAATAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (23 bp):
ATATAAATAATAAAAAGAATATA
Found at i:473028 original size:21 final size:20
Alignment explanation
Indices: 472959--473030 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
472949 ATATAATGAT
472959 ATAAGATATATATAATAAAAATA
1 ATAA-ATATATA-AATAAAAA-A
*
472982 ATATA-ATATAAATAAAAAA
1 ATAAATATATAAATAAAAAA
** *
473001 AGGAATATAGTAAATAAAGAA
1 ATAAATATA-TAAATAAAAAA
473022 ATAAATATA
1 ATAAATATA
473031 ATTAAAAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
19 3 0.08
20 11 0.28
21 22 0.55
22 1 0.03
23 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (20 bp):
ATAAATATATAAATAAAAAA
Found at i:474183 original size:85 final size:83
Alignment explanation
Indices: 474069--474254 Score: 205
Period size: 83 Copynumber: 2.2 Consensus size: 83
474059 CAATTTTCGT
* * * * * * *
474069 TGACAAATAGCCCTTCTTGCCTTGAGTTATACTGTAAATT-TGATTTACCTCT-GAGTTGAATGT
1 TGACAGATAACCCTTCTTACCTTGAGTTATACTGCAAATTATG-TGT--CT-TGGAGCTGAACGT
474132 AATCGAACTCGAAGGTCTTTGA
62 AATCGAACTCGAAGGTCTTTGA
* ** * *
474154 TGATAGATAACCCTTCTTACCTTGAGTTATGTTGCAAATTATGTGTCTTGGAGCTGAGCGTAGTC
1 TGACAGATAACCCTTCTTACCTTGAGTTATACTGCAAATTATGTGTCTTGGAGCTGAACGTAATC
*
474219 GAACTCGAAGGTCTTTGT
66 GAACTCGAAGGTCTTTGA
474237 TGACAGATAACCCTTCTT
1 TGACAGATAACCCTTCTT
474255 TGAGTTGGAT
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
82 1 0.01
83 47 0.55
85 35 0.41
86 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (83 bp):
TGACAGATAACCCTTCTTACCTTGAGTTATACTGCAAATTATGTGTCTTGGAGCTGAACGTAATC
GAACTCGAAGGTCTTTGA
Found at i:474648 original size:110 final size:108
Alignment explanation
Indices: 474434--474692 Score: 314
Period size: 110 Copynumber: 2.4 Consensus size: 108
474424 AGTATTGTTC
*
474434 CGAGTCCAATATCCTCCA-TCGTGAAGTTGAAATTGGCTCTG--GAACTGAGAAATTGTTTGTTG
1 CGAGTCCAATATCCTTCACT-GTGAAGTTGAAATTGGCTCTGAAGAACTGAGAAATTGTTTGTTG
* *
474496 ACAGCCAGCCGCCTCTTCCCTGTGAAGTTGAGCTTGTGTTGTCT
65 ACAACCAGCCGCCTCTTCCCTATGAAGTTGAGCTTGTGTTGTCT
* *
474540 CGAGTTCAATATCCTTCACTGTGAAGTTGAAATTGACTCTGAATGAAACTGA-AAAGTTGTTTGT
1 CGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAA-G-AACTGAGAAA-TTGTTTGT
* ** *
474604 TGACAATCAGTCAC-CCT-TTCGTTATGAAGTTGAGTTTGTGTTGTCT
63 TGACAACCAG-C-CGCCTCTTCCCTATGAAGTTGAGCTTGTGTTGTCT
* * *
474650 TGAGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCTCTGAA
1 CGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAA
474693 ACTGGGAAGC
Statistics
Matches: 131, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
106 36 0.27
107 1 0.01
109 4 0.03
110 85 0.65
111 4 0.03
112 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (108 bp):
CGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAGAACTGAGAAATTGTTTGTTGA
CAACCAGCCGCCTCTTCCCTATGAAGTTGAGCTTGTGTTGTCT
Found at i:475416 original size:68 final size:65
Alignment explanation
Indices: 475285--475486 Score: 210
Period size: 67 Copynumber: 3.0 Consensus size: 65
475275 GATAGAATTC
* * *
475285 GTTTCAAGGGAAAT-AATCTCAAAGATATATGTTGTTTCATGA-AAACGGTCTCAATGGAAACAA
1 GTTT-AAGGGAAATAAAT-TCAAAG--AT-T-TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAA
475348 AATTTTG
60 AA-TTTG
**
475355 GTTTAAGGGAAATAAATTTGAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATT
1 GTTTAAGGGAAATAAATTCAAAGA-TTT-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATT
475420 TG
64 TG
* * * * * *
475422 TTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTG
1 GTTTAAGGGAAATAAATTCAAAGATTTTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTG
475487 TTTCAAGAGA
Statistics
Matches: 115, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
65 34 0.30
66 4 0.03
67 35 0.30
68 22 0.19
69 13 0.11
70 7 0.06
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.31
Consensus pattern (65 bp):
GTTTAAGGGAAATAAATTCAAAGATTTTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTG
Found at i:475471 original size:65 final size:67
Alignment explanation
Indices: 475280--475498 Score: 230
Period size: 65 Copynumber: 3.3 Consensus size: 67
475270 AAAGCGATAG
* * * * * *
475280 AATTCGTTTCAAGGGAAAT-AATCTCAAAGATATATGTTGTTTCATGA-AAACGGTCTCAATGGA
1 AATTTGTTTTAAGGGAAATAAAT-TCAAAGAT-TTTG-TGTTTCAAGAGAAACTGTCTCAAGGGA
475343 AACAA
63 AACAA
* **
475348 AATTTTGGTTTAAGGGAAATAAATTTGAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAAA
1 AA-TTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAAA
475413 CAA
65 CAA
* * * *
475416 AATTTGTTTTAGGGGAAATAAATTCAAAGA-TTT-TGTTTCAAGGGAAACTGTCTCAAGAGAGAC
1 AATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAAAC
*
475479 GA
66 AA
* *
475481 AATTTGTTTCAAGAGAAA
1 AATTTGTTTTAAGGGAAA
475499 CTGTCTCAAG
Statistics
Matches: 128, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
65 43 0.34
66 3 0.02
67 33 0.26
68 26 0.20
69 20 0.16
70 3 0.02
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.31
Consensus pattern (67 bp):
AATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAAAC
AA
Found at i:475499 original size:36 final size:36
Alignment explanation
Indices: 475447--475753 Score: 234
Period size: 36 Copynumber: 8.9 Consensus size: 36
475437 ATTCAAAGAT
475447 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
* *
475483 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
* ** * *
475519 TTTAGTTCCAAAAGAAACTGTCTCAAGGGAGATGAAA
1 TTT-GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
*** * *
475556 TTTGTTTCAAATAAAACATAT-TC---A-A-A--TAA
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACGAAA
* *
475585 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
*
475621 TTTGTTTCAAGGGAAACTGTCTCAAGAGATACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
* * * *
475657 TTTATTTCAAGGGAAA-TGTTTTC-----A-ATG--T
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACGAAA
* * *
475685 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
1 TT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
* *
475722 TTTTGTTTCAAGGGAAACTATCTCAAGCGAGA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
475754 TAAAATCTTC
Statistics
Matches: 216, Mismatches: 33, Indels: 43
0.74 0.11 0.15
Matches are distributed among these distances:
28 5 0.02
29 33 0.15
30 4 0.02
31 2 0.01
32 2 0.01
33 1 0.00
34 2 0.01
35 3 0.01
36 103 0.48
37 59 0.27
38 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
Found at i:475557 original size:138 final size:138
Alignment explanation
Indices: 475393--475660 Score: 383
Period size: 138 Copynumber: 1.9 Consensus size: 138
475383 GTGTTTCAAG
* ** * * *
475393 AGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAAACAAAATTTGTTTCAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
* *
475458 GGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTA
66 GGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTA
475523 GTTCCAAA
131 GTTCCAAA
* ** * * *
475531 AGAAACTGTCTCAAGGGAGATGAAATTTGTTTCAAATAAAACATATTCAAATAATTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAAACAAAATTTGTTTCAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
* * *
475596 GGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGATACGAAATTTA
66 GGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTA
475661 TTTCAAGGGA
Statistics
Matches: 113, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
138 113 1.00
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (138 bp):
AGAAACTGTCTCAAGGGAAACAAAATTTGTTTCAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
GGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTA
GTTCCAAA
Found at i:475601 original size:29 final size:29
Alignment explanation
Indices: 475554--475609 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
475544 AGGGAGATGA
*
475554 AATTTGTTTCAAATAAAACATAT-TCAAAT
1 AATTTGTTTCAAAGAAAAC-TATCTCAAAT
* *
475583 AATTTGTTTCAAGGGAAACTATCTCAA
1 AATTTGTTTCAAAGAAAACTATCTCAA
475610 GAGAGACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.13
29 20 0.87
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (29 bp):
AATTTGTTTCAAAGAAAACTATCTCAAAT
Found at i:475610 original size:102 final size:100
Alignment explanation
Indices: 475481--475759 Score: 333
Period size: 101 Copynumber: 2.8 Consensus size: 100
475471 AGAGAGACGA
* **
475481 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTAGTTCCAAAAGAAACTGTCTCAAG
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT-GTTTCAAGGGAAACTGTCTCAAG
* * *
475546 GGAGATGAAATTTGTTTCAAATAAAACATATTCAAAT
65 AGAGATGAAATTTATTTCAAAGAAAACATATTC-AAT
* *
475583 AATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGA
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGA
* * * * ** *
475648 GATACGAAATTTATTTCAAGGGAAATGTTTTCAAT
66 GAGATGAAATTTATTTCAAAGAAAACATATTCAAT
** * *
475683 GTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAA
1 AATT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAA
* *
475748 GCGAGATAAAAT
64 GAGAGATGAAAT
475760 CTTCTTTTTA
Statistics
Matches: 150, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
100 5 0.03
101 74 0.49
102 71 0.47
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (100 bp):
AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGA
GAGATGAAATTTATTTCAAAGAAAACATATTCAAT
Found at i:475739 original size:37 final size:37
Alignment explanation
Indices: 475688--475759 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
475678 TCAATGTTTA
* *
475688 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATTT
* *
475725 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAAT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAAT
475760 CTTCTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATTT
Found at i:477335 original size:69 final size:69
Alignment explanation
Indices: 477220--477357 Score: 240
Period size: 69 Copynumber: 2.0 Consensus size: 69
477210 TGTCTCTCTC
*
477220 TTGATGCTCTATGACCTTCGAGTGGAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGACCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
477285 TCAT
66 TCAT
* * *
477289 TTGATGCTCTATGATCTTCGAGTGAAGTGGTTCAGTGATTCGGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGACCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
477354 TCAT
66 TCAT
477358 AGTTTGAATC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (69 bp):
TTGATGCTCTATGACCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
TCAT
Found at i:477439 original size:27 final size:28
Alignment explanation
Indices: 477408--477474 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
477398 ATGCATCTTG
*
477408 TTTTCTTTTTTCTTTAAT-TTTCCTTTT
1 TTTTCTTTTTTATTTAATCTTTCCTTTT
** *
477435 TTTTCTCTTTTTATTTTCTCTTTGCTTTT
1 TTTTCT-TTTTTATTTAATCTTTCCTTTT
*
477464 TTCTCTTTTTT
1 TTTTCTTTTTT
477475 TCTCTTTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 6 0.18
28 14 0.42
29 13 0.39
ACGTcount: A:0.04, C:0.16, G:0.01, T:0.78
Consensus pattern (28 bp):
TTTTCTTTTTTATTTAATCTTTCCTTTT
Found at i:477444 original size:11 final size:11
Alignment explanation
Indices: 477425--477488 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 11
477415 TTTTCTTTAA
477425 TTTTC-CTTTT
1 TTTTCTCTTTT
477435 TTTTCTCTTTTT
1 TTTTCTC-TTTT
477447 ATTTTCTCTTTGCT
1 -TTTTCTCTTT--T
477461 TTTT-TCTCTTT
1 TTTTCTCT-TTT
477472 TTTTCTCTTTT
1 TTTTCTCTTTT
*
477483 TATTCT
1 TTTTCT
477489 GATTGAATCT
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
10 5 0.11
11 14 0.30
12 13 0.28
13 13 0.28
14 1 0.02
ACGTcount: A:0.03, C:0.19, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTCTCTTTT
Found at i:477465 original size:14 final size:12
Alignment explanation
Indices: 477431--477483 Score: 65
Period size: 13 Copynumber: 4.3 Consensus size: 12
477421 TTAATTTTCC
477431 TTTTTTTTCTCT
1 TTTTTTTTCTCT
477443 TTTTATTTTCTCT
1 TTTT-TTTTCTCT
477456 TTGCTTTTTTCTC-
1 TT--TTTTTTCTCT
477469 -TTTTTTTCTCT
1 TTTTTTTTCTCT
477480 TTTT
1 TTTT
477484 ATTCTGATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
10 9 0.25
12 8 0.22
13 10 0.28
14 7 0.19
15 2 0.06
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTTTTTCTCT
Found at i:480703 original size:18 final size:17
Alignment explanation
Indices: 480671--480717 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
480661 TATTAATGGT
480671 GTAAAAAAATAAAAAAG
1 GTAAAAAAATAAAAAAG
*
480688 GTAAAAGAAATTAAAAAG
1 GTAAAA-AAATAAAAAAG
480706 G-AATAAAAATAA
1 GTAA-AAAAATAA
480718 TTTGTACATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (17 bp):
GTAAAAAAATAAAAAAG
Found at i:480719 original size:20 final size:17
Alignment explanation
Indices: 480671--480715 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
480661 TATTAATGGT
*
480671 GTAAAAAAATAAAAAAG
1 GTAAAAAAATTAAAAAG
480688 GTAAAAGAAATTAAAAAG
1 GTAAAA-AAATTAAAAAG
480706 G-AATAAAAAT
1 GTAA-AAAAAT
480716 AATTTGTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (17 bp):
GTAAAAAAATTAAAAAG
Found at i:480866 original size:28 final size:28
Alignment explanation
Indices: 480818--480888 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
480808 GATATTAAGA
480818 AAAAAAAGAATAGAA-A-A-AAATAAA-T
1 AAAAAAA-AATAGAATATATAAATAAATT
* *
480843 AAAGTAAAAATATAATATATAAATAAATT
1 AAA-AAAAAATAGAATATATAAATAAATT
480872 AAAAAAAAATAGAATAT
1 AAAAAAAAATAGAATAT
480889 TAAGAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
25 9 0.24
26 4 0.11
27 1 0.03
28 19 0.51
29 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (28 bp):
AAAAAAAAATAGAATATATAAATAAATT
Found at i:480909 original size:58 final size:59
Alignment explanation
Indices: 480811--480924 Score: 135
Period size: 58 Copynumber: 1.9 Consensus size: 59
480801 TATACATGAT
*
480811 ATTAAGAAAAAAAAGAATAGAAAAAAATAAATAAAGTAAAAA-TATAATATATAAATAA
1 ATTAAGAAAAAAAAGAATAGAAAAAAATAAATAAAGTAAAAACTATAAAATATAAATAA
* * * *
480869 ATTAA-AAAAAAATAGAATATTAAGAAAATATATATA-TAAAAACGTATAAAATATAA
1 ATTAAGAAAAAAA-AGAATA-GAAAAAAATAAATAAAGTAAAAAC-TATAAAATATAA
480925 CATTAAGAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
57 7 0.15
58 17 0.36
59 12 0.26
60 11 0.23
ACGTcount: A:0.69, C:0.01, G:0.06, T:0.24
Consensus pattern (59 bp):
ATTAAGAAAAAAAAGAATAGAAAAAAATAAATAAAGTAAAAACTATAAAATATAAATAA
Found at i:480977 original size:2 final size:2
Alignment explanation
Indices: 480970--481005 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
480960 AAATTAATAA
*
480970 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AG AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
481006 ATAAAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:481046 original size:21 final size:18
Alignment explanation
Indices: 480999--481077 Score: 56
Period size: 18 Copynumber: 4.4 Consensus size: 18
480989 TATATATAAG
**
480999 ATATAT-AATAAAAATTA
1 ATATATAAATAAAAAAAA
481016 ATA-A-AAATAAAAAAAGGA
1 ATATATAAATAAAAAAA--A
*
481034 ATATAGTAAATAAATAAAA
1 ATATA-TAAATAAAAAAAA
* * *
481053 ATATATAATTAAAAATAT
1 ATATATAAATAAAAAAAA
481071 ATATATA
1 ATATATA
481078 GAGGACGAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
16 9 0.18
17 3 0.06
18 20 0.41
19 7 0.14
21 10 0.20
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
ATATATAAATAAAAAAAA
Found at i:481065 original size:14 final size:14
Alignment explanation
Indices: 481043--481073 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
481033 AATATAGTAA
481043 ATAAATAAAAATAT
1 ATAAATAAAAATAT
*
481057 ATAATTAAAAATAT
1 ATAAATAAAAATAT
481071 ATA
1 ATA
481074 TATAGAGGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAATAAAAATAT
Found at i:484255 original size:29 final size:29
Alignment explanation
Indices: 484206--484273 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
484196 ATAAGCCTTA
* * * *
484206 GAAAATTTGAGGATCATTTCATAATTTTTG
1 GAAAA-TTGAGGATCAATTCACAAATTCTG
*
484236 GAAAATTGGGGATCAATTCACAAATTCTG
1 GAAAATTGAGGATCAATTCACAAATTCTG
484265 GAAAATTGA
1 GAAAATTGA
484274 TGGGTTATTG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 27 0.84
30 5 0.16
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (29 bp):
GAAAATTGAGGATCAATTCACAAATTCTG
Found at i:484958 original size:58 final size:58
Alignment explanation
Indices: 484876--485197 Score: 281
Period size: 59 Copynumber: 5.5 Consensus size: 58
484866 ATGGCACCTT
*
484876 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGTAGCACTGG
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCAGATG-AGCACTGG
* *** * * * * **
484935 GTGTGCT-AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTT
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCAGAT-GAGCACTGG
* * * *
484993 ATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCAGAT-GAGCACTGG
* *** * * * **
485052 GTGTGCT-AAATGATAAGGAAATCATATTGAAAATATTGATTTCCAGATAGGGCATTTT
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCAGAT-GAGCACTGG
* * * * * * *
485110 ATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAAAGTACTAAG
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCAGAT-GAGCACT-GG
*
485170 G-GTGCTACAATGATAAGGAAATCATACT
1 GTGTGCTAAAATGATAAGGAAATCATACT
485198 AATGGTTTGG
Statistics
Matches: 205, Mismatches: 54, Indels: 8
0.77 0.20 0.03
Matches are distributed among these distances:
58 90 0.44
59 115 0.56
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (58 bp):
GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCAGATGAGCACTGG
Found at i:485083 original size:117 final size:117
Alignment explanation
Indices: 484877--485244 Score: 524
Period size: 117 Copynumber: 3.1 Consensus size: 117
484867 TGGCACCTTG
* * *
484877 TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGTAGCACTGGGTGTGCT
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGAAGCACTGAGTGTGCT
484942 AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
66 AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
*
484994 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGAAGCACTGAGTGTGCT
* *
485059 AAATGATAAGGAAATCATATTGAAAATATTGATTTCCAGATAGGGCATTTTA
66 AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
* * * * * * *
485111 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAAAGTACTAAGGGTGCT
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGAAGCACTGAGTGTGCT
* ** * * *
485176 ACAATGATAAGGAAATCATACT-AATGGTTTGGATTTTCACAA-AGGGCATTTGA
66 A-AATGATAAGGAAATCATATTGAA-AATATGGATTTCCA-AATAGGGCATTTTA
485229 TGTGCTAAAATGGTAA
1 TGTGCTAAAATGGTAA
485245 CAAAATTATA
Statistics
Matches: 227, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
117 172 0.76
118 54 0.24
119 1 0.00
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (117 bp):
TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGAAGCACTGAGTGTGCT
AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
Found at i:485545 original size:45 final size:45
Alignment explanation
Indices: 485433--486152 Score: 1125
Period size: 44 Copynumber: 16.2 Consensus size: 45
485423 TAATGAGGTT
* *
485433 AATGG-AAGTATATTGGTAAATTAAGCTTACTAGCTTATGGAAT-
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
*
485476 AATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
*
485521 AATGGTAAGTATGTTGGTAAAATAAGCTTACGAGCTTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
* * * * *
485566 AATGGAAAGTATGTTGGTAAAATAGGCTTACAAGATTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
* * *
485611 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGG-ATT
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
*
485655 AATGGTAAATATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
*
485700 AATGGTAAGTATGTTGGTAAAATAAGCTTACGAGCTTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
* *
485745 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAAT-
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
485789 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAT-
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
*
485833 AATGGTAAGTATATTGGTAAAATACGCTTACGAGCTTATGGAAT-
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
485877 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAT-
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
*
485921 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAAT-
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
* *
485965 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
* *
486010 AATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAAT-
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
* *
486054 AATGGTAAGTATATTAGTAAAATAGGCTTACGAGCTTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
* * *
486099 AATGGTAAGTATGTTGGTAAAAATAAGTTTACGAGCTTATGGGATA
1 AATGGTAAGTATATTGGT-AAAATAAGCTTACGAGCTTATGGAATA
486145 AATGGTAA
1 AATGGTAA
486153 ATTTATTGAT
Statistics
Matches: 638, Mismatches: 33, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
43 4 0.01
44 332 0.52
45 270 0.42
46 32 0.05
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.32
Consensus pattern (45 bp):
AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
Found at i:485717 original size:89 final size:89
Alignment explanation
Indices: 485432--486152 Score: 1128
Period size: 89 Copynumber: 8.1 Consensus size: 89
485422 ATAATGAGGT
* * *
485432 TAATGG-AAGTATATTGGTAAATTAAGCTTACTAGCTTATGGAAT-AATGATAAGTATATTGGTA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
485495 AAATAAGCTTACGAGCTTATGGAA
66 AAATAGGCTTACGAGCTTATGGAA
* * *
485519 TAAATGGTAAGTATGTTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGAAAGTATGTTGGT
1 T-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* *
485584 AAAATAGGCTTACAAGATTATGGAA
65 AAAATAGGCTTACGAGCTTATGGAA
* * * *
485609 TAAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGG-ATTAATGGTAAATATATTGGT
1 T-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
*
485673 AAAATAAGCTTACGAGCTTATGGAA
65 AAAATAGGCTTACGAGCTTATGGAA
* *
485698 TAAATGGTAAGTATGTTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATGTTGGT
1 T-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
485763 AAAATAGGCTTACGAGCTTATGGAA
65 AAAATAGGCTTACGAGCTTATGGAA
485788 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAT-AATGGTAAGTATATTGGTA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
485852 AAATACGCTTACGAGCTTATGGAA
66 AAATAGGCTTACGAGCTTATGGAA
485876 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAT-AATGGTAAGTATATTGGTA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
485940 AAATAGGCTTACGAGCTTATGGAA
66 AAATAGGCTTACGAGCTTATGGAA
* * *
485964 TAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAATAAATGGTAAGTATGTTGGTA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
486029 AAATAGGCTTACGAGCTTATGGAA
66 AAATAGGCTTACGAGCTTATGGAA
* * *
486053 TAATGGTAAGTATATTAGTAAAATAGGCTTACGAGCTTATGGAATAAATGGTAAGTATGTTGGTA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT-
* * *
486118 AAAATAAGTTTACGAGCTTATGGGA
65 AAAATAGGCTTACGAGCTTATGGAA
486143 TAAATGGTAA
1 T-AATGGTAA
486153 ATTTATTGAT
Statistics
Matches: 593, Mismatches: 34, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
87 1 0.00
88 176 0.30
89 263 0.44
90 145 0.24
91 8 0.01
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.32
Consensus pattern (89 bp):
TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
AAATAGGCTTACGAGCTTATGGAA
Found at i:490524 original size:3 final size:3
Alignment explanation
Indices: 490511--490540 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
490501 TGAAACTTTG
490511 TTC TT- TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
490541 CATTGTCCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:491580 original size:54 final size:54
Alignment explanation
Indices: 491513--492029 Score: 759
Period size: 54 Copynumber: 9.6 Consensus size: 54
491503 AATGTATATG
* *
491513 TTGT-AATTACCGTATCGGCATTATGTGTGCAATCCACGTAATTCATAATGAGT
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* * *
491566 TTGTTAATTACCGTATCAGCACTATGTGTGCAACCAACGTAATTCATAATGAGT
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* * ** *
491620 TTGTGAATTACCGTATCGGTACAATGTGTGCAACCCATATAATTCATAATTAGT
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* * *
491674 TTTTGAATTATCGTATCGGCACTAT-TGTTCAACCCACGTAATTCATAATGAGT
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* * *
491727 TTGTGAATTACCGTATCGGCAGTATGTGTGCAACCAATGTAATTCATAATGAGT
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* *
491781 TTGTGAATTATCGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGT
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* * * *
491835 TTGTGATTTACCTTATCGACACTTTGTGTGCAACCCACGTAATTCATAATGAGT
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* *
491889 TTTTGAATTACCGTATCGGCACTATGTGTGCAACCCATGTAATTCATAATGAGT
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* * *
491943 TTGTGAATTACCGTATCGGCACTATGTTTGCAACCCACATAATTCATAAAGAGT
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* *
491997 TTTTGAATTACCGTATCGGCATTATGTGTGCAA
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAA
492030 AACAATAGAA
Statistics
Matches: 413, Mismatches: 49, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
53 50 0.12
54 363 0.88
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (54 bp):
TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
Found at i:493616 original size:17 final size:17
Alignment explanation
Indices: 493594--493627 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
493584 GAGATTGATT
493594 TAATAATACTT-ATAATA
1 TAATAATA-TTAATAATA
493611 TAATAATATTAATAATA
1 TAATAATATTAATAATA
493628 ATATAGGTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATAATATTAATAATA
Found at i:503502 original size:40 final size:39
Alignment explanation
Indices: 503421--503552 Score: 151
Period size: 40 Copynumber: 3.3 Consensus size: 39
503411 CGAGTCAAAT
* * *
503421 ATATGCACCATAGTGC--TACACATAAGGTTGTACTCATC
1 ATATGCACCA-AGTGCATTACACATAAGGTCGTGCTCACC
*
503459 ATATGCACCGAAGTGCATTACGCATAAGGTCGTGCTCACC
1 ATATGCACC-AAGTGCATTACACATAAGGTCGTGCTCACC
* *
503499 ATATGCACCAAAGTTCATTACACATAAGGTCGTGCCCACC
1 ATATGCACC-AAGTGCATTACACATAAGGTCGTGCTCACC
*
503539 ATATGTACCCAAGT
1 ATATGCA-CCAAGT
503553 CCTTAATCGA
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
38 14 0.17
39 1 0.01
40 64 0.79
41 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (39 bp):
ATATGCACCAAGTGCATTACACATAAGGTCGTGCTCACC
Found at i:504423 original size:211 final size:211
Alignment explanation
Indices: 504006--504434 Score: 808
Period size: 209 Copynumber: 2.0 Consensus size: 211
503996 CATAATATTA
504006 TATTATGACAGTTTGCATTACCTTTAAAGAAATATTATTTTGTATTAATATACACTCAAATATTA
1 TATTATGACAGTTTGCATTACCTTTAAAGAAATATTATTTTG-ATTAATATACACTCAAATATTA
504071 TTCCATTTATACCAATGGAAACTAGACTCAAATACAAATATATCCATATATGGAACTCCTTCCAG
65 TTCCATTTATACCAATGGAAACTAGACTCAAATACAAATATATCCATATATGGAACTCCTTCCAG
504136 TTTAATTTGTAAAATTTATGTTAAATTTCAAAGTTGAGCGACATAATCTATTTGAGCATATTATG
130 TTTAATTTGTAAAATTTATGTTAAATTTCAAAGTTGAGCGACATAATCTATTTGAGCATATTATG
504201 CTGCGCTATTTTTGACC
195 CTGCGCTATTTTTGACC
504218 TATTA-GACAGTTTGCATTACCTTTAAAGAAATATTATTTTG-TTAATATACACTCAAATATTAT
1 TATTATGACAGTTTGCATTACCTTTAAAGAAATATTATTTTGATTAATATACACTCAAATATTAT
504281 TCCATTTATACCAATGGAAACTAGACTCAAATACAAATATATCCATATATGGAACTCCTTCCAGT
66 TCCATTTATACCAATGGAAACTAGACTCAAATACAAATATATCCATATATGGAACTCCTTCCAGT
504346 TTAATTTGTAAAATTTATGTTAAATTTTCAAAGTTGAGCGACATAATCTATTTTGAGCATATTAT
131 TTAATTTGTAAAATTTATGTTAAA-TTTCAAAGTTGAGCGACATAATCTA-TTTGAGCATATTAT
*
504411 GCTGCTCTATTTTTGACC
194 GCTGCGCTATTTTTGACC
504429 TATTAT
1 TATTAT
504435 CGGTTAAAAA
Statistics
Matches: 213, Mismatches: 1, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
209 111 0.52
210 25 0.12
211 72 0.34
212 5 0.02
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (211 bp):
TATTATGACAGTTTGCATTACCTTTAAAGAAATATTATTTTGATTAATATACACTCAAATATTAT
TCCATTTATACCAATGGAAACTAGACTCAAATACAAATATATCCATATATGGAACTCCTTCCAGT
TTAATTTGTAAAATTTATGTTAAATTTCAAAGTTGAGCGACATAATCTATTTGAGCATATTATGC
TGCGCTATTTTTGACC
Found at i:506534 original size:28 final size:28
Alignment explanation
Indices: 506494--506551 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
506484 GATAAGGATA
506494 TTGATTTTTCTTATCCTGTTCTTCTTTT
1 TTGATTTTTCTTATCCTGTTCTTCTTTT
506522 TTGATTTTTCTTATCCTGTTCTTCTTTT
1 TTGATTTTTCTTATCCTGTTCTTCTTTT
506550 TT
1 TT
506552 CTTTCGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.07, C:0.17, G:0.07, T:0.69
Consensus pattern (28 bp):
TTGATTTTTCTTATCCTGTTCTTCTTTT
Found at i:506546 original size:14 final size:14
Alignment explanation
Indices: 506501--506547 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
506491 ATATTGATTT
506501 TTCTTATCCTGTTC
1 TTCTTATCCTGTTC
** *
506515 TTCTT-TTTTGATTT
1 TTCTTATCCTG-TTC
506529 TTCTTATCCTGTTC
1 TTCTTATCCTGTTC
506543 TTCTT
1 TTCTT
506548 TTTTCTTTCG
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
13 3 0.12
14 19 0.76
15 3 0.12
ACGTcount: A:0.06, C:0.21, G:0.06, T:0.66
Consensus pattern (14 bp):
TTCTTATCCTGTTC
Found at i:507560 original size:64 final size:66
Alignment explanation
Indices: 507411--507570 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 66
507401 AATTAAATTG
* * *
507411 AACATTGAATGCATTTCATGTATCGATGCA-CATACCATGCACCGATACACTAAGGATTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATACACTAAGGATTTTATGA
507475 A
66 A
* * ** *
507476 AACATCGAATGCATTTGATGCATCGATGCACCAT-CCATGCATCGATGCACTCTGGCTATTT-TG
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATACACTAAGGAT-TTTATG
507539 -A
65 AA
507540 AACATCGAATGCATTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
507571 TCTTAGTGCA
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 32 0.38
65 47 0.55
66 6 0.07
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (66 bp):
AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATACACTAAGGATTTTATGA
A
Found at i:514917 original size:21 final size:21
Alignment explanation
Indices: 514875--514918 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
514865 ACCGCGGGAT
*
514875 CTAGCTCTTCACGAGCTTCTC
1 CTAGCTCTTCACGAGCTACTC
* *
514896 CTAGCTCTTCTCGTGCTACTC
1 CTAGCTCTTCACGAGCTACTC
514917 CT
1 CT
514919 CCTCCTACGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.11, C:0.39, G:0.14, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTACTC
Done.