Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 77 of 213
Found at i:21076221 original size:91 final size:91
Alignment explanation
Indices: 21076066--21076292 Score: 310
Period size: 91 Copynumber: 2.5 Consensus size: 91
21076056 GAGGGTTGAT
** * * *
21076066 ACCATCCCTTTCCATAATTCAATAACCGAAGCTATCCCTTTCCATTATTCAATAGCCAAAGCTAT
1 ACCATCCCTTTCCATAATTTGATAACCGAAGCTATCCCTTTTCATGACTCAATAGCCAAAGCTAT
** * *
21076131 CTTTTTTCATAATTTTGGTGGTCGTC
66 CCCTTTTCATAATTTTGATAGTCGTC
* *
21076157 ACCATCCCTTTCCATAATTTGATAGCCGAAGCTATCCCTTTTCATGACTCAATAGCCGAAGCTAT
1 ACCATCCCTTTCCATAATTTGATAACCGAAGCTATCCCTTTTCATGACTCAATAGCCAAAGCTAT
21076222 CCCTTTTCATAATTTTGATAGTCGTC
66 CCCTTTTCATAATTTTGATAGTCGTC
* * * * *
21076248 ACAATCCCTTTTCATAGTTTGATAATCGAAACTATCCCTTTTCAT
1 ACCATCCCTTTCCATAATTTGATAACCGAAGCTATCCCTTTTCAT
21076293 TGGTCGATGA
Statistics
Matches: 119, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
91 119 1.00
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.37
Consensus pattern (91 bp):
ACCATCCCTTTCCATAATTTGATAACCGAAGCTATCCCTTTTCATGACTCAATAGCCAAAGCTAT
CCCTTTTCATAATTTTGATAGTCGTC
Found at i:21076271 original size:30 final size:31
Alignment explanation
Indices: 21076220--21076292 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 31
21076210 AGCCGAAGCT
* * **
21076220 ATCCCTTTTCATAATTTTGATAGTCGTCACA
1 ATCCCTTTTCATAAGTTTGATAATCGAAACA
*
21076251 ATCCCTTTTCAT-AGTTTGATAATCGAAACT
1 ATCCCTTTTCATAAGTTTGATAATCGAAACA
21076281 ATCCCTTTTCAT
1 ATCCCTTTTCAT
21076293 TGGTCGATGA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 25 0.68
31 12 0.32
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.42
Consensus pattern (31 bp):
ATCCCTTTTCATAAGTTTGATAATCGAAACA
Found at i:21079295 original size:29 final size:29
Alignment explanation
Indices: 21079228--21079283 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
21079218 TTTATTAATC
*
21079228 AATATAAATATAATTTCTAATAATTTTTT
1 AATATAAATACAATTTCTAATAATTTTTT
21079257 AATATAAATACAATTT-TAATATATTTT
1 AATATAAATACAATTTCTAATA-ATTTT
21079284 ATCTATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (29 bp):
AATATAAATACAATTTCTAATAATTTTTT
Found at i:21079336 original size:22 final size:22
Alignment explanation
Indices: 21079307--21079381 Score: 62
Period size: 25 Copynumber: 3.3 Consensus size: 22
21079297 TTTAAATTTA
21079307 TTAT-ATAATTTATTAAAATAT
1 TTATAATAATTTATTAAAATAT
**
21079328 TTATAATAAAATATTAAAAAATAT
1 TTATAATAATTTATT--AAAATAT
* * *
21079352 ATTTTAATATTTTATTAAATTAAT
1 -TTATAATAATTTATTAAAAT-AT
21079376 TTATAA
1 TTATAA
21079382 ATTCACATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
21 4 0.10
22 8 0.20
23 9 0.22
24 9 0.22
25 11 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTATAATAATTTATTAAAATAT
Found at i:21079574 original size:21 final size:21
Alignment explanation
Indices: 21079536--21079584 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
21079526 CATTATTTTT
* * *
21079536 AATCTCACTGCTAGAGTATCC
1 AATCTCACCGCTAAAGTAACC
* *
21079557 AATCTCACCGTTAAAGTAACT
1 AATCTCACCGCTAAAGTAACC
21079578 AATCTCA
1 AATCTCA
21079585 TCGCCACCGC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.29
Consensus pattern (21 bp):
AATCTCACCGCTAAAGTAACC
Found at i:21082598 original size:22 final size:19
Alignment explanation
Indices: 21082548--21082599 Score: 50
Period size: 22 Copynumber: 2.5 Consensus size: 19
21082538 TTTAAGATTT
*
21082548 ATGTTTAATTTGAGTATTA
1 ATGTTTATTTTGAGTATTA
*
21082567 ATTGTGTATTTATGAAGTATTA
1 A-TGTTTATTT-TG-AGTATTA
21082589 CATGTTTATTT
1 -ATGTTTATTT
21082600 GAAATAATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.04
20 7 0.27
21 2 0.08
22 15 0.58
23 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.54
Consensus pattern (19 bp):
ATGTTTATTTTGAGTATTA
Found at i:21085037 original size:3 final size:3
Alignment explanation
Indices: 21085029--21085054 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21085019 CTAATCCCAA
21085029 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
21085055 CCCACATTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:21085844 original size:16 final size:16
Alignment explanation
Indices: 21085823--21085855 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
21085813 TTTATGTTTT
21085823 TCAGCCATTTTTAATA
1 TCAGCCATTTTTAATA
21085839 TCAGCCATTTTTAATA
1 TCAGCCATTTTTAATA
21085855 T
1 T
21085856 TCTTTAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.45
Consensus pattern (16 bp):
TCAGCCATTTTTAATA
Found at i:21089366 original size:15 final size:15
Alignment explanation
Indices: 21089342--21089380 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
21089332 GGTTATCATC
*
21089342 ATTATCATTAGAATT
1 ATTATTATTAGAATT
*
21089357 ATTATTATTAGTATT
1 ATTATTATTAGAATT
21089372 ATTATTATT
1 ATTATTATT
21089381 TATATTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (15 bp):
ATTATTATTAGAATT
Found at i:21089371 original size:12 final size:11
Alignment explanation
Indices: 21089358--21089398 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
21089348 ATTAGAATTA
21089358 TTATTATTAGT
1 TTATTATTAGT
21089369 ATTATTATTA-T
1 -TTATTATTAGT
21089380 TTA-TATTAGT
1 TTATTATTAGT
21089390 TTATATATT
1 TTAT-TATT
21089399 TATCCACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 5 0.19
10 7 0.27
11 1 0.04
12 13 0.50
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (11 bp):
TTATTATTAGT
Found at i:21091193 original size:17 final size:16
Alignment explanation
Indices: 21091168--21091203 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
21091158 TTAAAACCAC
21091168 AAAATTTAAAAAATTT
1 AAAATTTAAAAAATTT
*
21091184 AAAATATTAATAAATTT
1 AAAAT-TTAAAAAATTT
21091201 AAA
1 AAA
21091204 TACGCTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATTTAAAAAATTT
Found at i:21093333 original size:19 final size:18
Alignment explanation
Indices: 21093298--21093335 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
21093288 TTCTTAATGG
21093298 GGTTTTGTTCGTTTTTTT
1 GGTTTTGTTCGTTTTTTT
21093316 GGTTTATGTTC-TTGTTTTT
1 GGTTT-TGTTCGTT-TTTTT
21093335 G
1 G
21093336 ATAAACTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.03, C:0.05, G:0.24, T:0.68
Consensus pattern (18 bp):
GGTTTTGTTCGTTTTTTT
Found at i:21098817 original size:56 final size:50
Alignment explanation
Indices: 21098722--21099018 Score: 249
Period size: 50 Copynumber: 5.8 Consensus size: 50
21098712 ATTTGGGTAA
* * * *
21098722 AGAGATCCCATGTAAAACCATGTTTGGGACATGACATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CA--GAG---ATG
* *
21098778 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACAGAGATG
* *
21098828 AGAGGTCCCATGTAAGACCATTTCTGGGACATGGCGTTGGCACCA-AGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CAGAGATG
** * * ** *
21098878 AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACAGAGATG
** * * * * *
21098928 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGG--CAGTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACAG-AGATG
* ** * * *
21098977 AAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
21099019 TGTTATATTT
Statistics
Matches: 196, Mismatches: 40, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
48 1 0.01
49 35 0.18
50 118 0.60
51 1 0.01
53 3 0.02
55 1 0.01
56 37 0.19
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACAGAGATG
Found at i:21105171 original size:50 final size:50
Alignment explanation
Indices: 21105113--21105294 Score: 247
Period size: 50 Copynumber: 3.6 Consensus size: 50
21105103 CATTGAGATT
* *
21105113 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
* *
21105163 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCAAG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
** * * * *
21105213 ATGAGAAGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTAT
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
* * *
21105263 ATGAGAACTCTCATGTAAGACCATATCTGGGA
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGA
21105295 TATGACATTG
Statistics
Matches: 117, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 117 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
Found at i:21105355 original size:49 final size:49
Alignment explanation
Indices: 21105124--21105356 Score: 182
Period size: 50 Copynumber: 4.7 Consensus size: 49
21105114 TGAGAGGTCC
* * * * ** *
21105124 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACAT-GCATTGGCACCTACAAGAGAACTCT
** * * * * *
21105174 CATGTAAGACCATGTCTGGGACATGGTGTTGGCACCAAGATGAGAAGTCC
1 CATGTAAGACCATGTCTGGGACAT-GCATTGGCACCTACAAGAGAACTCT
** * * *
21105224 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTCT
1 CATGTAAGACCATGTCTGGGACAT-GCATTGGCACCTACAAGAGAACTCT
* * *
21105274 CATGTAAGACCATATCTGGGATATGACATTGGCA-GTACAAGA-AACATCT
1 CATGTAAGACCATGTCTGGGACATG-CATTGGCACCTACAAGAGAAC-TCT
* *
21105323 CATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACAT-GCATTGGCA
21105357 TGTTATATTC
Statistics
Matches: 156, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
48 3 0.02
49 37 0.24
50 116 0.74
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
CATGTAAGACCATGTCTGGGACATGCATTGGCACCTACAAGAGAACTCT
Found at i:21110157 original size:21 final size:20
Alignment explanation
Indices: 21110120--21110163 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
21110110 ATAGAAATCT
*
21110120 ATAGAATTCTTATTTAGACAA
1 ATAGAATTCTTAGTTAGA-AA
21110141 ATAGAATT-TGTAGTTAGAAA
1 ATAGAATTCT-TAGTTAGAAA
21110161 ATA
1 ATA
21110164 ATTCTCACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (20 bp):
ATAGAATTCTTAGTTAGAAA
Found at i:21113592 original size:3 final size:3
Alignment explanation
Indices: 21113584--21113647 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
21113574 TATCAAGTTT
*
21113584 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
21113632 GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA G
21113648 GTAGAAAACT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:21114664 original size:43 final size:42
Alignment explanation
Indices: 21114602--21114797 Score: 216
Period size: 43 Copynumber: 4.6 Consensus size: 42
21114592 TTTTAGAAAT
* *
21114602 AAACGCCGTTAAAAGTCATGACCTTTAGCGGCGCGTCTACCAC
1 AAACGCCGCTAAAA-TCATGACCTTTAGCGGCGCTTCTACCAC
21114645 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTACCAC
1 AAACGCCGCTAAA-ATCATGACCTTTAGCGGCGCTTCTACCAC
* * *
21114688 AAACGCCGCTAAAGATCTTAACCTTTAGCGGCGCTTATACCAC
1 AAACGCCGCTAAA-ATCATGACCTTTAGCGGCGCTTCTACCAC
* * * * ***
21114731 AAACGCCACTATAAAT-ATGACTTTTAGCGACACTT-TTTGAC
1 AAACGCCGCTA-AAATCATGACCTTTAGCGGCGCTTCTACCAC
* *
21114772 AAACGCCGCTAAAAACATGACTTTTA
1 AAACGCCGCTAAAATCATGACCTTTA
21114798 AAAAAATATT
Statistics
Matches: 134, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.02
41 23 0.17
42 14 0.10
43 91 0.68
44 3 0.02
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTAAAATCATGACCTTTAGCGGCGCTTCTACCAC
Found at i:21119363 original size:16 final size:16
Alignment explanation
Indices: 21119342--21119372 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
21119332 ATTTAAACCC
21119342 AGAAAAGAACCCCAAA
1 AGAAAAGAACCCCAAA
21119358 AGAAAAGAACCCCAA
1 AGAAAAGAACCCCAA
21119373 TTAGAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.26, G:0.13, T:0.00
Consensus pattern (16 bp):
AGAAAAGAACCCCAAA
Found at i:21120724 original size:21 final size:21
Alignment explanation
Indices: 21120700--21120741 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21120690 CCTCTAAGCT
* *
21120700 CTAACCGCTAACCCTTAACCC
1 CTAACCCCTAACCATTAACCC
*
21120721 CTAACCCCTAACTATTAACCC
1 CTAACCCCTAACCATTAACCC
21120742 TTAAACCTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.45, G:0.02, T:0.21
Consensus pattern (21 bp):
CTAACCCCTAACCATTAACCC
Found at i:21121452 original size:41 final size:40
Alignment explanation
Indices: 21121395--21121494 Score: 155
Period size: 41 Copynumber: 2.5 Consensus size: 40
21121385 AAATGTTTTT
*
21121395 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGC-TTTTCAAAAACGCCGCTAAAGCCCAGAGCATTA
21121436 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCAGAGCATTA
1 GCGGCGCTTTT-CAAAAACGCCGCTAAAGCCCAGAGCATTA
* *
21121477 GTGGCGCTTCTCAAAAAC
1 GCGGCGCTTTTCAAAAAC
21121495 AGCATTAGCG
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
40 11 0.20
41 44 0.80
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (40 bp):
GCGGCGCTTTTCAAAAACGCCGCTAAAGCCCAGAGCATTA
Found at i:21121498 original size:25 final size:26
Alignment explanation
Indices: 21121470--21121519 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
21121460 TAAAGCCCAG
*
21121470 AGCATTAGTGGCGCTTCT-CAAAAAC
1 AGCATTAGCGGCGCTTCTCCAAAAAC
21121495 AGCATTAGCGGCGCTTCTCCAAAAA
1 AGCATTAGCGGCGCTTCTCCAAAAA
21121520 TGCCGCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (26 bp):
AGCATTAGCGGCGCTTCTCCAAAAAC
Found at i:21121535 original size:66 final size:67
Alignment explanation
Indices: 21121429--21121561 Score: 214
Period size: 66 Copynumber: 2.0 Consensus size: 67
21121419 TAAAGCCCTG
* **
21121429 AGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCAGAGCATTAGTGGCGCTTCT-CAAAA
1 AGCATTAGCGGCGCTTCTCCAAAAACGCCGCTAAAGCCCAGAGCATTAGCAGCGCTTCTCCAAAA
21121493 AC
66 AC
* *
21121495 AGCATTAGCGGCGCTTCTCCAAAAATGCCGCTAAAGCCCAGAGCATTAGCAGCGCTTTTCCAAAA
1 AGCATTAGCGGCGCTTCTCCAAAAACGCCGCTAAAGCCCAGAGCATTAGCAGCGCTTCTCCAAAA
21121560 AC
66 AC
21121562 GCCGCTAAAG
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
66 54 0.89
67 7 0.11
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (67 bp):
AGCATTAGCGGCGCTTCTCCAAAAACGCCGCTAAAGCCCAGAGCATTAGCAGCGCTTCTCCAAAA
AC
Found at i:21121557 original size:41 final size:41
Alignment explanation
Indices: 21121495--21121574 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
21121485 TCTCAAAAAC
* *
21121495 AGCATTAGCGGCGCTTCTCCAAAAATGCCGCTAAAGCCCAG
1 AGCATTAGCAGCGCTTCTCCAAAAACGCCGCTAAAGCCCAG
*
21121536 AGCATTAGCAGCGCTTTTCCAAAAACGCCGCTAAAGCCC
1 AGCATTAGCAGCGCTTCTCCAAAAACGCCGCTAAAGCCC
21121575 CGAAAAGTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.17
Consensus pattern (41 bp):
AGCATTAGCAGCGCTTCTCCAAAAACGCCGCTAAAGCCCAG
Found at i:21129447 original size:17 final size:17
Alignment explanation
Indices: 21129398--21129449 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
21129388 AGTATAGGGA
*
21129398 GTAATCTTAGAAGATAT
1 GTAATCTTAGAAGATTT
* *
21129415 GCAATCTTGGAAGATTT
1 GTAATCTTAGAAGATTT
*
21129432 GTAATATTAGAAGATTT
1 GTAATCTTAGAAGATTT
21129449 G
1 G
21129450 ATTCTATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.37
Consensus pattern (17 bp):
GTAATCTTAGAAGATTT
Found at i:21138623 original size:9 final size:9
Alignment explanation
Indices: 21138609--21138652 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
21138599 GGGTATTTAA
21138609 TAATATAAT
1 TAATATAAT
21138618 TAATATAAT
1 TAATATAAT
*
21138627 T-A-ATCAT
1 TAATATAAT
*
21138634 CAATATAAT
1 TAATATAAT
21138643 TAATATAAT
1 TAATATAAT
21138652 T
1 T
21138653 TATTATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 4 0.14
8 2 0.07
9 23 0.79
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (9 bp):
TAATATAAT
Found at i:21138692 original size:19 final size:18
Alignment explanation
Indices: 21138670--21138705 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21138660 TTAATAATTA
*
21138670 TTTAATATTAAAATTTTAT
1 TTTAATAAT-AAATTTTAT
21138689 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
21138706 GAAATTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:21143427 original size:21 final size:22
Alignment explanation
Indices: 21143371--21143427 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
21143361 TTTTTCTGGG
*
21143371 TCACATGGGCGTATGCCTCCTT
1 TCACATGGGCGTGTGCCTCCTT
*
21143393 TCACACGGGCGTGTGCCTCCTT
1 TCACATGGGCGTGTGCCTCCTT
*
21143415 T-ACATGAGCGTGT
1 TCACATGGGCGTGT
21143428 TGACCCCCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 10 0.32
22 21 0.68
ACGTcount: A:0.14, C:0.30, G:0.26, T:0.30
Consensus pattern (22 bp):
TCACATGGGCGTGTGCCTCCTT
Found at i:21145194 original size:14 final size:14
Alignment explanation
Indices: 21145145--21145195 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
21145135 ATATGTTAAC
*
21145145 TTATTATATATATG
1 TTATAATATATATG
*
21145159 TTATAATATATA-A
1 TTATAATATATATG
* *
21145172 TAAGAAATATATATG
1 TTA-TAATATATATG
21145187 TTATAATAT
1 TTATAATAT
21145196 TAATAAAATA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
13 2 0.07
14 24 0.86
15 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (14 bp):
TTATAATATATATG
Found at i:21151272 original size:23 final size:23
Alignment explanation
Indices: 21151246--21151292 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
21151236 TATGGTCGAA
21151246 TATGTAGCTAAATGCTTAACTTG
1 TATGTAGCTAAATGCTTAACTTG
21151269 TATGTAGCTAAATGCTTAACTTG
1 TATGTAGCTAAATGCTTAACTTG
21151292 T
1 T
21151293 CAGTGAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (23 bp):
TATGTAGCTAAATGCTTAACTTG
Found at i:21153157 original size:13 final size:13
Alignment explanation
Indices: 21153131--21153164 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
21153121 TTTATTATCA
*
21153131 TTTTTCTTTGTCT
1 TTTTTCTTTCTCT
*
21153144 TTTTTTTTTCTCT
1 TTTTTCTTTCTCT
21153157 TTTTTCTT
1 TTTTTCTT
21153165 GCAAATTGGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (13 bp):
TTTTTCTTTCTCT
Found at i:21155026 original size:17 final size:17
Alignment explanation
Indices: 21155004--21155039 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
21154994 AAAAAAGTTC
21155004 TCATGTTTTTTAATCAA
1 TCATGTTTTTTAATCAA
21155021 TCATGTTTTTTAATCAA
1 TCATGTTTTTTAATCAA
21155038 TC
1 TC
21155040 TTGGATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.14, G:0.06, T:0.53
Consensus pattern (17 bp):
TCATGTTTTTTAATCAA
Found at i:21155744 original size:18 final size:18
Alignment explanation
Indices: 21155709--21155751 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
21155699 CATATATTAA
21155709 TATATATTAATAATTTTT
1 TATATATTAATAATTTTT
*
21155727 TATATTTTAAT-ATGTTTT
1 TATATATTAATAAT-TTTT
*
21155745 TACATAT
1 TATATAT
21155752 ATTGCAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
TATATATTAATAATTTTT
Found at i:21160857 original size:25 final size:28
Alignment explanation
Indices: 21160828--21160879 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
21160818 TTATGTTATT
*
21160828 TAAAT-AA-ATTTTAAATATA-ATAATC
1 TAAATAAATATTTTAAAAATACATAATC
21160853 TAAATAAATATTTTAAAAATACATAAT
1 TAAATAAATATTTTAAAAATACATAAT
21160880 TTCACTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
26 2 0.09
27 11 0.48
28 5 0.22
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (28 bp):
TAAATAAATATTTTAAAAATACATAATC
Found at i:21164838 original size:28 final size:27
Alignment explanation
Indices: 21164821--21164875 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
21164811 TGATTAAATT
21164821 TTAATAAAAATATAAAAATATTTAAAAA
1 TTAA-AAAAATATAAAAATATTTAAAAA
*
21164849 TTAAAAAAATCATAAAAAT-TGTAAAAA
1 TTAAAAAAAT-ATAAAAATATTTAAAAA
21164876 AATTATAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (27 bp):
TTAAAAAAATATAAAAATATTTAAAAA
Found at i:21164864 original size:18 final size:18
Alignment explanation
Indices: 21164824--21164883 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
21164814 TTAAATTTTA
*
21164824 ATAAAAATATAAAAATAT
1 ATAAAAATATAAAAAAAT
*
21164842 TTAAAAAT-TAAAAAAAT
1 ATAAAAATATAAAAAAAT
*
21164859 CATAAAAATTGTAAAAAAATT
1 -ATAAAAA-TATAAAAAAA-T
21164880 ATAA
1 ATAA
21164884 GATTTTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 8 0.23
18 13 0.37
19 1 0.03
20 12 0.34
21 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (18 bp):
ATAAAAATATAAAAAAAT
Found at i:21164876 original size:28 final size:28
Alignment explanation
Indices: 21164821--21164876 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
21164811 TGATTAAATT
*
21164821 TTAATAAAAATATAAAAATATTTAAAAA
1 TTAATAAAAATATAAAAATATTAAAAAA
21164849 TTAA-AAAAATCATAAAAAT-TGTAAAAAA
1 TTAATAAAAAT-ATAAAAATAT-TAAAAAA
21164877 ATTATAAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (28 bp):
TTAATAAAAATATAAAAATATTAAAAAA
Found at i:21164892 original size:19 final size:20
Alignment explanation
Indices: 21164849--21164894 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
21164839 TATTTAAAAA
21164849 TTAAAAAAATCATAAAAATT
1 TTAAAAAAATCATAAAAATT
* * *
21164869 GTAAAAAAATTAT-AAGATT
1 TTAAAAAAATCATAAAAATT
21164888 TTAAAAA
1 TTAAAAA
21164895 GTCGTAAGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (20 bp):
TTAAAAAAATCATAAAAATT
Found at i:21164954 original size:10 final size:10
Alignment explanation
Indices: 21164816--21164959 Score: 54
Period size: 10 Copynumber: 14.7 Consensus size: 10
21164806 TAAAATGATT
*
21164816 AAATTTTAATA
1 AAATTATAA-A
*
21164827 AAAATATAAA
1 AAATTATAAA
21164837 AATATT-T-AA
1 AA-ATTATAAA
21164846 AAATTA-AAA
1 AAATTATAAA
*
21164855 AAATCAT-AA
1 AAATTATAAA
*
21164864 AAATTGTAAAA
1 AAATTAT-AAA
21164875 AAATTAT--A
1 AAATTATAAA
* *
21164883 AGATTTTAAA
1 AAATTATAAA
* **
21164893 AAGTCGTAAGA
1 AAATTATAA-A
21164904 AAATTATAAA
1 AAATTATAAA
21164914 AAATGTA-AAA
1 AAAT-TATAAA
21164924 AAATGTA-AAA
1 AAAT-TATAAA
*** *
21164934 TTCTTAAAAA
1 AAATTATAAA
21164944 AAATTAT-AA
1 AAATTATAAA
21164953 AAATTAT
1 AAATTAT
21164960 TGTAATAAAA
Statistics
Matches: 99, Mismatches: 23, Indels: 24
0.68 0.16 0.16
Matches are distributed among these distances:
8 9 0.09
9 29 0.29
10 35 0.35
11 26 0.26
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (10 bp):
AAATTATAAA
Found at i:21164956 original size:49 final size:48
Alignment explanation
Indices: 21164844--21164959 Score: 119
Period size: 49 Copynumber: 2.4 Consensus size: 48
21164834 AAAAATATTT
* *
21164844 AAAAATTAAAAAAATCATAAAAATTGTAAAAAAATTATAAGATTTTAAA
1 AAAAATT-AAAAAATTATAAAAAATGTAAAAAAATTATAAGATTTTAAA
****
21164893 AAGTCGTAAGAAAATTATAAAAAATGTAAAAAAATGTA-AA-ATTCTTAAA
1 AAAAATTAA-AAAATTATAAAAAATGTAAAAAAAT-TATAAGATT-TTAAA
21164942 AAAAATTATAAAAATTAT
1 AAAAATTA-AAAAATTAT
21164960 TGTAATAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
48 5 0.09
49 45 0.85
50 3 0.06
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (48 bp):
AAAAATTAAAAAATTATAAAAAATGTAAAAAAATTATAAGATTTTAAA
Found at i:21165235 original size:29 final size:29
Alignment explanation
Indices: 21165169--21165235 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
21165159 ATTTTTATAA
* *
21165169 TAAATTTTAATAAATTTTTATATTTTTAT
1 TAAATTTTAATAAATTTGTATACTTTTAT
*
21165198 TAAAATTTAAT-AATTTGTATAACTTTTAT
1 TAAATTTTAATAAATTTGTAT-ACTTTTAT
*
21165227 TAATTTTTA
1 TAAATTTTA
21165236 TTTTTTATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 8 0.25
29 24 0.75
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (29 bp):
TAAATTTTAATAAATTTGTATACTTTTAT
Found at i:21165236 original size:10 final size:10
Alignment explanation
Indices: 21165171--21165237 Score: 50
Period size: 10 Copynumber: 7.0 Consensus size: 10
21165161 TTTTATAATA
* *
21165171 AATTTTAATA
1 AATTTTTATT
21165181 AATTTTTA-T
1 AATTTTTATT
21165190 -ATTTTTATT
1 AATTTTTATT
** *
21165199 AAAATTTAAT
1 AATTTTTATT
*
21165209 AATTTGTA-T
1 AATTTTTATT
*
21165218 AACTTTTATT
1 AATTTTTATT
21165228 AATTTTTATT
1 AATTTTTATT
21165238 TTTTATAATT
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
8 7 0.16
9 8 0.19
10 28 0.65
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (10 bp):
AATTTTTATT
Found at i:21165559 original size:93 final size:90
Alignment explanation
Indices: 21165350--21165588 Score: 212
Period size: 93 Copynumber: 2.6 Consensus size: 90
21165340 TAACGGTCAA
* * * * *
21165350 AGGACATTTTTTATACA-TTTGACAGTTCAAGTACCCAATTGAGTGCAAAAAAAATCAGGGGCTT
1 AGGACCTTTTTAATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAATCAAGGGCTT
*
21165414 AATTGCTTTTTCTTGAAAAAGTTTG
66 AATTACTTTTTCTTGAAAAAGTTTG
** * * * **
21165439 AGGGTCTTTTTGATGTATTTTAAAAGTTCAAGTATTCAATTGAGTGCAAAAAAAAGAGT-AAGGG
1 AGGACCTTTTTAATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGC-AAAAAAA-A-TCAAGGG
* ****
21165503 CTTAATTACTTCTTTTTTTTTTAAGTTTG
63 CTTAATTACTT-TTTCTTGAAAAAGTTTG
* * * *
21165532 CGGACCTTTTTAATGCATTTTGAAAGTTTCAAATACCCAATTGGGTACAAAAGAAAA
1 AGGACCTTTTTAATGCATTTTGAAAG-TTCAAGTACCCAATTGAGTGCAAAA-AAAA
21165589 AAACACAGTG
Statistics
Matches: 115, Mismatches: 28, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
89 11 0.10
90 25 0.22
91 7 0.06
92 15 0.13
93 38 0.33
94 19 0.17
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (90 bp):
AGGACCTTTTTAATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAATCAAGGGCTT
AATTACTTTTTCTTGAAAAAGTTTG
Found at i:21166111 original size:16 final size:16
Alignment explanation
Indices: 21166042--21166109 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
21166032 TTTGGTTCGC
21166042 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
21166058 TGTATTGGATTAGATG
1 TGTATTGGATTAGAGG
21166074 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
21166090 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
21166106 TGTA
1 TGTA
21166110 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:21166144 original size:45 final size:44
Alignment explanation
Indices: 21166090--21166184 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
21166080 GGATTAGAGG
* *
21166090 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
21166135 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
21166179 TGTAAT
1 TGTAAT
21166185 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:21166367 original size:18 final size:17
Alignment explanation
Indices: 21166346--21166380 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21166336 TTATTATTTA
*
21166346 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
21166364 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
21166381 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:21166374 original size:28 final size:27
Alignment explanation
Indices: 21166304--21166376 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
21166294 TTTATTATCA
*
21166304 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
21166332 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
21166359 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
21166377 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:21166514 original size:18 final size:17
Alignment explanation
Indices: 21166493--21166527 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21166483 TTATTATTAA
*
21166493 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
21166511 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
21166528 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:21166539 original size:147 final size:149
Alignment explanation
Indices: 21166265--21166539 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
21166255 ATGATTATTG
*
21166265 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
21166330 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
21166395 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
21166414 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
21166477 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
21166540 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:21166571 original size:54 final size:54
Alignment explanation
Indices: 21166513--21166691 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
21166503 ATTAAAATAT
*
21166513 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
21166567 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
21166630 TAT
53 -AC
*
21166633 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
21166687 ATAAT
1 ATAAT
21166692 ATATGATACT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:21166634 original size:18 final size:17
Alignment explanation
Indices: 21166613--21166647 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21166603 TTATTATTAA
21166613 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
21166631 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
21166648 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:21166762 original size:18 final size:17
Alignment explanation
Indices: 21166723--21166754 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
21166713 TTTTAAATAA
21166723 TTAATATTAAATATATT
1 TTAATATTAAATATATT
21166740 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
21166755 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:21166779 original size:120 final size:120
Alignment explanation
Indices: 21166476--21166768 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
21166466 ATCATATTTA
21166476 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
21166541 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
* *
21166596 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
21166661 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATA-AAATTTT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAA--AT
* * *
21166717 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
21166769 TAAAATAATT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 3 0.02
120 155 0.96
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
Found at i:21169430 original size:14 final size:14
Alignment explanation
Indices: 21169405--21169439 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
21169395 AAGAAGAAGC
21169405 AGAAATATGGAGAAA
1 AGAAA-ATGGAGAAA
21169420 AGAAAATGGAGAAA
1 AGAAAATGGAGAAA
21169434 AGAAAA
1 AGAAAA
21169440 GAAATGTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (14 bp):
AGAAAATGGAGAAA
Found at i:21169437 original size:19 final size:18
Alignment explanation
Indices: 21169415--21169459 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
21169405 AGAAATATGG
21169415 AGAAAAGAAAATG-GAGAAA
1 AGAAAAGAAAATGTGAG--A
21169434 AGAAAAG-AAATGTGAGA
1 AGAAAAGAAAATGTGAGA
21169451 AGAAAAGAA
1 AGAAAAGAA
21169460 GCGTACCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (18 bp):
AGAAAAGAAAATGTGAGA
Found at i:21174775 original size:43 final size:43
Alignment explanation
Indices: 21174717--21174819 Score: 154
Period size: 43 Copynumber: 2.4 Consensus size: 43
21174707 GTTAGGATAT
*
21174717 TATTATGGGATATTATCTT-TTAGCAATTTGATTCCTAATAGGA
1 TATTATAGGATATTAT-TTCTTAGCAATTTGATTCCTAATAGGA
* * *
21174760 TGTTATAGGTTATTATTTCTTAGCAATTTGATTCCTAATTGGA
1 TATTATAGGATATTATTTCTTAGCAATTTGATTCCTAATAGGA
21174803 TATTATAGGATATTATT
1 TATTATAGGATATTATT
21174820 ATGGGATATT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 2 0.04
43 51 0.96
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.48
Consensus pattern (43 bp):
TATTATAGGATATTATTTCTTAGCAATTTGATTCCTAATAGGA
Found at i:21190313 original size:16 final size:16
Alignment explanation
Indices: 21190301--21190331 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
21190291 TTCTTTTGTG
21190301 TATTTACTCTTTTATA
1 TATTTACTCTTTTATA
21190317 TATTTACTCTTTTAT
1 TATTTACTCTTTTAT
21190332 GTTGATGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTACTCTTTTATA
Found at i:21196304 original size:7 final size:7
Alignment explanation
Indices: 21196292--21196329 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
21196282 GGATCTGTCG
21196292 TAAACCT
1 TAAACCT
21196299 TAAACCT
1 TAAACCT
*
21196306 TAAACCC
1 TAAACCT
*
21196313 TAAACCC
1 TAAACCT
21196320 TAAACCT
1 TAAACCT
21196327 TAA
1 TAA
21196330 TCCCTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAACCT
Found at i:21196311 original size:14 final size:14
Alignment explanation
Indices: 21196292--21196334 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
21196282 GGATCTGTCG
*
21196292 TAAACCTTAAACCT
1 TAAACCTTAAACCC
*
21196306 TAAACCCTAAACCC
1 TAAACCTTAAACCC
*
21196320 TAAACCTTAATCCC
1 TAAACCTTAAACCC
21196334 T
1 T
21196335 TATTTATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAACCTTAAACCC
Found at i:21196318 original size:21 final size:21
Alignment explanation
Indices: 21196292--21196334 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
21196282 GGATCTGTCG
*
21196292 TAAACCTTAAACCTTAAACCC
1 TAAACCCTAAACCTTAAACCC
*
21196313 TAAACCCTAAACCTTAATCCC
1 TAAACCCTAAACCTTAAACCC
21196334 T
1 T
21196335 TATTTATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAACCCTAAACCTTAAACCC
Found at i:21196402 original size:21 final size:22
Alignment explanation
Indices: 21196359--21196404 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
21196349 TTTTCTTTAA
* *
21196359 AACCCTAAAAACCTTAAACCCT
1 AACCCTAAAAACCTCAAAACCT
*
21196381 AACCCTAAAAGCC-CAAAACCT
1 AACCCTAAAAACCTCAAAACCT
21196402 AAC
1 AAC
21196405 GGTGGAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.48, C:0.37, G:0.02, T:0.13
Consensus pattern (22 bp):
AACCCTAAAAACCTCAAAACCT
Found at i:21196834 original size:18 final size:18
Alignment explanation
Indices: 21196799--21196838 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
21196789 AAATTTTGAT
21196799 TTTTTATATATTTTTTAA
1 TTTTTATATATTTTTTAA
21196817 TTTTTAT-TATTTTCTTAA
1 TTTTTATATATTTT-TTAA
21196835 TTTT
1 TTTT
21196839 GTAGAACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTATATATTTTTTAA
Found at i:21198385 original size:33 final size:32
Alignment explanation
Indices: 21198283--21198381 Score: 85
Period size: 33 Copynumber: 3.1 Consensus size: 32
21198273 GAAATATTTG
*
21198283 AATATAATTTAATAT-AAAATAATTA-ATTTCAA
1 AATATAATTTAAAATAAAAATAATTATA-TT-AA
* * * ** **
21198315 AATACAATTTAAAGTAAAACTAAAAAATATTTT
1 AATATAATTTAAAATAAAAAT-AATTATATTAA
21198348 AATATAATTTAAAATAAAAATAATTATATTAA
1 AATATAATTTAAAATAAAAATAATTATATTAA
21198380 AA
1 AA
21198382 ATATTATTAA
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
32 21 0.43
33 22 0.45
34 5 0.10
35 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (32 bp):
AATATAATTTAAAATAAAAATAATTATATTAA
Found at i:21198426 original size:56 final size:58
Alignment explanation
Indices: 21198366--21198497 Score: 182
Period size: 59 Copynumber: 2.3 Consensus size: 58
21198356 TTAAAATAAA
* *
21198366 AATAATTATATTAAAAATATTATTAAATTA-TA-TA-TTTTTATTAAATTATATTTAAT
1 AATAATCATATT-AAAATATGATTAAATTATTATTATTTTTTATTAAATTATATTTAAT
*
21198422 AATAATCATATTAAAATATGATTAAATTATTTATTATTTTTTATTAAATTATTTTTAAT
1 AATAATCATATTAAAATATGATTAAATTA-TTATTATTTTTTATTAAATTATATTTAAT
21198481 AATAATCCAT-TTAAAAT
1 AATAAT-CATATTAAAAT
21198498 TTAATAACAA
Statistics
Matches: 68, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
55 16 0.24
56 11 0.16
57 2 0.03
58 2 0.03
59 34 0.50
60 3 0.04
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (58 bp):
AATAATCATATTAAAATATGATTAAATTATTATTATTTTTTATTAAATTATATTTAAT
Found at i:21200226 original size:22 final size:24
Alignment explanation
Indices: 21200183--21200226 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
21200173 TGATAATATG
21200183 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
*
21200207 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
21200227 TGAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:21200301 original size:19 final size:19
Alignment explanation
Indices: 21200253--21200304 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
21200243 AAATTGATAA
21200253 AATCATGTTAAAATGGTTTC
1 AATCATGTTAAAAT-GTTTC
*
21200273 AATTGA-GTTAAATAT-TTTC
1 AA-TCATGTTAAA-ATGTTTC
21200292 AATCATGTTAAAA
1 AATCATGTTAAAA
21200305 ATGTATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
18 3 0.11
19 12 0.44
20 8 0.30
21 4 0.15
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (19 bp):
AATCATGTTAAAATGTTTC
Found at i:21200466 original size:21 final size:21
Alignment explanation
Indices: 21200440--21200496 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
21200430 AATTTTCACA
21200440 AAAAAGTATTGATACATTTAC
1 AAAAAGTATTGATACATTTAC
*
21200461 AAAAAGTATTGATACCTTTAC
1 AAAAAGTATTGATACATTTAC
*
21200482 AAAAAGTATCGATAC
1 AAAAAGTATTGATAC
21200497 CTTCTACCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (21 bp):
AAAAAGTATTGATACATTTAC
Found at i:21200497 original size:21 final size:21
Alignment explanation
Indices: 21200440--21200515 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
21200430 AATTTTCACA
* *
21200440 AAAAAGTATTGATACATTTAC
1 AAAAAGTATCGATACCTTTAC
*
21200461 AAAAAGTATTGATACCTTTAC
1 AAAAAGTATCGATACCTTTAC
21200482 AAAAAGTATCGATACCTTCTAC
1 AAAAAGTATCGATACCTT-TAC
*
21200504 -CAAA-TATCGATA
1 AAAAAGTATCGATA
21200516 AATTGCCTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.16
21 40 0.78
22 3 0.06
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (21 bp):
AAAAAGTATCGATACCTTTAC
Found at i:21201517 original size:52 final size:52
Alignment explanation
Indices: 21201428--21201529 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
21201418 GAGTTGGGAC
* *
21201428 ACACGGCTGTGTCCTAGCCCGTGTTTCTACCCTTGTAACTCACTGACTTGAG
1 ACACGGCTGTGTCCCAGCCCGTGTCTCTACCCTTGTAACTCACTGACTTGAG
*
21201480 ACACGG-TCGTGTCCCAGCCCGTGTCTC-CCCCTGTGTAACTCACTGACTTG
1 ACACGGCT-GTGTCCCAGCCCGTGTCTCTACCCT-TGTAACTCACTGACTTG
21201530 GGTCACACGG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
51 5 0.11
52 40 0.89
ACGTcount: A:0.16, C:0.34, G:0.22, T:0.28
Consensus pattern (52 bp):
ACACGGCTGTGTCCCAGCCCGTGTCTCTACCCTTGTAACTCACTGACTTGAG
Found at i:21201848 original size:23 final size:23
Alignment explanation
Indices: 21201822--21201900 Score: 113
Period size: 23 Copynumber: 3.3 Consensus size: 23
21201812 CTACTTAGGT
**
21201822 TACCAAACTTTAAGCTAAATGCA
1 TACCAAACTTTAAGCTAAACACA
21201845 TACCAAACTTTAAGCTAAACACA
1 TACCAAACTTTAAGCTAAACACA
*
21201868 TACCAAACTTTAAGCTAAGCTATCA
1 TACCAAACTTTAAGCTAAAC-A-CA
21201893 TACCAAAC
1 TACCAAAC
21201901 ATAACCTCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
23 40 0.78
24 1 0.02
25 10 0.20
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.24
Consensus pattern (23 bp):
TACCAAACTTTAAGCTAAACACA
Found at i:21215464 original size:17 final size:17
Alignment explanation
Indices: 21215442--21215475 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21215432 AATCGTAATC
21215442 ATTTTTATGTTAATTAT
1 ATTTTTATGTTAATTAT
*
21215459 ATTTTTATGTTTATTAT
1 ATTTTTATGTTAATTAT
21215476 GTTGTTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (17 bp):
ATTTTTATGTTAATTAT
Found at i:21217826 original size:23 final size:25
Alignment explanation
Indices: 21217799--21217856 Score: 84
Period size: 23 Copynumber: 2.4 Consensus size: 25
21217789 CTACTTAGGT
*
21217799 TACCAAACTTTAAGCTAAAC-A-CA
1 TACCAAACATTAAGCTAAACTATCA
*
21217822 TACCAAACATTAAGCTAAGCTATCA
1 TACCAAACATTAAGCTAAACTATCA
21217847 TACCAAACAT
1 TACCAAACAT
21217857 AGCCTCAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 18 0.58
24 1 0.03
25 12 0.39
ACGTcount: A:0.47, C:0.26, G:0.05, T:0.22
Consensus pattern (25 bp):
TACCAAACATTAAGCTAAACTATCA
Found at i:21222409 original size:33 final size:33
Alignment explanation
Indices: 21222367--21222432 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
21222357 TTTTTTAAGC
21222367 CTTAAATTGAAAATGAATTTTA-TATAGGGGGAG
1 CTTAAATTGAAAATGAATTTTATTA-AGGGGGAG
21222400 CTTAAATTGAAAATGAATTTTATTAAGGGGGAG
1 CTTAAATTGAAAATGAATTTTATTAAGGGGGAG
21222433 AAATTATTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.33
Consensus pattern (33 bp):
CTTAAATTGAAAATGAATTTTATTAAGGGGGAG
Found at i:21222560 original size:22 final size:24
Alignment explanation
Indices: 21222517--21222560 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
21222507 TGATAATATG
21222517 TTTTGATATAACAAATTAAAGTAT
1 TTTTGATATAACAAATTAAAGTAT
*
21222541 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
21222561 TGAACATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTAT
Found at i:21223320 original size:38 final size:38
Alignment explanation
Indices: 21223246--21223320 Score: 87
Period size: 38 Copynumber: 2.0 Consensus size: 38
21223236 GAGTATTAAG
* * *
21223246 GTTTGGGTAGAAACCTTAAGGTAGTTGCAATATTAAAA
1 GTTTGGGTAGAAACATTAAGGGAGTTGCAAGATTAAAA
* * * *
21223284 GTTTGGGTATAAATATTAAGGGAGTTGTAAGGTTAAA
1 GTTTGGGTAGAAACATTAAGGGAGTTGCAAGATTAAA
21223321 CCTTGTCCTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (38 bp):
GTTTGGGTAGAAACATTAAGGGAGTTGCAAGATTAAAA
Found at i:21225138 original size:20 final size:21
Alignment explanation
Indices: 21225113--21225177 Score: 87
Period size: 20 Copynumber: 3.1 Consensus size: 21
21225103 ATAATAAATC
*
21225113 AAAATAAAATTTAGAAATTT-
1 AAAATAAAATTTAAAAATTTA
21225133 AAAATAAAATTTAAAAATTTA
1 AAAATAAAATTTAAAAATTTA
* *
21225154 AAAATAAAAATAAAAAATATTA
1 AAAATAAAATTTAAAAAT-TTA
21225176 AA
1 AA
21225178 TTAATAGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 19 0.47
21 16 0.40
22 5 0.12
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAATAAAATTTAAAAATTTA
Found at i:21227695 original size:12 final size:12
Alignment explanation
Indices: 21227680--21227706 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21227670 AATAAATAGA
21227680 AAAGGGAAGGAG
1 AAAGGGAAGGAG
21227692 AAAGGGAAGGAG
1 AAAGGGAAGGAG
21227704 AAA
1 AAA
21227707 TTGTGTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (12 bp):
AAAGGGAAGGAG
Found at i:21228360 original size:15 final size:17
Alignment explanation
Indices: 21228334--21228377 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
21228324 TGTTAATATA
21228334 TATTAT-ATTTTAAACT
1 TATTATCATTTTAAACT
21228350 TA-TA-CATTTT--ACT
1 TATTATCATTTTAAACT
21228363 TATTATCATTTTAAA
1 TATTATCATTTTAAA
21228378 TTAATAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 9
0.72 0.00 0.28
Matches are distributed among these distances:
13 5 0.22
14 2 0.09
15 13 0.57
16 2 0.09
17 1 0.04
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATCATTTTAAACT
Found at i:21230817 original size:49 final size:47
Alignment explanation
Indices: 21230764--21231007 Score: 274
Period size: 49 Copynumber: 5.0 Consensus size: 47
21230754 GTATTTATTT
**
21230764 AATTATATTAATTGCAACATTAAAACTTGGAACAAACTTTGTGGTCATA
1 AATTA-ATTAATTGCAACATTAAAACTTGGAACAAACTTTGTAAT-ATA
* *
21230813 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTATGATCATA
1 AATTA-ATTAATTGCAACATTAAAACTTGGAACAAACTTTGTAAT-ATA
* *
21230862 AATTAGATTAATTGCAACATTAAAACTTGGAGCAAAATTTGTAATATA
1 AATTA-ATTAATTGCAACATTAAAACTTGGAACAAACTTTGTAATATA
* * * * * *
21230910 ATTTAAATACACTACAACATTAAAGCTTGGAACAAAATTTGTAATATA
1 AATTAATTA-ATTGCAACATTAAAACTTGGAACAAACTTTGTAATATA
* * *
21230958 AATTAAATATATTACAACATTAAAACTT-GATACAAACTTAGTAATATA
1 AATTAATTA-ATTGCAACATTAAAACTTGGA-ACAAACTTTGTAATATA
21231006 AA
1 AA
21231008 ATAGGTACAT
Statistics
Matches: 174, Mismatches: 19, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
47 5 0.03
48 82 0.47
49 87 0.50
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (47 bp):
AATTAATTAATTGCAACATTAAAACTTGGAACAAACTTTGTAATATA
Found at i:21230946 original size:48 final size:48
Alignment explanation
Indices: 21230772--21231007 Score: 262
Period size: 48 Copynumber: 4.9 Consensus size: 48
21230762 TTAATTATAT
* ** *
21230772 TAATTGCAACATTAAAACTTGGAACAAACTTTGTGGTCATAAATTAGAT
1 TAATTACAACATTAAAACTTGGAACAAACTTTGTAAT-ATAAATTAGAA
* * * *
21230821 TAATTGCAACATTAAAACTTGGAACAAACTTTATGATCATAAATTAGAT
1 TAATTACAACATTAAAACTTGGAACAAACTTTGTAAT-ATAAATTAGAA
* * * *
21230870 TAATTGCAACATTAAAACTTGGAGCAAAATTTGTAATATAATTTA-AA
1 TAATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTAGAA
* * *
21230917 TACACTACAACATTAAAGCTTGGAACAAAATTTGTAATATAAATTA-AA
1 TA-ATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTAGAA
*
21230965 TATATTACAACATTAAAACTT-GATACAAACTTAGTAATATAAA
1 TA-ATTACAACATTAAAACTTGGA-ACAAACTTTGTAATATAAA
21231008 ATAGGTACAT
Statistics
Matches: 167, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
47 5 0.03
48 82 0.49
49 80 0.48
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.32
Consensus pattern (48 bp):
TAATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTAGAA
Found at i:21239038 original size:16 final size:16
Alignment explanation
Indices: 21239017--21239049 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21239007 CGCTGTATTG
21239017 GAATAGAGGCGTAATA
1 GAATAGAGGCGTAATA
*
21239033 GAATAGAGGTGTAATA
1 GAATAGAGGCGTAATA
21239049 G
1 G
21239050 CAAATCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.33, T:0.21
Consensus pattern (16 bp):
GAATAGAGGCGTAATA
Found at i:21239092 original size:45 final size:44
Alignment explanation
Indices: 21239027--21239123 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
21239017 GAATAGAGGC
* *
21239027 GTAATAGAATAGAGGTGTAATAGCAAATCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AAATC-ATGTGTTTGGTTGAAT
* *
21239072 GTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAAT
*
21239116 GGAATGGA
1 GTAATGGA
21239124 GGTGTAATAC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.52
45 21 0.46
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAAT
Found at i:21239307 original size:18 final size:17
Alignment explanation
Indices: 21239280--21239320 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
21239270 TTATTATTAA
21239280 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
21239297 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
21239315 -TATAAT
1 ATATAAT
21239321 ATATAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:21249471 original size:22 final size:22
Alignment explanation
Indices: 21249403--21249471 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
21249393 TAAAAATAAT
21249403 TTTTTATTCCATTTCATGTAAA
1 TTTTTATTCCATTTCATGTAAA
* ** ** *
21249425 -TTTTACTT-AATTAAAAATAAT
1 TTTTTA-TTCCATTTCATGTAAA
21249446 TTTTTATTCCATTTCATGTAAA
1 TTTTTATTCCATTTCATGTAAA
21249468 TTTT
1 TTTT
21249472 ACTTAATTCT
Statistics
Matches: 32, Mismatches: 12, Indels: 6
0.64 0.24 0.12
Matches are distributed among these distances:
21 14 0.44
22 18 0.56
ACGTcount: A:0.32, C:0.10, G:0.03, T:0.55
Consensus pattern (22 bp):
TTTTTATTCCATTTCATGTAAA
Found at i:21249492 original size:43 final size:43
Alignment explanation
Indices: 21249392--21249479 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
21249382 ATAATTTATG
21249392 TTAAAAATAATTTTTTATTCCATTTCATGTAAATTTTACTTAA
1 TTAAAAATAATTTTTTATTCCATTTCATGTAAATTTTACTTAA
21249435 TTAAAAATAATTTTTTATTCCATTTCATGTAAATTTTACTTAA
1 TTAAAAATAATTTTTTATTCCATTTCATGTAAATTTTACTTAA
21249478 TT
1 TT
21249480 CTGTGTTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.52
Consensus pattern (43 bp):
TTAAAAATAATTTTTTATTCCATTTCATGTAAATTTTACTTAA
Found at i:21254797 original size:20 final size:20
Alignment explanation
Indices: 21254769--21254810 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
21254759 CCTTTCACAG
21254769 GGGCATGTTAACCCCTACAC
1 GGGCATGTTAACCCCTACAC
* * *
21254789 GGGCGTGTTGAGCCCTACAC
1 GGGCATGTTAACCCCTACAC
21254809 GG
1 GG
21254811 CCAGAGCACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.19, C:0.31, G:0.31, T:0.19
Consensus pattern (20 bp):
GGGCATGTTAACCCCTACAC
Found at i:21267158 original size:18 final size:19
Alignment explanation
Indices: 21267132--21267168 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
21267122 AATATTTGAA
21267132 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
21267150 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
21267169 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:21267591 original size:22 final size:22
Alignment explanation
Indices: 21267549--21267593 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
21267539 TTATTAACCC
*
21267549 AAATTAAATTGTATATAAATTA
1 AAATTAAATTATATATAAATTA
*
21267571 AAATT-AATTATACTATGAATTA
1 AAATTAAATTATA-TATAAATTA
21267593 A
1 A
21267594 CACATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (22 bp):
AAATTAAATTATATATAAATTA
Found at i:21268935 original size:51 final size:52
Alignment explanation
Indices: 21268825--21268935 Score: 125
Period size: 51 Copynumber: 2.2 Consensus size: 52
21268815 GTTCATTTTT
* *
21268825 CATTTTCATTTTGGAGAAAACCACATTCATTTTCCAAATGATTCCATTTCTC
1 CATTTTCATTTTGGAGAAAACCACAATCATTTTCCAAATGATTCCAGTTCTC
* ** * * * *
21268877 CAATTTCATTTTGGAGAAAATTATAATCA-TTTCCCAATGCTTTCAGTTCTC
1 CATTTTCATTTTGGAGAAAACCACAATCATTTTCCAAATGATTCCAGTTCTC
*
21268928 TATTTTCA
1 CATTTTCA
21268936 CTATTTCTAT
Statistics
Matches: 48, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
51 24 0.50
52 24 0.50
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (52 bp):
CATTTTCATTTTGGAGAAAACCACAATCATTTTCCAAATGATTCCAGTTCTC
Found at i:21273333 original size:32 final size:32
Alignment explanation
Indices: 21273296--21273365 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
21273286 AGTGTGTGGC
* * * * **
21273296 CGTGTGAGTCACACGGGCTAGGCTAATTTGGG
1 CGTGTGAGCCACACAGGCAAGGCCAATTTCAG
*
21273328 CGTGTGGGCCACACAGGCAAGGCCAATTTCAG
1 CGTGTGAGCCACACAGGCAAGGCCAATTTCAG
21273360 CGTGTG
1 CGTGTG
21273366 GGCCCATACG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.20, C:0.23, G:0.36, T:0.21
Consensus pattern (32 bp):
CGTGTGAGCCACACAGGCAAGGCCAATTTCAG
Found at i:21289288 original size:19 final size:20
Alignment explanation
Indices: 21289264--21289302 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
21289254 TTAGTGACCC
*
21289264 TTTCTCGTTCAC-CACCTTA
1 TTTCTCCTTCACTCACCTTA
*
21289283 TTTCTCCTTCTCTCACCTTA
1 TTTCTCCTTCACTCACCTTA
21289303 CTTATTTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.13, C:0.38, G:0.03, T:0.46
Consensus pattern (20 bp):
TTTCTCCTTCACTCACCTTA
Found at i:21289508 original size:18 final size:18
Alignment explanation
Indices: 21289482--21289517 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21289472 CTTGTTGGAC
*
21289482 TTTCTTTTTGGATTTTTA
1 TTTCATTTTGGATTTTTA
*
21289500 TTTCATTTTGTATTTTTA
1 TTTCATTTTGGATTTTTA
21289518 AGCTAGCCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.72
Consensus pattern (18 bp):
TTTCATTTTGGATTTTTA
Found at i:21291546 original size:10 final size:10
Alignment explanation
Indices: 21291531--21291558 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
21291521 TATAAAAGTT
21291531 TTTCATTTAC
1 TTTCATTTAC
21291541 TTTCATTTAC
1 TTTCATTTAC
21291551 TTTCATTT
1 TTTCATTT
21291559 CCTTACACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTCATTTAC
Found at i:21293575 original size:23 final size:23
Alignment explanation
Indices: 21293549--21293710 Score: 91
Period size: 23 Copynumber: 7.0 Consensus size: 23
21293539 AGTTACTTGC
* *
21293549 AATGACTTTGTGGCATCTTTTGT
1 AATGACTTTGTGGCATATTCTGT
*
21293572 AATGTA-TGTGTGGCATATTCTGT
1 AATG-ACTTTGTGGCATATTCTGT
* * * ** *
21293595 AATGTCTTTGTGTCGTACACTGC
1 AATGACTTTGTGGCATATTCTGT
* *
21293618 AATGCCTTTATGGCATATTCTGT
1 AATGACTTTGTGGCATATTCTGT
**
21293641 AAT-ACGTTTGTGG-AGTATTCTAC
1 AATGAC-TTTGTGGCA-TATTCTGT
**
21293664 AATG-CTTTTGTGGCATATTCTAC
1 AATGAC-TTTGTGGCATATTCTGT
* *
21293687 AATG-CATTTGTGGTAAATTCTGT
1 AATGAC-TTTGTGGCATATTCTGT
21293710 A
1 A
21293711 TAGCCTAAGT
Statistics
Matches: 106, Mismatches: 27, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
22 2 0.02
23 102 0.96
24 2 0.02
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.43
Consensus pattern (23 bp):
AATGACTTTGTGGCATATTCTGT
Found at i:21293651 original size:46 final size:46
Alignment explanation
Indices: 21293582--21293684 Score: 118
Period size: 46 Copynumber: 2.2 Consensus size: 46
21293572 AATGTATGTG
* ** *
21293582 TGGCATATTCTGTAATGTCTTTGTGTCGTACACTGCAATGCCTTTA
1 TGGCATATTCTGTAATGACTTTGTGGAGTACACTACAATGCCTTTA
** * *
21293628 TGGCATATTCTGTAAT-ACGTTTGTGGAGTATTCTACAATGCTTTTG
1 TGGCATATTCTGTAATGAC-TTTGTGGAGTACACTACAATGCCTTTA
21293674 TGGCATATTCT
1 TGGCATATTCT
21293685 ACAATGCATT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 1 0.02
46 47 0.98
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (46 bp):
TGGCATATTCTGTAATGACTTTGTGGAGTACACTACAATGCCTTTA
Found at i:21293707 original size:46 final size:46
Alignment explanation
Indices: 21293617--21293707 Score: 103
Period size: 46 Copynumber: 2.0 Consensus size: 46
21293607 TCGTACACTG
** * *
21293617 CAATGCCTTTATGGCATATTCTGTAATACGTTTGTGGAGTATTCTA
1 CAATGCCTTTATGGCATATTCTACAATACATTTGTGGAGAATTCTA
* * *
21293663 CAATGCTTTTGTGGCATATTCTACAATGCATTTGTGGTA-AATTCT
1 CAATGCCTTTATGGCATATTCTACAATACATTTGTGG-AGAATTCT
21293708 GTATAGCCTA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
46 36 0.97
47 1 0.03
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (46 bp):
CAATGCCTTTATGGCATATTCTACAATACATTTGTGGAGAATTCTA
Found at i:21300234 original size:24 final size:24
Alignment explanation
Indices: 21300196--21300447 Score: 161
Period size: 24 Copynumber: 10.8 Consensus size: 24
21300186 TGAATTGGAT
* *
21300196 AATTTACAATAAATAATATATAATA
1 AATTTAAAAT-AATAATATATGATA
* *
21300221 AATTTGAAATAATAATACAT-ATAA
1 AATTTAAAATAATAATATATGAT-A
*
21300245 AATTT-AAA-AAT--TTTGATGAT-
1 AATTTAAAATAATAATAT-ATGATA
* * **
21300265 AATTCTAGAATAATCATACGTGATA
1 AATT-TAAAATAATAATATATGATA
** * *
21300290 AATCCAAAATAATAGTATATAATA
1 AATTTAAAATAATAATATATGATA
*
21300314 AATTT-AAA-AATATTA-ATGATA
1 AATTTAAAATAATAATATATGATA
* *
21300335 AATTTGAAATAA-ATATACATGATA
1 AATTTAAAATAATA-ATATATGATA
** *
21300359 AATTTAAAATAATGTTA-ATGATG
1 AATTTAAAATAATAATATATGATA
21300382 AATTTAAAATAATAATAT-TGATA
1 AATTTAAAATAATAATATATGATA
* *
21300405 AA-TTACAAATAATAAAACATGATA
1 AATTTA-AAATAATAATATATGATA
*
21300429 AATCTAAAATAATAATATA
1 AATTTAAAATAATAATATA
21300448 CAATAAACTT
Statistics
Matches: 175, Mismatches: 34, Indels: 37
0.71 0.14 0.15
Matches are distributed among these distances:
20 5 0.03
21 13 0.07
22 20 0.11
23 51 0.29
24 72 0.41
25 14 0.08
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (24 bp):
AATTTAAAATAATAATATATGATA
Found at i:21300268 original size:69 final size:67
Alignment explanation
Indices: 21300193--21300481 Score: 199
Period size: 69 Copynumber: 4.1 Consensus size: 67
21300183 AAATGAATTG
* * * *
21300193 GATAATTTACAATAAATAATATATAATAAATTTGAAATAATAATACAT-ATAAAATTTAAAAATT
1 GATAATTTA-AATAAAT-ATACATGATAAATTTAAAATAATAATACATAAT-AAATTTAAAAATA
*
21300257 TTGAT
63 TTAAT
* ** * *
21300262 GATAATTCTAGAAT-AATCATACGTGATAAATCCAAAATAATAGTATATAATAAATTTAAAAATA
1 GATAATT-TA-AATAAAT-ATACATGATAAATTTAAAATAATAATACATAATAAATTTAAAAATA
21300326 TTAAT
63 TTAAT
** * *
21300331 GATAAATTTGAAATAAATATACATGATAAATTTAAAATAATGTTA-ATGATGAATTTAAAATAAT
1 GAT-AATTT-AAATAAATATACATGATAAATTTAAAATAATAATACATAATAAATTT-AAA-AAT
* *
21300395 AATATT
62 ATTAAT
* * * * * * *
21300401 GATAAATTACAA-ATAATAAAACATGATAAATCTAAAATAATAATATACAATAAACTTAGATAAT
1 GATAATTTA-AATA-AAT-ATACATGATAAATTTAAAATAATAATACATAATAAATTTA-AAAAT
*
21300465 ATTAAC
62 ATTAAT
21300471 GATTAATTTAA
1 GA-TAATTTAA
21300482 TGATAATAAG
Statistics
Matches: 172, Mismatches: 35, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
68 11 0.06
69 89 0.52
70 58 0.34
71 14 0.08
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (67 bp):
GATAATTTAAATAAATATACATGATAAATTTAAAATAATAATACATAATAAATTTAAAAATATTA
AT
Found at i:21300385 original size:23 final size:22
Alignment explanation
Indices: 21300311--21300441 Score: 97
Period size: 23 Copynumber: 5.7 Consensus size: 22
21300301 ATAGTATATA
21300311 ATAAATTT-AAA-AATATTAATG
1 ATAAATTTAAAATAAT-TTAATG
* *
21300332 ATAAATTTGAAATAAATATACATG
1 ATAAATTTAAAAT-AATTTA-ATG
21300356 ATAAATTTAAAATAATGTTAATG
1 ATAAATTTAAAATAAT-TTAATG
* * *
21300379 ATGAATTTAAAATAATAATATTG
1 ATAAATTTAAAATAAT-TTAATG
**
21300402 ATAAA-TTACAAATAATAAAACATG
1 ATAAATTTA-AAATAAT-TTA-ATG
*
21300426 ATAAATCTAAAATAAT
1 ATAAATTTAAAATAAT
21300442 AATATACAAT
Statistics
Matches: 91, Mismatches: 11, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
21 8 0.09
22 6 0.07
23 41 0.45
24 34 0.37
25 2 0.02
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.34
Consensus pattern (22 bp):
ATAAATTTAAAATAATTTAATG
Found at i:21300392 original size:47 final size:46
Alignment explanation
Indices: 21300285--21300490 Score: 152
Period size: 47 Copynumber: 4.4 Consensus size: 46
21300275 TAATCATACG
** * *
21300285 TGATAAATCCAAAATAATAGTATATAATAAATTT-AAA-AATATTAA
1 TGATAAATTTAAAATAATAATA-ATGATAAATTTAAAATAATATTAA
* *
21300330 TGATAAATTTGAAATAA-ATATACATGATAAATTTAAAATAATGTTAA
1 TGATAAATTTAAAATAATA-ATA-ATGATAAATTTAAAATAATATTAA
* * **
21300377 TGATGAATTTAAAATAATAATATTGATAAA-TTACAAATAATAAAACA
1 TGATAAATTTAAAATAATAATAATGATAAATTTA-AAATAATATTA-A
* ** * *
21300424 TGATAAATCTAAAATAATAATATACAATAAACTT-AGATAATATTAA
1 TGATAAATTTAAAATAATAATA-ATGATAAATTTAAAATAATATTAA
* * *
21300470 CGATTAATTTAATGATAATAA
1 TGATAAATTTAA-AATAATAA
21300491 GTATAAGCAT
Statistics
Matches: 127, Mismatches: 25, Indels: 16
0.76 0.15 0.10
Matches are distributed among these distances:
44 1 0.01
45 29 0.23
46 28 0.22
47 61 0.48
48 6 0.05
49 2 0.02
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (46 bp):
TGATAAATTTAAAATAATAATAATGATAAATTTAAAATAATATTAA
Found at i:21300464 original size:70 final size:69
Alignment explanation
Indices: 21300285--21300465 Score: 177
Period size: 70 Copynumber: 2.6 Consensus size: 69
21300275 TAATCATACG
* * * * **
21300285 TGATAAATCCAAAATAATAGTATATAATAAATTTAAAAATATTAATGATAAATTTGAAATAAATA
1 TGATAAATCTAAAATAATAATATATAATAAATTTAATAATAATAATGATAAATTACAAATAAATA
*
21300350 TACA
66 AACA
* ** * * *
21300354 TGATAAATTTAAAATAATGTTA-ATGATGAATTTAAAATAATAATATTGATAAATTACAAAT-AA
1 TGATAAATCTAAAATAATAATATATAATAAATTT--AATAATAATAATGATAAATTACAAATAAA
21300417 TAAAACA
64 T-AAACA
* *
21300424 TGATAAATCTAAAATAATAATATACAATAAACTTAGATAATA
1 TGATAAATCTAAAATAATAATATATAATAAATTTA-ATAATA
21300466 TTAACGATTA
Statistics
Matches: 88, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
68 9 0.10
69 22 0.25
70 50 0.57
71 7 0.08
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.33
Consensus pattern (69 bp):
TGATAAATCTAAAATAATAATATATAATAAATTTAATAATAATAATGATAAATTACAAATAAATA
AACA
Found at i:21301631 original size:41 final size:41
Alignment explanation
Indices: 21301574--21301732 Score: 273
Period size: 41 Copynumber: 3.9 Consensus size: 41
21301564 GAGTTTTTGG
*
21301574 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
* * *
21301615 GGCCTTTAGCAGCGTTTTTGAAGAAGCGCAGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
21301656 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
*
21301697 GGCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAAT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
21301733 AATAATAAAA
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 112 1.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (41 bp):
GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
Found at i:21302523 original size:15 final size:16
Alignment explanation
Indices: 21302503--21302534 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
21302493 TTAAGATCAA
21302503 TTATGGATTT-AGGGT
1 TTATGGATTTAAGGGT
21302518 TTATGGATTTAAGGGT
1 TTATGGATTTAAGGGT
21302534 T
1 T
21302535 AGATCTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (16 bp):
TTATGGATTTAAGGGT
Found at i:21302678 original size:21 final size:22
Alignment explanation
Indices: 21302652--21302692 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
21302642 TTTAGGATCG
*
21302652 GGTTAGGATTTA-AGGTTTAAA
1 GGTTAGGAGTTAGAGGTTTAAA
21302673 GGTTAGGAGTTAGAGGTTTA
1 GGTTAGGAGTTAGAGGTTTA
21302693 GGGGTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.34, T:0.37
Consensus pattern (22 bp):
GGTTAGGAGTTAGAGGTTTAAA
Found at i:21302700 original size:30 final size:30
Alignment explanation
Indices: 21302656--21302723 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
21302646 GGATCGGGTT
* *
21302656 AGGATTTA-AGGTTTAAAGGTTAGGAGTTA
1 AGGATTTAGGGGTTTAAAGGTTAAGAGTTA
**
21302685 GAGG-TTTAGGGGTTTAGGGGTTAAGAGTTA
1 -AGGATTTAGGGGTTTAAAGGTTAAGAGTTA
21302715 AGGATTTAG
1 AGGATTTAG
21302724 AGTTTAGGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.34
Consensus pattern (30 bp):
AGGATTTAGGGGTTTAAAGGTTAAGAGTTA
Found at i:21303038 original size:23 final size:23
Alignment explanation
Indices: 21303011--21303065 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
21303001 TTGGGATTTA
*
21303011 AGGTTTAGGGGTTAGGAGTTAGG
1 AGGTTTAGGGGTTAAGAGTTAGG
21303034 AGG-TTATGGGGTTAAGAGTTAGG
1 AGGTTTA-GGGGTTAAGAGTTAGG
*
21303057 -GATTTAGGG
1 AGGTTTAGGG
21303066 TTTCAAGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.24, C:0.00, G:0.45, T:0.31
Consensus pattern (23 bp):
AGGTTTAGGGGTTAAGAGTTAGG
Found at i:21308535 original size:43 final size:43
Alignment explanation
Indices: 21308445--21308665 Score: 293
Period size: 43 Copynumber: 5.2 Consensus size: 43
21308435 GTTTTTTTGT
* * * * *
21308445 GGCGTTTTTGAGAGAAGCGTCGCTAAAGGT-TTGTTCTTTAGC
1 GGCGTTTATGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
* *
21308487 GGCGTTTATAATAAAAGCGTCGCTAAAGGTCATGTTCTTTAGC
1 GGCGTTTATGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
*
21308530 AGCG-TTAGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
1 GGCGTTTA-TGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
* *
21308573 GGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
1 GGCGTTTATGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
* * **
21308616 AGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGCCTTTAGC
1 GGCGTTTATGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
21308659 GGCGTTT
1 GGCGTTT
21308666 CTTCACATAA
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
42 29 0.18
43 129 0.81
44 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
GGCGTTTATGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
Found at i:21308591 original size:86 final size:86
Alignment explanation
Indices: 21308459--21308665 Score: 326
Period size: 86 Copynumber: 2.4 Consensus size: 86
21308449 TTTTTGAGAG
* * * *
21308459 AAGCGTCGCTAAAGGT-TTGTTCTTTAGCGGCGTTTATAATAAAAGCGTCGCTAAAGGTCATGTT
1 AAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTATAACAAAAGCGCCGCTAAAGGTCATGTT
21308523 CTTTAGCAGCGTTAGTGATAA
66 CTTTAGCAGCGTTAGTGATAA
* *
21308544 AAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGTT
1 AAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTATAACAAAAGCGCCGCTAAAGGTCATGTT
*
21308609 CTTTAGCAGCGTTTGTGATAA
66 CTTTAGCAGCGTTAGTGATAA
**
21308630 AAGCGCCGCTAAAGGTCATGGCCTTTAGCGGCGTTT
1 AAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTT
21308666 CTTCACATAA
Statistics
Matches: 112, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
85 15 0.13
86 97 0.87
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (86 bp):
AAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTATAACAAAAGCGCCGCTAAAGGTCATGTT
CTTTAGCAGCGTTAGTGATAA
Found at i:21311863 original size:21 final size:21
Alignment explanation
Indices: 21311839--21311879 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
21311829 GTTCCAATCC
*
21311839 TTTTCTTACCCGTTTCATTTA
1 TTTTCTTACCCGTCTCATTTA
21311860 TTTTCTTACCCGTCTCATTT
1 TTTTCTTACCCGTCTCATTT
21311880 GCTTAGTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.27, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTTCTTACCCGTCTCATTTA
Found at i:21315379 original size:24 final size:24
Alignment explanation
Indices: 21315352--21315405 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
21315342 TTATAAGAAT
*
21315352 ATGAAAGATAAAGAATTAAGAAAA
1 ATGAAAGAGAAAGAATTAAGAAAA
*
21315376 ATGAAAGAGAAAGAATTAAGAAAG
1 ATGAAAGAGAAAGAATTAAGAAAA
21315400 ATGAAA
1 ATGAAA
21315406 AATGAAAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.20, T:0.15
Consensus pattern (24 bp):
ATGAAAGAGAAAGAATTAAGAAAA
Found at i:21316923 original size:35 final size:35
Alignment explanation
Indices: 21316884--21317004 Score: 113
Period size: 35 Copynumber: 3.4 Consensus size: 35
21316874 TTTAATTAAA
21316884 TTTATTAAATGAATTTAGATTTTGTCAATAAAAAC
1 TTTATTAAATGAATTTAGATTTTGTCAATAAAAAC
* ** * * **
21316919 TTTATTGAATGAATAAATATCATAAT-ACATAAAAAC
1 TTTATTAAATGAATTTAGAT-TTTGTCA-ATAAAAAC
*
21316955 -TTA-TAAATTAGAATTTAGATTTTGTCAAAAAAAAC
1 TTTATTAAA-T-GAATTTAGATTTTGTCAATAAAAAC
21316990 TTTATTAAATGAATT
1 TTTATTAAATGAATT
21317005 AATATCATAA
Statistics
Matches: 64, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
34 3 0.05
35 35 0.55
36 22 0.34
37 4 0.06
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (35 bp):
TTTATTAAATGAATTTAGATTTTGTCAATAAAAAC
Found at i:21321976 original size:14 final size:14
Alignment explanation
Indices: 21321957--21321999 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
21321947 AATTATTGTT
21321957 GGTGAGCTTGAAAA
1 GGTGAGCTTGAAAA
* *
21321971 GGTGAGCTTGGAGA
1 GGTGAGCTTGAAAA
*
21321985 GATGAGACTTGAAAA
1 GGTGAG-CTTGAAAA
21322000 AGGAAAGAGC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.35, C:0.07, G:0.37, T:0.21
Consensus pattern (14 bp):
GGTGAGCTTGAAAA
Found at i:21327427 original size:35 final size:35
Alignment explanation
Indices: 21327388--21327459 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
21327378 ATTGTGAAAA
*
21327388 TATTGGCGTTGTGGC-GAGACGTTAAATGAATGAAG
1 TATTGGCGTTGTGGCAG-GACGTTAAATGAATAAAG
* *
21327423 TATTGGTGTTGTGGCAGGACGTTACATGAATAAAG
1 TATTGGCGTTGTGGCAGGACGTTAAATGAATAAAG
21327458 TA
1 TA
21327460 ACGATGTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.29, C:0.08, G:0.32, T:0.31
Consensus pattern (35 bp):
TATTGGCGTTGTGGCAGGACGTTAAATGAATAAAG
Found at i:21327468 original size:35 final size:35
Alignment explanation
Indices: 21327395--21327470 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
21327385 AAATATTGGC
* ** *
21327395 GTTGTGGCGAGACGTTAAATGAATGAAGTATTGGT
1 GTTGTGGCGAGACGTTAAATGAATAAAGTAACGAT
*
21327430 GTTGTGGC-AGGACGTTACATGAATAAAGTAACGAT
1 GTTGTGGCGA-GACGTTAAATGAATAAAGTAACGAT
21327465 GTTGTG
1 GTTGTG
21327471 AGGGAATGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 1 0.03
35 34 0.97
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.30
Consensus pattern (35 bp):
GTTGTGGCGAGACGTTAAATGAATAAAGTAACGAT
Found at i:21342983 original size:17 final size:17
Alignment explanation
Indices: 21342961--21343013 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
21342951 ATAGAAAGTC
*
21342961 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAA
* *
21342978 AAAGATATGAGTATAAA
1 AAAGATATGGGTATCAA
21342995 AAAGATATGGGTATCAA
1 AAAGATATGGGTATCAA
21343012 AA
1 AA
21343014 TCTGGGATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.51, C:0.04, G:0.23, T:0.23
Consensus pattern (17 bp):
AAAGATATGGGTATCAA
Found at i:21346091 original size:17 final size:17
Alignment explanation
Indices: 21346069--21346101 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21346059 ATAGAAAGTC
21346069 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
21346086 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
21346102 AAATCTGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.27, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:21347923 original size:17 final size:17
Alignment explanation
Indices: 21347901--21347933 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21347891 TAGTTGTCAC
21347901 TTGAATTAAATTAATTG
1 TTGAATTAAATTAATTG
*
21347918 TTGAATTAATTTAATT
1 TTGAATTAAATTAATT
21347934 TGATAGACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (17 bp):
TTGAATTAAATTAATTG
Found at i:21348337 original size:134 final size:134
Alignment explanation
Indices: 21347996--21348410 Score: 627
Period size: 138 Copynumber: 3.0 Consensus size: 134
21347986 AACATAGATT
* *
21347996 TAATTAATATATGAATTAGATTCATACAAAATATTAGTTGTATATATTTTACCAAATTTATTAAT
1 TAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAAT
* * *
21348061 ATAAATAGTTATATTAATTAATTTCGATCAAAATATAAAA-ACATGAAAATTAATATTCTTTTGG
66 ATAAATAGTTATATTAA-T--TTT-GGTCAAAATATAAAAGAAATGAGAATTAATATTCTTTTGG
21348125 AAAGAATA
127 AAAGAATA
*
21348133 TAATTAATATATGAATTTGATTCATACAAAATATTTAATTGTATATATTTTACCGAATTTATTAA
1 TAATTAATATATGAATTTGATTCATACAAAATA-TTAATTGTATATATTTTACCAAATTTATTAA
*
21348198 TATAAAAAGTTATATTAATTTTGGTCAAAATATAAAAGAAATGAGAATTAATATTCTTTTGGAAA
65 TATAAATAGTTATATTAATTTTGGTCAAAATATAAAAGAAATGAGAATTAATATTCTTTTGGAAA
21348263 GAATA
130 GAATA
* *
21348268 TAATTAATATATGAATTTGAGTCATACAAAATATTAATTGTATATATTTTACTAAATTTATTAAT
1 TAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAAT
* *
21348333 ATAAATAGTTATATTAATTAATTTTGGTCAAAATATAAAAGATATG-GAAATTAATACTCTTTTG
66 ATAAATAG-T-TA-T-ATTAATTTTGGTCAAAATATAAAAGAAATGAG-AATTAATATTCTTTTG
21348397 GAAAGAATA
126 GAAAGAATA
21348406 TAATT
1 TAATT
21348411 CATTTTTCTA
Statistics
Matches: 258, Mismatches: 13, Indels: 13
0.91 0.05 0.05
Matches are distributed among these distances:
134 51 0.20
135 66 0.26
136 2 0.01
137 35 0.14
138 104 0.40
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.41
Consensus pattern (134 bp):
TAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAAT
ATAAATAGTTATATTAATTTTGGTCAAAATATAAAAGAAATGAGAATTAATATTCTTTTGGAAAG
AATA
Found at i:21351628 original size:37 final size:37
Alignment explanation
Indices: 21351578--21351656 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
21351568 TTATTACGAA
* * *
21351578 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
21351615 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
21351652 GTCTT
1 GTCTT
21351657 TAGAGCTCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:21351874 original size:49 final size:49
Alignment explanation
Indices: 21351773--21352005 Score: 388
Period size: 47 Copynumber: 4.8 Consensus size: 49
21351763 GCCCTTCGGG
*
21351773 ACTTATCACATTCATCACATCGGCCATTA-GCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
21351822 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
21351871 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
21351918 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
21351965 ACTTTCACATTCATCACATC-GCCATTAGGCCTTATACACAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-CACAT
21352006 CACATCGGCC
Statistics
Matches: 179, Mismatches: 1, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
46 15 0.08
47 78 0.44
48 24 0.13
49 62 0.35
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (49 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
Done.