Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_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: 5120959
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 21
Found at i:4187424 original size:13 final size:14
Alignment explanation
Indices: 4187404--4187437 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
4187394 AATAATAATA
4187404 AAATAAATAA-GAT
1 AAATAAATAAGGAT
*
4187417 AGATAAATAAGGAT
1 AAATAAATAAGGAT
4187431 AAATAAA
1 AAATAAA
4187438 ATTGAGTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.21
Consensus pattern (14 bp):
AAATAAATAAGGAT
Found at i:4195379 original size:14 final size:14
Alignment explanation
Indices: 4195355--4195390 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4195345 CATTGTACAA
4195355 TATAT-ATAAGAAT
1 TATATGATAAGAAT
4195368 TATATGATAAGAAT
1 TATATGATAAGAAT
*
4195382 TATACGATA
1 TATATGATA
4195391 TCATCATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.36
Consensus pattern (14 bp):
TATATGATAAGAAT
Found at i:4197192 original size:15 final size:15
Alignment explanation
Indices: 4197174--4197204 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4197164 ATATAAAATA
4197174 TATGAATTATTATAT
1 TATGAATTATTATAT
*
4197189 TATGGATTATTATAT
1 TATGAATTATTATAT
4197204 T
1 T
4197205 TTATATTTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
TATGAATTATTATAT
Found at i:4197354 original size:15 final size:15
Alignment explanation
Indices: 4197334--4197383 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
4197324 AACCGGGTAT
4197334 CGGGTACTCGATTAC
1 CGGGTACTCGATTAC
* **
4197349 CGGGTACCCGCAAAATC
1 CGGGTACTCG-ATTA-C
4197366 CGGGTACTCGATTAC
1 CGGGTACTCGATTAC
4197381 CGG
1 CGG
4197384 ATACCCGTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
15 13 0.48
16 4 0.15
17 10 0.37
ACGTcount: A:0.22, C:0.30, G:0.28, T:0.20
Consensus pattern (15 bp):
CGGGTACTCGATTAC
Found at i:4197402 original size:32 final size:32
Alignment explanation
Indices: 4197333--4197402 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
4197323 AAACCGGGTA
*
4197333 TCGGGTACTCGATTACCGGGTACCCGCAAAAT
1 TCGGGTACTCGATTACCGGATACCCGCAAAAT
* * *
4197365 CCGGGTACTCGATTACCGGATACCCGTAACAT
1 TCGGGTACTCGATTACCGGATACCCGCAAAAT
4197397 TCGGGT
1 TCGGGT
4197403 CGGGACACGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.23
Consensus pattern (32 bp):
TCGGGTACTCGATTACCGGATACCCGCAAAAT
Found at i:4197464 original size:15 final size:16
Alignment explanation
Indices: 4197428--4197482 Score: 67
Period size: 15 Copynumber: 3.4 Consensus size: 16
4197418 AAAATCGTCG
*
4197428 ACCCGGAAGTTCCGGAT
1 ACCCGGAA-ATCCGGAT
*
4197445 ACCCGGAAAT-CGGGT
1 ACCCGGAAATCCGGAT
*
4197460 ACCCGAAAATCCGGAT
1 ACCCGGAAATCCGGAT
4197476 ACCCGGA
1 ACCCGGA
4197483 TTTGCACACC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
15 13 0.41
16 11 0.34
17 8 0.25
ACGTcount: A:0.29, C:0.31, G:0.27, T:0.13
Consensus pattern (16 bp):
ACCCGGAAATCCGGAT
Found at i:4198571 original size:57 final size:57
Alignment explanation
Indices: 4198456--4198571 Score: 130
Period size: 57 Copynumber: 2.0 Consensus size: 57
4198446 TATACTTTAC
* * * * *
4198456 TTTATTTTAATTTTGGCATGTTAGTTTGATTATTTATGTTTTAGTCCTACTTTTATT
1 TTTATTTTAATTTTGGCATGTTAGTTTGATTATTAATATTTTAGCCCTACATTAATT
*
4198513 TTTATTTTAATTTTTGCATGTT-GTTTGCA-TATTAATTCATTTTAGCCCTA-ATTAATT
1 TTTATTTTAATTTTGGCATGTTAGTTTG-ATTATTAA-T-ATTTTAGCCCTACATTAATT
4198570 TT
1 TT
4198572 GTATGATAGC
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
56 10 0.20
57 30 0.60
58 10 0.20
ACGTcount: A:0.22, C:0.09, G:0.10, T:0.59
Consensus pattern (57 bp):
TTTATTTTAATTTTGGCATGTTAGTTTGATTATTAATATTTTAGCCCTACATTAATT
Found at i:4203156 original size:42 final size:41
Alignment explanation
Indices: 4203055--4203156 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 41
4203045 TATGGATGGC
*
4203055 CCCGAA-GACTTATCATCTTGCTCAAAAGACTTATAGATGA
1 CCCGAAGGACTTATCATCATGCTCAAAAGACTTATAGATGA
* * * * *
4203095 CTCGAAGGATTTAAGCATCATGCTCCAAAGACTTATTGATTG-
1 CCCGAAGGACTT-ATCATCATGCTCAAAAGACTTATAGA-TGA
4203137 CCCGAAGGACTTACTCATCA
1 CCCGAAGGACTTA-TCATCA
4203157 ACAAACCCTT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
40 5 0.10
41 5 0.10
42 37 0.76
43 2 0.04
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (41 bp):
CCCGAAGGACTTATCATCATGCTCAAAAGACTTATAGATGA
Found at i:4203364 original size:41 final size:40
Alignment explanation
Indices: 4203319--4203425 Score: 99
Period size: 42 Copynumber: 2.6 Consensus size: 40
4203309 GCCCGAATGT
* * *
4203319 CTTATGGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGA
1 CTTAT-GATGGCCCGAAGGACTTAGCATCATGCTCAAAAAA
* *
4203360 CTTATAGAT-GACCGAAAGGATTTAAGCATCATGCTCAAAAAA
1 CTTAT-GATGGCCCG-AAGGACTT-AGCATCATGCTCAAAAAA
* *
4203402 CTTACTGATGACCCGAAAGACTTA
1 CTTA-TGATGGCCCGAAGGACTTA
4203426 CATATAAAGA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
40 4 0.08
41 16 0.31
42 28 0.54
43 4 0.08
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (40 bp):
CTTATGATGGCCCGAAGGACTTAGCATCATGCTCAAAAAA
Found at i:4203625 original size:275 final size:276
Alignment explanation
Indices: 4202788--4203849 Score: 1379
Period size: 276 Copynumber: 3.9 Consensus size: 276
4202778 ATAACGTGAG
* * **
4202788 GACTTATCATCTTGCTCGAAAGACTTATAGATGACCCAAAGGATTTAAGCATCATGCTTGAAAGA
1 GACTTATCATCTTGCTCAAAAGACTTATAGATGACCGAAAGGATTTAAGCATCATGCTCAAAAGA
* ** * * *
4202853 CTTATTGATGGTTCGAAGGACTTACGCATCAAGAAACCTTGAAAATAAAGCTTAGTTTCTTAGTT
66 CTTACTGATGGCCCGAAGGACTTACTCATAAAGAAACCTTGAAAATCAAGCTTAGTTTCTTAGTT
* * *
4202918 GTCGTC-AGGAACCCCT--AAATTAGGCTTAGCTTCATATTAAAAACTCTTTGGAGATAATCATC
131 GTCATCAAGGAACCCCTAAAAATTAGGCTTAACTTCATTTTAAAAACTCTTTGGAGATAATCATC
* * * * * *
4202980 ACGAAACCCC-TGAAAGTCATACCTAGTTTCTAAAAACTCATTTGAAAAATCCTGCCCGAAGGTC
196 AAGGAACCCCTTGAAAATCATGCTTAGTTTCTAAAAACTCATTTGAAAAATCATGCCCGAAGGTC
4203044 TTATGGATGGCCCCGAA
261 TTATGGATGG-CCCGAA
*
4203061 GACTTATCATCTTGCTCAAAAGACTTATAGATGACTCG-AAGGATTTAAGCATCATGCTCCAAAG
1 GACTTATCATCTTGCTCAAAAGACTTATAGATGAC-CGAAAGGATTTAAGCATCATGCTCAAAAG
* * * *
4203125 ACTTATTGATTGCCCGAAGGACTTACTCATCAACAAACCCTTGAAAATCAAGCTTAGTTTCTTAG
65 ACTTACTGATGGCCCGAAGGACTTACTCATAAAGAAA-CCTTGAAAATCAAGCTTAGTTTCTTAG
* *
4203190 TTGTCATCAAGGAACCCCTAAAAACTAGGCTTAGA-TTCATTTTAAAATA-TATTTGGAGATAAT
129 TTGTCATCAAGGAACCCCTAAAAATTAGGCTTA-ACTTCATTTTAAAA-ACTCTTTGGAGATAAT
* * ** *
4203253 TAT-AAAGAA-AACTTGAAAATCATGCTTA-TTTCTAAAAGCTCATTTGAAAAAAT-ATTGCCCG
192 CATCAAGGAACCCCTTGAAAATCATGCTTAGTTTCTAAAAACTCATTTG-AAAAATCA-TGCCCG
*
4203314 AATGTCTTATGGATGGCCCGAA
255 AAGGTCTTATGGATGGCCCGAA
*
4203336 GGACTTATCATCTTGCTCAAAAGACTTATAGATGACCGAAAGGATTTAAGCATCATGCTCAAAAA
1 -GACTTATCATCTTGCTCAAAAGACTTATAGATGACCGAAAGGATTTAAGCATCATGCTCAAAAG
* * * *
4203401 ACTTACTGATGACCCGAAAGACTTACAT-ATAAAGAAACCTTGAAAATCAAGATTAGTTTTTTAG
65 ACTTACTGATGGCCCGAAGGACTTAC-TCATAAAGAAACCTTGAAAATCAAGCTTAGTTTCTTAG
*
4203465 TTG-CATCAAGGAACCCCT-AAAATTAGGCTTAACTTCCTTTTAAAAACTCTTTGGAGATAATCA
129 TTGTCATCAAGGAACCCCTAAAAATTAGGCTTAACTTCATTTTAAAAACTCTTTGGAGATAATCA
* * * *
4203528 TCAAGGAACCCCTT-AAAATCA-GACTTAGTTTCTAAAAACTGATTTGAGAACATCATACTCGAA
194 TCAAGGAACCCCTTGAAAATCATG-CTTAGTTTCTAAAAACTCATTTGA-AAAATCATGCCCGAA
* *
4203591 GGTCATATGGATGGCCCAAA
257 GGTCTTATGGATGGCCCGAA
* * * **
4203611 TGACTTATCATCTTGCTCGAAAGACTTATAGATGAGC-AAAAGATTTAATTATCATGCTCAAAAG
1 -GACTTATCATCTTGCTCAAAAGACTTATAGATGACCGAAAGGATTTAAGCATCATGCTCAAAAG
4203675 ACTTACTGATGGCCCGAAGGACTTACTCATAAAGAAACACTTGAAAATCAAGCTTAGTTTCTTAG
65 ACTTACTGATGGCCCGAAGGACTTACTCATAAAGAAAC-CTTGAAAATCAAGCTTAGTTTCTTAG
* * *
4203740 TTGTAATCAAGGAACCCCTAAAAATTAGGCTTAACTTC-CTTTAAAAATTCTTTGGAGATAATCA
129 TTGTCATCAAGGAACCCCTAAAAATTAGGCTTAACTTCATTTTAAAAACTCTTTGGAGATAATCA
* * *
4203804 TCAA-TAAACCCTTGAAAATCATGCTAAGTTTCTAAAAACTCATTTG
194 TCAAGGAACCCCTTGAAAATCATGCTTAGTTTCTAAAAACTCATTTG
4203850 TAAACACCAA
Statistics
Matches: 692, Mismatches: 70, Indels: 51
0.85 0.09 0.06
Matches are distributed among these distances:
272 2 0.00
273 130 0.19
274 123 0.18
275 178 0.26
276 201 0.29
277 57 0.08
278 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (276 bp):
GACTTATCATCTTGCTCAAAAGACTTATAGATGACCGAAAGGATTTAAGCATCATGCTCAAAAGA
CTTACTGATGGCCCGAAGGACTTACTCATAAAGAAACCTTGAAAATCAAGCTTAGTTTCTTAGTT
GTCATCAAGGAACCCCTAAAAATTAGGCTTAACTTCATTTTAAAAACTCTTTGGAGATAATCATC
AAGGAACCCCTTGAAAATCATGCTTAGTTTCTAAAAACTCATTTGAAAAATCATGCCCGAAGGTC
TTATGGATGGCCCGAA
Found at i:4203825 original size:550 final size:550
Alignment explanation
Indices: 4202786--4203849 Score: 1528
Period size: 550 Copynumber: 1.9 Consensus size: 550
4202776 CAATAACGTG
* **
4202786 AGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCAAAGGATTTAAGCATCATGCTTGAAA
1 AGGACTTATCATCTTGCTCAAAAGACTTATAGATGACCCAAAGGATTTAAGCATCATGCTCAAAA
* * *** * * * *
4202851 GACTTATTGATGGTTCGAAGGACTTACGCATCAAGAAACCTTGAAAATAAAGCTTAGTTTCTTAG
66 AACTTACTGATGACCCGAAAGACTTACACATAAAGAAACCTTGAAAATAAAGATTAGTTTCTTAG
* *
4202916 TTGTCGTCAGGAACCCCTAAATTAGGCTTAGCTTCATATTAAAAACTCTTTGGAGATAATCATCA
131 TTGTCATCAGGAACCCCTAAATTAGGCTTAACTTCATATTAAAAACTCTTTGGAGATAATCATCA
* * * * * *
4202981 CGAAACCCCTGAAAGTCATACCTAGTTTCTAAAAACTCATTTGAAAAATCCTGCCCGAAGGTCTT
196 AGAAACCCCTGAAAATCAGACCTAGTTTCTAAAAACTCATTTGAAAAATCATACCCGAAGGTCAT
* * * *
4203046 ATGGATGGCCCCGAAGACTTATCATCTTGCTCAAAAGACTTATAGATGACTCGAAGGATTTAAGC
261 ATGGATGGCCCCAAAGACTTATCATCTTGCTCAAAAGACTTATAGATGACGCAAAAGATTTAAGC
* * * * *
4203111 ATCATGCTCCAAAGACTTATTGATTGCCCGAAGGACTTACTCATCAACAAACCCTTGAAAATCAA
326 ATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACTCATAAACAAACACTTGAAAATCAA
* *
4203176 GCTTAGTTTCTTAGTTGTCATCAAGGAACCCCTAAAAACTAGGCTTAGATTCATTTTAAAATATA
391 GCTTAGTTTCTTAGTTGTAATCAAGGAACCCCTAAAAACTAGGCTTAGATTCATTTAAAAATATA
* * *
4203241 TTTGGAGATAATTATAAAGAAAACTTGAAAATCATGCTTA-TTTCTAAAAGCTCATTTGAAAAAA
456 TTTGGAGATAATCATAAAGAAAACTTGAAAATCATGCTAAGTTTCTAAAAACTCATTTGAAAAAA
4203305 TATTGCCCGAATGTCTTATGGATGGCCCGA
521 TATTGCCCGAATGTCTTATGGATGGCCCGA
*
4203335 AGGACTTATCATCTTGCTCAAAAGACTTATAGATGACCGAAAGGATTTAAGCATCATGCTCAAAA
1 AGGACTTATCATCTTGCTCAAAAGACTTATAGATGACCCAAAGGATTTAAGCATCATGCTCAAAA
* * *
4203400 AACTTACTGATGACCCGAAAGACTTACATATAAAGAAACCTTGAAAATCAAGATTAGTTTTTTAG
66 AACTTACTGATGACCCGAAAGACTTACACATAAAGAAACCTTGAAAATAAAGATTAGTTTCTTAG
* *
4203465 TTG-CATCAAGGAACCCCTAAAATTAGGCTTAACTTCCTTTTAAAAACTCTTTGGAGATAATCAT
131 TTGTCATC-AGGAACCCCT-AAATTAGGCTTAACTTCATATTAAAAACTCTTTGGAGATAATCAT
* * * * * *
4203529 CAAGGAACCCCTTAAAATCAGACTTAGTTTCTAAAAACTGATTTGAGAACATCATACTCGAAGGT
194 CAAGAAACCCCTGAAAATCAGACCTAGTTTCTAAAAACTCATTTGA-AAAATCATACCCGAAGGT
*
4203594 CATATGGATGG-CCCAAATGACTTATCATCTTGCTCGAAAGACTTATAGATGA-GCAAAAGATTT
258 CATATGGATGGCCCCAAA-GACTTATCATCTTGCTCAAAAGACTTATAGATGACGCAAAAGATTT
** *
4203657 AATTATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACTCATAAAGAAACACTTGAAAA
322 AAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACTCATAAACAAACACTTGAAAA
* *
4203722 TCAAGCTTAGTTTCTTAGTTGTAATCAAGGAACCCCTAAAAATTAGGCTTA-ACTTCCTTTAAAA
387 TCAAGCTTAGTTTCTTAGTTGTAATCAAGGAACCCCTAAAAACTAGGCTTAGA-TTCATTTAAAA
* * * *
4203786 AT-TCTTTGGAGATAATCATCAATAAACCCTTGAAAATCATGCTAAGTTTCTAAAAACTCATTTG
451 ATATATTTGGAGATAATCATAAAGAAA-ACTTGAAAATCATGCTAAGTTTCTAAAAACTCATTTG
4203850 TAAACACCAA
Statistics
Matches: 452, Mismatches: 56, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
548 3 0.01
549 148 0.33
550 227 0.50
551 74 0.16
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (550 bp):
AGGACTTATCATCTTGCTCAAAAGACTTATAGATGACCCAAAGGATTTAAGCATCATGCTCAAAA
AACTTACTGATGACCCGAAAGACTTACACATAAAGAAACCTTGAAAATAAAGATTAGTTTCTTAG
TTGTCATCAGGAACCCCTAAATTAGGCTTAACTTCATATTAAAAACTCTTTGGAGATAATCATCA
AGAAACCCCTGAAAATCAGACCTAGTTTCTAAAAACTCATTTGAAAAATCATACCCGAAGGTCAT
ATGGATGGCCCCAAAGACTTATCATCTTGCTCAAAAGACTTATAGATGACGCAAAAGATTTAAGC
ATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACTCATAAACAAACACTTGAAAATCAA
GCTTAGTTTCTTAGTTGTAATCAAGGAACCCCTAAAAACTAGGCTTAGATTCATTTAAAAATATA
TTTGGAGATAATCATAAAGAAAACTTGAAAATCATGCTAAGTTTCTAAAAACTCATTTGAAAAAA
TATTGCCCGAATGTCTTATGGATGGCCCGA
Found at i:4205888 original size:9 final size:9
Alignment explanation
Indices: 4205874--4205925 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
4205864 CTTTCTGTAT
4205874 TTTTTTCTC
1 TTTTTTCTC
4205883 TTTTTT-TC
1 TTTTTTCTC
*
4205891 CTTTTTCTC
1 TTTTTTCTC
*
4205900 TTTTCCTTATTC
1 TTTT--TT-CTC
4205912 TTTTTTCTC
1 TTTTTTCTC
4205921 TTTTT
1 TTTTT
4205926 ATGTTTTGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
8 7 0.20
9 18 0.51
10 2 0.06
11 2 0.06
12 6 0.17
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTCTC
Found at i:4205905 original size:14 final size:14
Alignment explanation
Indices: 4205886--4205925 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
4205876 TTTTCTCTTT
4205886 TTTTCCTTTTTCTC
1 TTTTCCTTTTTCTC
* *
4205900 TTTTCCTTATTCTT
1 TTTTCCTTTTTCTC
4205914 TTTTCTCTTTTT
1 TTTTC-CTTTTT
4205926 ATGTTTTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTCCTTTTTCTC
Found at i:4209864 original size:2 final size:2
Alignment explanation
Indices: 4209857--4209884 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4209847 TTTACCAAAA
4209857 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4209885 CATGTGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4241623 original size:19 final size:19
Alignment explanation
Indices: 4241599--4241636 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4241589 CTAGAGTATT
4241599 ACAGAGTCCAAAGGGCATC
1 ACAGAGTCCAAAGGGCATC
4241618 ACAGAGTCCAAAGGGCATC
1 ACAGAGTCCAAAGGGCATC
4241637 CTCTTAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.26, T:0.11
Consensus pattern (19 bp):
ACAGAGTCCAAAGGGCATC
Found at i:4249213 original size:24 final size:23
Alignment explanation
Indices: 4249181--4249228 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
4249171 TAAGTTTTTA
*
4249181 AAATTTTAATA-AACAATGAAAAT
1 AAATTTTAATAGAA-AATAAAAAT
4249204 AAATTATTAATAGAAAATAAAAAT
1 AAATT-TTAATAGAAAATAAAAAT
4249228 A
1 A
4249229 TTTAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 5 0.23
24 15 0.68
25 2 0.09
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (23 bp):
AAATTTTAATAGAAAATAAAAAT
Found at i:4253959 original size:80 final size:79
Alignment explanation
Indices: 4253745--4254622 Score: 854
Period size: 80 Copynumber: 10.9 Consensus size: 79
4253735 GTCGGTTGAG
* *
4253745 CCCTTCTTTCCTTGAGCTATGTTGCAAATGATGTGCCTTTAAGCTGAGTGTAATCGAACTCGAAA
1 CCCTTC-TTCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
4253810 GTCTTTTGTTGACAGATAA
65 GT-TTTTG--G-CAGATAA
* * * * *
4253829 CCCTTC-TCGTCTTGAGCTATGCTACAAATGATGTACCTTTGAGGTAAGTGTAATCGAACTCGAA
1 CCCTTCTTC--CTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAA
* *
4253893 CGTATTGGTTGGTAGATAA
64 GGT-TT--TTGGCAGATAA
* * * *
4253912 CCCTTC-T-CTTGAGATATGTTGCAACTGATGTTCCTTTGAGCTGAGTGTAATCGAATTCGAAGG
1 CCCTTCTTCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
*
4253975 TCTTTGTTGACAGATAA
66 --TTT-TTGGCAGATAA
* * * * *
4253992 CACTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTTGAGCTGAGTGTAATTGAACTCGAAG
1 CCCTTCT-TCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
* *
4254057 GTATTTAGCAGATAA
65 GTTTTTGGCAGATAA
* *
4254072 CCCTTCTTGCCTTGAGCTATG-TGCAAATGATATGCCTTTGAGGTGAGTGTAATCGAACTCGAAG
1 CCCTTCTT-CCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
* ** * *
4254136 G-CTTTGAAAGGTAG
65 GTTTTTGGCAGATAA
* * * * *
4254150 CCCTTCTTGCCTTGAGCTAAGCTGCAAATGATATGCCTTTGAGCTGAGTATAATCTAACTCGAAG
1 CCCTTCTT-CCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
* * * * *
4254215 GTCTTTAGAAGGTAG
65 GTTTTTGGCAGATAA
* *
4254230 CCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGAGTAATCAAACTCGAAG
1 CCCTTCTT-CCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
* * *
4254295 GTCTTTGGCAGGTAG
65 GTTTTTGGCAGATAA
* * * * * *
4254310 CCCTTCTTGCCTTAAGCTAAGCTGCAAATTATGTTCCTTTGAGCT-ATGTGTAATCAAACTCGAA
1 CCCTTCTT-CCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGA-GTGTAATCGAACTCGAA
* * * *
4254374 GGTCTTTGGTAGGTAT
64 GGTTTTTGGCAGATAA
* * * *
4254390 CCCTTCGTGCCTTGAGCTATGCTT-CAAATGATATGCCTTTGAGCTGAGTGAAATTGAACTCGAA
1 CCCTTC-TTCCTTGAGCTATG-TTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAA
* *
4254454 GGTCTTTT-GCAGGTAG
64 GGT-TTTTGGCAGATAA
* * * *
4254470 CCCTTCTTGCCTTGAGTTATGTTGTAAATGATGTGCCTTTGAGCTGCGTGTAATTGAACTCGAAG
1 CCCTTCTT-CCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
** * *
4254535 GTCATTGGCAGGTAG
65 GTTTTTGGCAGATAA
* *
4254550 CCCTTCTTTCCTTGAGCTATGCTGCAAATGATGTTCCTTTGAGCTGAGTGTAATCGAACTCGAAG
1 CCCTTC-TTCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
4254615 GTCTTTTG
65 GT-TTTTG
4254623 TTGAAGGTGC
Statistics
Matches: 677, Mismatches: 95, Indels: 47
0.83 0.12 0.06
Matches are distributed among these distances:
78 27 0.04
79 87 0.13
80 420 0.62
81 15 0.02
82 3 0.00
83 63 0.09
84 59 0.09
86 3 0.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (79 bp):
CCCTTCTTCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
TTTTTGGCAGATAA
Found at i:4254473 original size:240 final size:239
Alignment explanation
Indices: 4253743--4254620 Score: 1061
Period size: 240 Copynumber: 3.6 Consensus size: 239
4253733 ATGTCGGTTG
* *
4253743 AGCCCTTCTTTCCTTGAGCTATGTTGCAAATGATGTGCCTTTAAGCTGAGTGTAATCGAACTCGA
1 AGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGA
* * * * * *
4253808 AAGTCTTTTGTTGACAGATAACCCTTCTCGTCTTGAGCTATGCTACAAATGATGTACCTTTGAGG
66 AGGTC-TTTG--G-CAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTTCCTTTGAGC
* * * * *
4253873 TAAGTGTAATCGAACTCGAACGTATTGGTTGGTAGATAACCCTTCT--CTTGAGATATG-TTGCA
127 TGAGTGTAATCGAACTCGAAGGT-CT--TTGGTAGGTAACCCTTCTGCCTTGAGCTATGCTT-CA
* * * * * * *
4253935 ACTGATGTTCCTTTGAGCTGAGTGTAATCGAATTCGAAGGTCTTTGTTGACAGAT
188 AATGATATGCCTTTGAGCTGAGTGAAATTGAACTCGAAGGTC-TT-TTG-CAGGT
* * * * * *
4253990 AACACTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTTGAGCTGAGTGTAATTGAACTCGA
1 AGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGA
* * * * *
4254055 AGGTATTTAGCAGATAACCCTTCTTGCCTTGAGCTATG-TGCAAATGATATGCCTTTGAGGTGAG
66 AGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTTCCTTTGAGCTGAG
** * * *
4254119 TGTAATCGAACTCGAAGG-CTTTGAAAGGTAGCCCTTCTTGCCTTGAGCTAAGCTGCAAATGATA
131 TGTAATCGAACTCGAAGGTCTTTGGTAGGTAACCCTTC-TGCCTTGAGCTATGCTTCAAATGATA
* *
4254183 TGCCTTTGAGCTGAGT-ATAATCT-AACTCGAAGGTCTTTAGAAGGT
195 TGCCTTTGAGCTGAGTGA-AAT-TGAACTCGAAGGTCTTTTGCAGGT
* *
4254228 AGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGAGTAATCAAACTCGA
1 AGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGA
* * * * *
4254293 AGGTCTTTGGCAGGTAGCCCTTCTTGCCTTAAGCTAAGCTGCAAATTATGTTCCTTTGAGCT-AT
66 AGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTTCCTTTGAGCTGA-
* *
4254357 GTGTAATCAAACTCGAAGGTCTTTGGTAGGTATCCCTTCGTGCCTTGAGCTATGCTTCAAATGAT
130 GTGTAATCGAACTCGAAGGTCTTTGGTAGGTAACCCTTC-TGCCTTGAGCTATGCTTCAAATGAT
4254422 ATGCCTTTGAGCTGAGTGAAATTGAACTCGAAGGTCTTTTGCAGGT
194 ATGCCTTTGAGCTGAGTGAAATTGAACTCGAAGGTCTTTTGCAGGT
* * * *
4254468 AGCCCTTCTTGCCTTGAGTTATGTTGTAAATGATGTGCCTTTGAGCTGCGTGTAATTGAACTCGA
1 AGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGA
* * * *
4254533 AGGTCATTGGCAGGTAGCCCTTCTTTCCTTGAGCTATGCTGCAAATGATGTTCCTTTGAGCTGAG
66 AGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTTCCTTTGAGCTGAG
4254598 TGTAATCGAACTCGAAGGTCTTT
131 TGTAATCGAACTCGAAGGTCTTT
4254621 TGTTGAAGGT
Statistics
Matches: 545, Mismatches: 74, Indels: 31
0.84 0.11 0.05
Matches are distributed among these distances:
238 106 0.19
239 41 0.08
240 221 0.41
241 47 0.09
242 40 0.07
243 26 0.05
244 1 0.00
246 3 0.01
247 60 0.11
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (239 bp):
AGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGA
AGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTTCCTTTGAGCTGAG
TGTAATCGAACTCGAAGGTCTTTGGTAGGTAACCCTTCTGCCTTGAGCTATGCTTCAAATGATAT
GCCTTTGAGCTGAGTGAAATTGAACTCGAAGGTCTTTTGCAGGT
Found at i:4254621 original size:160 final size:161
Alignment explanation
Indices: 4253743--4254622 Score: 1003
Period size: 160 Copynumber: 5.5 Consensus size: 161
4253733 ATGTCGGTTG
* *
4253743 AGCCCTTCTTTCCTTGAGCTATGTTGCAAATGATGTGCCTTTAAGCTGAGTGTAATCGAACTCGA
1 AGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGA
* * * * * * * *
4253808 AAGTCTTTTGTTGACAGATAACCCTTCTCGTCTTGAGCTATGCTACAAATGATGTACCTTTGAGG
66 AGGTC--TT-TTGACAGGTAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGC
* * * **
4253873 TAAGTGTAATCGAACTCGAACGT-ATTGGTTGGT
128 TGAGTGTAATTGAACTCGAAGGTCATTGGCAGGT
* * * *
4253906 AGATAACCCTTC-T--CTTGAGATATGTTGCAACTGATGTTCCTTTGAGCTGAGTGTAATCGAAT
1 AG----CCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAAC
* * * * * * *
4253968 TCGAAGGTCTTTGTTGACAGATAACACTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTTG
62 TCGAAGGTC-TT-TTGACAGGTAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTG
* *
4254033 AGCTGAGTGTAATTGAACTCGAAGGT-ATTTAGCAGAT
125 AGCTGAGTGTAATTGAACTCGAAGGTCA-TTGGCAGGT
* * *
4254070 AACCCTTCTTGCCTTGAGCTATG-TGCAAATGATATGCCTTTGAGGTGAGTGTAATCGAACTCGA
1 AGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGA
* * *
4254134 AGG-C-TTTGAAAGGTAGCCCTTCTTGCCTTGAGCTAAGCTGCAAATGATATGCCTTTGAGCTGA
66 AGGTCTTTTGACAGGTAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGA
* * * *
4254197 GTATAATCT-AACTCGAAGGTCTTTAGAAGGT
131 GTGTAAT-TGAACTCGAAGGTCATTGGCAGGT
* *
4254228 AGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGAGTAATCAAACTCGA
1 AGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGA
* * * * *
4254293 AGGTC-TTTGGCAGGTAGCCCTTCTTGCCTTAAGCTAAGCTGCAAATTATGTTCCTTTGAGCT-A
66 AGGTCTTTTGACAGGTAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGA
** * *
4254356 TGTGTAATCAAACTCGAAGGTCTTTGGTAGGT
131 -GTGTAATTGAACTCGAAGGTCATTGGCAGGT
* * * * *
4254388 ATCCCTTCGTGCCTTGAGCTATGCTT-CAAATGATATGCCTTTGAGCTGAGTGAAATTGAACTCG
1 AGCCCTTCTTGCCTTGAGCTATG-TTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCG
* * *
4254452 AAGGTCTTTTG-CAGGTAGCCCTTCTTGCCTTGAGTTATGTTGTAAATGATGTGCCTTTGAGCTG
65 AAGGTCTTTTGACAGGTAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTG
*
4254516 CGTGTAATTGAACTCGAAGGTCATTGGCAGGT
130 AGTGTAATTGAACTCGAAGGTCATTGGCAGGT
* * *
4254548 AGCCCTTCTTTCCTTGAGCTATGCTGCAAATGATGTTCCTTTGAGCTGAGTGTAATCGAACTCGA
1 AGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGA
4254613 AGGTCTTTTG
66 AGGTCTTTTG
4254623 TTGAAGGTGC
Statistics
Matches: 614, Mismatches: 85, Indels: 39
0.83 0.12 0.05
Matches are distributed among these distances:
158 94 0.15
159 44 0.07
160 281 0.46
161 8 0.01
162 39 0.06
163 83 0.14
164 58 0.09
166 1 0.00
167 6 0.01
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (161 bp):
AGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGA
AGGTCTTTTGACAGGTAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGA
GTGTAATTGAACTCGAAGGTCATTGGCAGGT
Found at i:4259570 original size:12 final size:12
Alignment explanation
Indices: 4259535--4259646 Score: 61
Period size: 11 Copynumber: 9.2 Consensus size: 12
4259525 AATCATAACG
*
4259535 AATAAAACA-AA
1 AATAAAAAATAA
4259546 AATAAATAAATAA
1 AATAAA-AAATAA
*
4259559 TATAAAAAATAA
1 AATAAAAAATAA
***
4259571 AATAAAATGGCAA
1 AATAAAA-AATAA
4259584 AATAAATAAACATAA
1 AAT-AA-AAA-ATAA
**
4259599 AAT-AAAAGCAA
1 AATAAAAAATAA
* *
4259610 AACAAATAA-AA
1 AATAAAAAATAA
4259621 AATATAAAAATAA
1 AATA-AAAAATAA
4259634 AAT-AAAAATAA
1 AATAAAAAATAA
4259645 AA
1 AA
4259647 CGAAAAGAAA
Statistics
Matches: 76, Mismatches: 16, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
11 25 0.33
12 24 0.32
13 18 0.24
14 2 0.03
15 7 0.09
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.17
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:4259572 original size:5 final size:5
Alignment explanation
Indices: 4259564--4259694 Score: 61
Period size: 5 Copynumber: 24.4 Consensus size: 5
4259554 AATAATATAA
*
4259564 AAAAT AAAAT AAAAT GGCAAAAT -AAAT AAACAT AAAAT AAAAGC AAAA-
1 AAAAT AAAAT AAAAT ---AAAAT AAAAT AAA-AT AAAAT AAAA-T AAAAT
* * * * *
4259612 CAAAT AAAA- AATAT AAAAAT AAAAT AAAAAT AAAACG AAAAG AAAAG
1 AAAAT AAAAT AAAAT -AAAAT AAAAT -AAAAT AAAA-T AAAAT AAAAT
* *
4259659 AAAAG AAAAGA AGAAAT AAAAT AAGAAT AAGAAT AA
1 AAAAT AAAA-T A-AAAT AAAAT AA-AAT AA-AAT AA
4259695 TATATACATA
Statistics
Matches: 104, Mismatches: 8, Indels: 27
0.75 0.06 0.19
Matches are distributed among these distances:
4 10 0.10
5 51 0.49
6 35 0.34
7 3 0.03
8 5 0.05
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.13
Consensus pattern (5 bp):
AAAAT
Found at i:4259616 original size:26 final size:27
Alignment explanation
Indices: 4259567--4259619 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
4259557 AATATAAAAA
*
4259567 ATAAAATAAAATGGCAAAATAAATAAAC
1 ATAAAATAAAA-GGCAAAACAAATAAAC
4259595 ATAAAATAAAA-GCAAAACAAATAAA
1 ATAAAATAAAAGGCAAAACAAATAAA
4259620 AAATATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 13 0.54
28 11 0.46
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.15
Consensus pattern (27 bp):
ATAAAATAAAAGGCAAAACAAATAAAC
Found at i:4259631 original size:30 final size:29
Alignment explanation
Indices: 4259535--4259640 Score: 88
Period size: 30 Copynumber: 3.4 Consensus size: 29
4259525 AATCATAACG
* *
4259535 AATAAAACAAAAATAAATAAATAATATAAAA
1 AATAAAAC-AAAACAAATAAAAAATAT-AAA
* *
4259566 AATAAAATAAAATGGCAAAATAAATAAACAT-AA
1 AATAAAACAAAA---C-AAATAAA-AAATATAAA
4259599 AATAAAAGCAAAACAAATAAAAAATATAAA
1 AATAAAA-CAAAACAAATAAAAAATATAAA
*
4259629 AATAAAATAAAA
1 AATAAAACAAAA
4259641 ATAAAACGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
29 9 0.15
30 20 0.33
31 8 0.13
33 9 0.15
34 11 0.18
35 4 0.07
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (29 bp):
AATAAAACAAAACAAATAAAAAATATAAA
Found at i:4260889 original size:5 final size:5
Alignment explanation
Indices: 4260873--4260917 Score: 63
Period size: 5 Copynumber: 9.0 Consensus size: 5
4260863 AAAAACAAAA
* * *
4260873 TAAAA TAAAT TACAT TACAT TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
4260918 GAATAAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (5 bp):
TAAAT
Found at i:4260941 original size:13 final size:13
Alignment explanation
Indices: 4260925--4260951 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4260915 AATGAATAAA
4260925 ATAATAATAATAT
1 ATAATAATAATAT
4260938 ATAATAATAATAT
1 ATAATAATAATAT
4260951 A
1 A
4260952 ATACAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATAATAATAT
Found at i:4261128 original size:37 final size:36
Alignment explanation
Indices: 4260956--4261344 Score: 336
Period size: 37 Copynumber: 10.8 Consensus size: 36
4260946 AATATAATAC
* *
4260956 AAACTATATAATATAT-ATATTTCAAAAATATTTTT-
1 AAACTATATATTATATAAT-TTTCAAAAATGTTTTTA
* *
4260991 AAACTATATATTATAT--TTTT-AAAAAAGTTTTCA
1 AAACTATATATTATATAATTTTCAAAAATGTTTTTA
* *
4261024 AAACTATATATTATACAATTTTCAAAAATG-ATTTA
1 AAACTATATATTATATAATTTTCAAAAATGTTTTTA
*
4261059 AAA--A-ATATCATATAACTTTTCAAAAATGTTTTTA
1 AAACTATATATTATATAA-TTTTCAAAAATGTTTTTA
*
4261093 AAACTATATATTATATAATTTTCAACAATGTTTTTTA
1 AAACTATATATTATATAATTTTCAAAAATG-TTTTTA
* ** *
4261130 AAAGTATATATTATATAAGTTTTTTAAAATGTTTTAA
1 AAACTATATATTATATAA-TTTTCAAAAATGTTTTTA
* * *
4261167 AAAGTATATATTATATAAGTTTTTAAAAATGTTTTAA
1 AAACTATATATTATATAA-TTTTCAAAAATGTTTTTA
* *
4261204 AAACTATATATTATATAAGTTTTCAAAAAAAGTTTTAA
1 AAACTATATATTATATAA-TTTTC-AAAAATGTTTTTA
* *
4261242 AAACTATAT-TATATATATTTTTC-AAAATGATTTGAAAACTAA
1 AAACTATATAT-TATATAATTTTCAAAAATG-TTT------TTA
* *** *
4261284 AAACCATATATTATAT-ATTTT-AAAAAAAATTTAA
1 AAACTATATATTATATAATTTTCAAAAATGTTTTTA
4261318 AAACTATATATTATATAATTTTCAAAA
1 AAACTATATATTATATAATTTTCAAAA
4261345 TGACTTCAAA
Statistics
Matches: 300, Mismatches: 30, Indels: 47
0.80 0.08 0.12
Matches are distributed among these distances:
32 18 0.06
33 31 0.10
34 26 0.09
35 35 0.12
36 25 0.08
37 102 0.34
38 36 0.12
40 2 0.01
41 8 0.03
42 16 0.05
43 1 0.00
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.43
Consensus pattern (36 bp):
AAACTATATATTATATAATTTTCAAAAATGTTTTTA
Found at i:4261340 original size:76 final size:80
Alignment explanation
Indices: 4261201--4261347 Score: 223
Period size: 76 Copynumber: 1.9 Consensus size: 80
4261191 AAAAATGTTT
* * *
4261201 TAAAAACTATATATTATATAAGTTTTCAAAAAAAGTTTTAAAAACTATATTATATATATTTTTCA
1 TAAAAACCATATATTATATAAGTTTTCAAAAAAAGATTTAAAAACTATATTATATATAATTTTCA
4261266 AAATGATTTGAAAAC
66 AAATGATTTGAAAAC
4261281 TAAAAACCATATATTATAT-A-TTTT-AAAAAAA-ATTTAAAAACTATA-TATTATATAATTTTC
1 TAAAAACCATATATTATATAAGTTTTCAAAAAAAGATTTAAAAACTATATTA-TATATAATTTTC
4261341 AAAATGA
65 AAAATGA
4261348 CTTCAAACTA
Statistics
Matches: 63, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
75 2 0.03
76 31 0.49
77 7 0.11
78 4 0.06
79 1 0.02
80 18 0.29
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.39
Consensus pattern (80 bp):
TAAAAACCATATATTATATAAGTTTTCAAAAAAAGATTTAAAAACTATATTATATATAATTTTCA
AAATGATTTGAAAAC
Found at i:4261731 original size:16 final size:17
Alignment explanation
Indices: 4261710--4261741 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4261700 AATGGGCAGT
4261710 AATCCCTGC-AAAAAAA
1 AATCCCTGCGAAAAAAA
4261726 AATCCCTGCGAAAAAA
1 AATCCCTGCGAAAAAA
4261742 TCTCTGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.53, C:0.25, G:0.09, T:0.12
Consensus pattern (17 bp):
AATCCCTGCGAAAAAAA
Found at i:4261909 original size:43 final size:43
Alignment explanation
Indices: 4261859--4261961 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 43
4261849 TTTTCAACAA
* * *
4261859 AAAAACGCCGCAATAGGTGATA-ACATATAGCGGCGTTTTGCAG
1 AAAAACGCCGCAATAGGTG-TAGACATATAACGGCATTTGGCAG
* * * * *
4261902 AAAAACGCCGTAACAAGTGTAGATATTTAACGGCATTTGGCAG
1 AAAAACGCCGCAATAGGTGTAGACATATAACGGCATTTGGCAG
*
4261945 ACAAACGCCGCAATAGG
1 AAAAACGCCGCAATAGG
4261962 CGTTGATGTT
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 2 0.04
43 45 0.96
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.19
Consensus pattern (43 bp):
AAAAACGCCGCAATAGGTGTAGACATATAACGGCATTTGGCAG
Found at i:4261979 original size:43 final size:43
Alignment explanation
Indices: 4261886--4261982 Score: 104
Period size: 43 Copynumber: 2.3 Consensus size: 43
4261876 TGATAACATA
* * * *
4261886 TAGCGGCGTTTTGCAGAAAAACGCCGTAACAAGTGTAGATATT
1 TAGCGGCATTTGGCAGAAAAACGCCGCAACAAGCGTAGATATT
* * * * * *
4261929 TAACGGCATTTGGCAGACAAACGCCGCAATAGGCGTTGATGTT
1 TAGCGGCATTTGGCAGAAAAACGCCGCAACAAGCGTAGATATT
4261972 TAGCGGCATTT
1 TAGCGGCATTT
4261983 TCTTCACAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (43 bp):
TAGCGGCATTTGGCAGAAAAACGCCGCAACAAGCGTAGATATT
Found at i:4262083 original size:42 final size:43
Alignment explanation
Indices: 4261945--4262128 Score: 167
Period size: 43 Copynumber: 4.3 Consensus size: 43
4261935 CATTTGGCAG
** * *
4261945 ACAAACGCCGCA-ATAGGCGTTGATGTTTAGCGGCATTTTCTTC
1 ACAAACGCCGCAGA-AGATGTTGATATTTAGCGGCATTTTCCTC
* * * * * *
4261988 ACAAACGCCGTAGTAGATGTTTATTTTTACCGGCGTTTTTCCT-
1 ACAAACGCCGCAGAAGATGTTGATATTTAGCGGC-ATTTTCCTC
*
4262031 ACAAACGCCGCAGAAGATGTTGATATTTAGCGGCGTTTTCCT-
1 ACAAACGCCGCAGAAGATGTTGATATTTAGCGGCATTTTCCTC
* * * **
4262073 ACAAACGCCGCAGAATATGTCTTGAGATTTTGCGGCATTTTTATC
1 ACAAACGCCGCAGAAGATG--TTGATATTTAGCGGCATTTTCCTC
4262118 ACAAACGCCGC
1 ACAAACGCCGC
4262129 TAAATGTATG
Statistics
Matches: 115, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
42 25 0.22
43 55 0.48
44 24 0.21
45 11 0.10
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (43 bp):
ACAAACGCCGCAGAAGATGTTGATATTTAGCGGCATTTTCCTC
Found at i:4262476 original size:21 final size:21
Alignment explanation
Indices: 4262452--4262528 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 21
4262442 TGATATATTA
* *
4262452 CTTCTCTCTGTTCTGCCGCTG
1 CTTCTCTCTGTGCTACCGCTG
* * *
4262473 CTTCTCTGTGTGCTACCACTA
1 CTTCTCTCTGTGCTACCGCTG
* *
4262494 CTTCTCTCTCTGCTTCCGCTG
1 CTTCTCTCTGTGCTACCGCTG
* *
4262515 CTGCTCTCTATGCT
1 CTTCTCTCTGTGCT
4262529 TCCCTTGCTT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.05, C:0.38, G:0.16, T:0.42
Consensus pattern (21 bp):
CTTCTCTCTGTGCTACCGCTG
Found at i:4266147 original size:34 final size:33
Alignment explanation
Indices: 4266109--4266184 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 33
4266099 GGCGAGACCG
4266109 GACATCCTATC-ATTAATTTCTCTTACTCAAGGCA
1 GACATCCTA-CGA-TAATTTCTCTTACTCAAGGCA
4266143 GACATTCCTACGATAATTTCTCTTACTCAAGGCA
1 GACA-TCCTACGATAATTTCTCTTACTCAAGGCA
4266177 -ACA-CCTAC
1 GACATCCTAC
4266185 TCCTTTTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
31 5 0.12
33 3 0.08
34 26 0.65
35 6 0.15
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (33 bp):
GACATCCTACGATAATTTCTCTTACTCAAGGCA
Found at i:4267285 original size:2 final size:2
Alignment explanation
Indices: 4267278--4267302 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4267268 TAAAAATAAT
4267278 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
4267303 TAATAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4268037 original size:24 final size:24
Alignment explanation
Indices: 4268005--4268078 Score: 85
Period size: 24 Copynumber: 2.9 Consensus size: 24
4267995 AATTTATTTT
4268005 ATTTTATTATTTATTTATTAATTC
1 ATTTTATTATTTATTTATTAATTC
* *
4268029 ATTTTATTATTTTATTATTTATTATTTT
1 ATTTTATTA---T-TTATTTATTAATTC
*
4268057 ATTTTATCATTTATTTATTAAT
1 ATTTTATTATTTATTTATTAAT
4268079 ATAAAATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
24 20 0.48
25 1 0.02
27 1 0.02
28 20 0.48
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (24 bp):
ATTTTATTATTTATTTATTAATTC
Found at i:4268060 original size:28 final size:29
Alignment explanation
Indices: 4267995--4268075 Score: 105
Period size: 28 Copynumber: 2.9 Consensus size: 29
4267985 AAGCTAATTC
4267995 AATTTATTTTATT-TTATTATTTATTTATT
1 AATTTATTTTATTATT-TTATTTATTTATT
*
4268024 AATTCATTTTATTATTTTA-TTATTTATT
1 AATTTATTTTATTATTTTATTTATTTATT
* *
4268052 ATTTTATTTTATCA-TTTATTTATT
1 AATTTATTTTATTATTTTATTTATT
4268076 AATATAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
27 4 0.09
28 25 0.54
29 15 0.33
30 2 0.04
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (29 bp):
AATTTATTTTATTATTTTATTTATTTATT
Found at i:4268068 original size:8 final size:8
Alignment explanation
Indices: 4268003--4268059 Score: 66
Period size: 8 Copynumber: 7.2 Consensus size: 8
4267993 TCAATTTATT
4268003 TTATTTTA
1 TTATTTTA
4268011 TTA-TTTA
1 TTATTTTA
*
4268018 TT-TATTAA
1 TTAT-TTTA
4268026 TTCATTTTA
1 TT-ATTTTA
4268035 TTATTTTA
1 TTATTTTA
4268043 TTA-TTTA
1 TTATTTTA
4268050 TTATTTTA
1 TTATTTTA
4268058 TT
1 TT
4268060 TTATCATTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
7 13 0.31
8 23 0.55
9 5 0.12
10 1 0.02
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (8 bp):
TTATTTTA
Found at i:4270234 original size:68 final size:69
Alignment explanation
Indices: 4270124--4270263 Score: 264
Period size: 68 Copynumber: 2.0 Consensus size: 69
4270114 TCCAGCAATG
*
4270124 TTGCTTCTGATTCAAAAAGCTTGCTTTCATGTTTTGGCTAGAAAAAGTGGGGGTTTTATTATCCA
1 TTGCTTCTGATTCAAAAAGCTTGCTTTCATGTTTTGGCTAGAAAAAGTGAGGGTTTTATTATCCA
4270189 TGCC
66 TGCC
4270193 TTGCTTCTGATTC-AAAAGCTTGCTTTCATGTTTTGGCTAGAAAAAGTGAGGGTTTTATTATCCA
1 TTGCTTCTGATTCAAAAAGCTTGCTTTCATGTTTTGGCTAGAAAAAGTGAGGGTTTTATTATCCA
4270257 TGCC
66 TGCC
4270261 TTG
1 TTG
4270264 TAGGAGAGTG
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
68 57 0.81
69 13 0.19
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (69 bp):
TTGCTTCTGATTCAAAAAGCTTGCTTTCATGTTTTGGCTAGAAAAAGTGAGGGTTTTATTATCCA
TGCC
Found at i:4270596 original size:20 final size:20
Alignment explanation
Indices: 4270568--4270605 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4270558 TTTTGGGGAG
*
4270568 TATCGATACTAGATGAACAT
1 TATCAATACTAGATGAACAT
4270588 TATCAATACTAGATGAAC
1 TATCAATACTAGATGAAC
4270606 TAGAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (20 bp):
TATCAATACTAGATGAACAT
Found at i:4278994 original size:17 final size:18
Alignment explanation
Indices: 4278962--4278996 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4278952 ATTGATAATG
*
4278962 ACCCTTGAGTATCGATAC
1 ACCCTTGAGTACCGATAC
4278980 ACCCTT-AGTACCGATAC
1 ACCCTTGAGTACCGATAC
4278997 TAAAAATGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (18 bp):
ACCCTTGAGTACCGATAC
Found at i:4288249 original size:21 final size:22
Alignment explanation
Indices: 4288225--4288271 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
4288215 GTTTATGATA
*
4288225 TTTTGTAAA-TTAATTTAATAG
1 TTTTGGAAAGTTAATTTAATAG
*
4288246 TTTTGGAAAGTTAATTTAGTAG
1 TTTTGGAAAGTTAATTTAATAG
4288268 TTTT
1 TTTT
4288272 AAAGTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (22 bp):
TTTTGGAAAGTTAATTTAATAG
Found at i:4288408 original size:60 final size:60
Alignment explanation
Indices: 4288315--4288490 Score: 198
Period size: 60 Copynumber: 2.9 Consensus size: 60
4288305 ATATCTTATG
* * *
4288315 TCCTTAAAATATGATTCTCATT-TCAAATTAGTCCTTAAACTTTTAAATATTTCAATTTCA
1 TCCTTAAACTATGAATCTCATTCT-AAATTAGTCCTTAAACTTTTAAATCTTTCAATTTCA
* * *
4288375 TCCTTAAACCATGAGTCTCATTCTAAATTAGTCCTTAAAC-TTTACAA-CGTTCTAATTTCA
1 TCCTTAAACTATGAATCTCATTCTAAATTAGTCCTTAAACTTTTA-AATCTTTC-AATTTCA
* * * *
4288435 -CCACTAAACTATGAATCTCATTCTAAATTGGTCCCTAAACTTTTAGATCTTTCAAT
1 TCC-TTAAACTATGAATCTCATTCTAAATTAGTCCTTAAACTTTTAAATCTTTCAAT
4288491 AATATCCCCA
Statistics
Matches: 98, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
59 9 0.09
60 80 0.82
61 9 0.09
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (60 bp):
TCCTTAAACTATGAATCTCATTCTAAATTAGTCCTTAAACTTTTAAATCTTTCAATTTCA
Found at i:4288746 original size:60 final size:60
Alignment explanation
Indices: 4288631--4288800 Score: 166
Period size: 60 Copynumber: 2.8 Consensus size: 60
4288621 CGAATAATTT
* ** ** * *
4288631 AGGATAAAAATGAAATATTCAAAAAGTTTGGGGACTAATTTAGGATGAAGATCATAGCTTG
1 AGGAT-AAAATGAAATGTTCAAAAAGTTTAAGGACTAATTTAAAATAAAGATCATAGCTTA
* *
4288692 GGGATGAAAATGAAATGTTC-AAAAGTTTAAGGACTAATTTAAAATAATAG-TCATAGTTTA
1 AGGAT-AAAATGAAATGTTCAAAAAGTTTAAGGACTAATTTAAAATAA-AGATCATAGCTTA
* * * *
4288752 ATGATAAAATTGAAATG-TCTAAAATTTTAAGGACTAATTTGAAATAAAG
1 AGGATAAAA-TGAAATGTTCAAAAAGTTTAAGGACTAATTTAAAATAAAG
4288801 GACATAGATC
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
59 8 0.09
60 65 0.71
61 19 0.21
ACGTcount: A:0.45, C:0.05, G:0.19, T:0.31
Consensus pattern (60 bp):
AGGATAAAATGAAATGTTCAAAAAGTTTAAGGACTAATTTAAAATAAAGATCATAGCTTA
Found at i:4307997 original size:116 final size:119
Alignment explanation
Indices: 4307775--4308000 Score: 316
Period size: 116 Copynumber: 1.9 Consensus size: 119
4307765 GCATGATTAG
** *
4307775 ATTTAATTCAAAATTTAATGAATAAATAAGAGAAATGGAAAAAGAAGGGTAAAAAACTAAACATT
1 ATTTAATTCAAAATCGAATGAATAAATAAGAGAAATGAAAAAAGAAGGGTAAAAAACTAAACATT
* * *
4307840 TTGTGAAATTATAAAAAACTAGAGATTCTAATTATAAATATAAAATATTGTTAA
66 TTATGAAATTATAAAAAACTAAAGATTATAATTATAAATATAAAATATTGTTAA
* * *
4307894 ATTTAATTCAATAATCGAATGAATTAATAAGAGAAAT-AAAAAAG-AGGGTCAAAAGCTAAA-AT
1 ATTTAATTCAA-AATCGAATGAATAAATAAGAGAAATGAAAAAAGAAGGGTAAAAAACTAAACAT
* *
4307956 TTTATGAAATTAT-AAAAATTAAAGGTTATAATTATAAATATAAAA
65 TTTATGAAATTATAAAAAACTAAAGATTATAATTATAAATATAAAA
4308001 AATTAAAGGT
Statistics
Matches: 95, Mismatches: 11, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
116 28 0.29
117 14 0.15
118 14 0.15
119 17 0.18
120 22 0.23
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.30
Consensus pattern (119 bp):
ATTTAATTCAAAATCGAATGAATAAATAAGAGAAATGAAAAAAGAAGGGTAAAAAACTAAACATT
TTATGAAATTATAAAAAACTAAAGATTATAATTATAAATATAAAATATTGTTAA
Found at i:4308004 original size:29 final size:29
Alignment explanation
Indices: 4307969--4308081 Score: 140
Period size: 29 Copynumber: 3.9 Consensus size: 29
4307959 ATGAAATTAT
*
4307969 AAAAATTAAAGGTTATAATTATAAATATA
1 AAAAATTAAAGATTATAATTATAAATATA
* *
4307998 AAAAATTAAAGGTTATAATTATAATTATA
1 AAAAATTAAAGATTATAATTATAAATATA
* *
4308027 AAAAATTAAAAATTCTAA-TATAAATATA
1 AAAAATTAAAGATTATAATTATAAATATA
* *
4308055 AAAGATT-AAGAATTCTAATTATAAATA
1 AAAAATTAAAG-ATTATAATTATAAATA
4308082 CGGAAAAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
27 2 0.03
28 22 0.29
29 51 0.68
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAAATTAAAGATTATAATTATAAATATA
Found at i:4308074 original size:57 final size:57
Alignment explanation
Indices: 4307963--4308078 Score: 146
Period size: 57 Copynumber: 2.0 Consensus size: 57
4307953 AATTTTATGA
** *
4307963 AATTATAAAAATTAAAGGTTATAATTATAAATATAAAAAATTAAAGGTTATAATTAT
1 AATTATAAAAATTAAAAATTATAATTATAAATATAAAAAATTAAAGATTATAATTAT
* * *
4308020 AATTATAAAAAATTAAAAATTCTAA-TATAAATATAAAAGATT-AAGAATTCTAATTAT
1 AATTAT-AAAAATTAAAAATTATAATTATAAATATAAAAAATTAAAG-ATTATAATTAT
4308077 AA
1 AA
4308079 ATACGGAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
56 3 0.06
57 33 0.65
58 15 0.29
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (57 bp):
AATTATAAAAATTAAAAATTATAATTATAAATATAAAAAATTAAAGATTATAATTAT
Found at i:4308593 original size:21 final size:21
Alignment explanation
Indices: 4308567--4308613 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
4308557 ATTTCAGAGA
4308567 ATATCTTATGAGAATCTTGTC
1 ATATCTTATGAGAATCTTGTC
4308588 ATATCTTATGAGAATCTTGTC
1 ATATCTTATGAGAATCTTGTC
4308609 ATATC
1 ATATC
4308614 CAATGTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (21 bp):
ATATCTTATGAGAATCTTGTC
Found at i:4310696 original size:35 final size:35
Alignment explanation
Indices: 4310656--4310749 Score: 116
Period size: 35 Copynumber: 2.7 Consensus size: 35
4310646 GTGTTGTGTG
*
4310656 TCGCATTCAGATAATGCATAGTAGTGAGTCATATA
1 TCGCATTCAGATAATGCACAGTAGTGAGTCATATA
* * * * *
4310691 TCGCATTTAGATAATACACAATAGTGAGTCATGTG
1 TCGCATTCAGATAATGCACAGTAGTGAGTCATATA
* *
4310726 TTGCATTCAGATGATGCACAGTAG
1 TCGCATTCAGATAATGCACAGTAG
4310750 CTACAGTTAG
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (35 bp):
TCGCATTCAGATAATGCACAGTAGTGAGTCATATA
Found at i:4311544 original size:46 final size:45
Alignment explanation
Indices: 4311494--4311580 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
4311484 TAATTTTATT
* *
4311494 TTTATAATTAAGACCCTTAATTTTTTTAAATTTCATTTTTTTTACC
1 TTTATAATTAAGACCCTTAATTTTTGT-AATTTCACTTTTTTTACC
* * **
4311540 TTTATAATTGAGGCTTTTAATTTTTGTAATTTCACTTTTTT
1 TTTATAATTAAGACCCTTAATTTTTGTAATTTCACTTTTTT
4311581 CTTTTATAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
45 13 0.37
46 22 0.63
ACGTcount: A:0.25, C:0.10, G:0.06, T:0.59
Consensus pattern (45 bp):
TTTATAATTAAGACCCTTAATTTTTGTAATTTCACTTTTTTTACC
Found at i:4315781 original size:17 final size:18
Alignment explanation
Indices: 4315751--4315784 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
4315741 TTACACCTCC
4315751 AGCAAAAGGAACAAAACA
1 AGCAAAAGGAACAAAACA
4315769 AGCAAAA-GAACAAAAC
1 AGCAAAAGGAACAAAAC
4315785 TCAAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.68, C:0.18, G:0.15, T:0.00
Consensus pattern (18 bp):
AGCAAAAGGAACAAAACA
Found at i:4321033 original size:17 final size:17
Alignment explanation
Indices: 4321003--4321045 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
4320993 ATACATGTAC
* *
4321003 AACCAGCTAAGCTAATT
1 AACCAACTAAGCTAACT
*
4321020 AACCAACTATGCTAACT
1 AACCAACTAAGCTAACT
*
4321037 AATCAACTA
1 AACCAACTA
4321046 GCCGTATACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.44, C:0.26, G:0.07, T:0.23
Consensus pattern (17 bp):
AACCAACTAAGCTAACT
Found at i:4327024 original size:43 final size:42
Alignment explanation
Indices: 4326970--4327212 Score: 192
Period size: 40 Copynumber: 5.7 Consensus size: 42
4326960 AAAGGTGATA
*
4326970 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGATG
1 ACACGGCTCCTACGTGATGAGGA-GGCTGGTTATCTAAGGATG
* *
4327013 ACACGGCTCCTACGTGATGAGGAGGTCTGG---TCGAGGGATG
1 ACACGGCTCCTACGTGATGAGGAGG-CTGGTTATCTAAGGATG
* * * * ** *
4327053 ACACTGCTCATACGTGATGAAGAGTTCTTGGCCATCTAAGGGTGATA
1 ACACGGCTCCTACGTGATGAGGAG-GC-TGGTTATCTAA--G-GATG
* * *
4327100 ACACGGTTCCTATGTGATGAGGACGGCTGGTTATCTAAGGGTG
1 ACACGGCTCCTACGTGATGAGGA-GGCTGGTTATCTAAGGATG
* * **
4327143 ACACGGCTCCTATGTAATGAGGAGGTCTGGTTA---GGGGATG
1 ACACGGCTCCTACGTGATGAGGAGG-CTGGTTATCTAAGGATG
*
4327183 ACACGGTTCCTACGTGATGAGGATGGCTGG
1 ACACGGCTCCTACGTGATGAGGA-GGCTGG
4327213 ACATCTTTAG
Statistics
Matches: 160, Mismatches: 28, Indels: 27
0.74 0.13 0.13
Matches are distributed among these distances:
40 58 0.36
41 5 0.03
42 4 0.03
43 56 0.35
44 4 0.03
46 10 0.06
47 22 0.14
48 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (42 bp):
ACACGGCTCCTACGTGATGAGGAGGCTGGTTATCTAAGGATG
Found at i:4327067 original size:40 final size:40
Alignment explanation
Indices: 4326868--4327076 Score: 125
Period size: 40 Copynumber: 5.0 Consensus size: 40
4326858 GCTGGGGACA
* * * * *
4326868 TCTGGTTGAGGGATGACACTGCTTATCCGCGATGAAGAGT
1 TCTGGTCGAGGGATGACACTGCTCATACGTGATGAAGAGG
* * *
4326908 TCTAGTC-AGGGGATGACACTACTCATACGTGATGAAGAGT
1 TCTGGTCGA-GGGATGACACTGCTCATACGTGATGAAGAGG
* * * * * *
4326948 TCTTGGTCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
1 TC-TGG---TC--GAGG-GATGACACTGCTCATACGTGATGAAGA-GG
* * * * *
4326996 -CTGGTTATCTAAGGATGACACGGCTCCTACGTGATGAGGAGG
1 TCTGG---TCGAGGGATGACACTGCTCATACGTGATGAAGAGG
4327038 TCTGGTCGAGGGATGACACTGCTCATACGTGATGAAGAG
1 TCTGGTCGAGGGATGACACTGCTCATACGTGATGAAGAG
4327077 TTCTTGGCCA
Statistics
Matches: 134, Mismatches: 24, Indels: 22
0.74 0.13 0.12
Matches are distributed among these distances:
39 1 0.01
40 63 0.47
41 2 0.01
42 2 0.01
43 29 0.22
44 4 0.03
46 9 0.07
47 23 0.17
48 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (40 bp):
TCTGGTCGAGGGATGACACTGCTCATACGTGATGAAGAGG
Found at i:4327197 original size:130 final size:129
Alignment explanation
Indices: 4326915--4327202 Score: 459
Period size: 130 Copynumber: 2.2 Consensus size: 129
4326905 AGTTCTAGTC
* *
4326915 AGGGGATGACACTACTCATACGTGATGAAGAGTTCTTGGTCATCTAAAGGTGATAACACGGTTCC
1 AGGGGATGACACTGCTCATACGTGATGAAGAGTTCTTGGCCATCTAAAGGTGATAACACGGTTCC
*
4326980 TACGTGATGAGGACGGCTGGTTATCTAAGGATGACACGGCTCCTACGTGATGAGGAGGTCTGGT
66 TACGTGATGAGGACGGCTGGTTATCTAAGGATGACACGGCTCCTACGTAATGAGGAGGTCTGGT
* *
4327044 CGAGGGATGACACTGCTCATACGTGATGAAGAGTTCTTGGCCATCTAAGGGTGATAACACGGTTC
1 AG-GGGATGACACTGCTCATACGTGATGAAGAGTTCTTGGCCATCTAAAGGTGATAACACGGTTC
* * *
4327109 CTATGTGATGAGGACGGCTGGTTATCTAAGGGTGACACGGCTCCTATGTAATGAGGAGGTCTGGT
65 CTACGTGATGAGGACGGCTGGTTATCTAAGGATGACACGGCTCCTACGTAATGAGGAGGTCTGG-
4327174 T
129 T
* * *
4327175 AGGGGATGACACGGTTCCTACGTGATGA
1 AGGGGATGACACTGCTCATACGTGATGA
4327203 GGATGGCTGG
Statistics
Matches: 145, Mismatches: 12, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
129 1 0.01
130 142 0.98
131 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.26
Consensus pattern (129 bp):
AGGGGATGACACTGCTCATACGTGATGAAGAGTTCTTGGCCATCTAAAGGTGATAACACGGTTCC
TACGTGATGAGGACGGCTGGTTATCTAAGGATGACACGGCTCCTACGTAATGAGGAGGTCTGGT
Found at i:4327203 original size:40 final size:40
Alignment explanation
Indices: 4326970--4327205 Score: 156
Period size: 43 Copynumber: 5.6 Consensus size: 40
4326960 AAAGGTGATA
* **
4326970 ACACGGTTCCTACGTGATGAGGACGG-CTGGTTATCTAAGGATG
1 ACACGGCTCCTACGTGATGAGGA-GGTCTGGTTA---GGGGATG
*
4327013 ACACGGCTCCTACGTGATGAGGAGGTCTGG-TCGAGGGATG
1 ACACGGCTCCTACGTGATGAGGAGGTCTGGTTAG-GGGATG
* * * * *
4327053 ACACTGCTCATACGTGATGAAGAGTTCTTGGCCATCTAAGGGTGATA
1 ACACGGCTCCTACGTGATGAGGAGGTC-TGG---T-T-AGGG-GATG
* * *
4327100 ACACGGTTCCTATGTGATGAGGACGG-CTGGTTATCTAAGGG-TG
1 ACACGGCTCCTACGTGATGAGGA-GGTCTGG---T-TAGGGGATG
* *
4327143 ACACGGCTCCTATGTAATGAGGAGGTCTGGTTAGGGGATG
1 ACACGGCTCCTACGTGATGAGGAGGTCTGGTTAGGGGATG
*
4327183 ACACGGTTCCTACGTGATGAGGA
1 ACACGGCTCCTACGTGATGAGGA
4327206 TGGCTGGACA
Statistics
Matches: 154, Mismatches: 26, Indels: 29
0.74 0.12 0.14
Matches are distributed among these distances:
39 5 0.03
40 51 0.33
41 3 0.02
42 5 0.03
43 52 0.34
44 1 0.01
45 3 0.02
46 10 0.06
47 23 0.15
48 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.25
Consensus pattern (40 bp):
ACACGGCTCCTACGTGATGAGGAGGTCTGGTTAGGGGATG
Found at i:4327272 original size:28 final size:28
Alignment explanation
Indices: 4327232--4327301 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
4327222 GGGATTATGG
* * * *
4327232 TTTCAAGAGAAACCGATTCAAAGATTTA
1 TTTCAAAAGAAACAGACTCAAAGATGTA
*
4327260 TTTCAAAAGAAACAGACTCAAAGATGTG
1 TTTCAAAAGAAACAGACTCAAAGATGTA
4327288 TTTCAAGAA-AAACA
1 TTTCAA-AAGAAACA
4327302 AGTTCAAAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 34 0.94
29 2 0.06
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.24
Consensus pattern (28 bp):
TTTCAAAAGAAACAGACTCAAAGATGTA
Found at i:4327647 original size:30 final size:29
Alignment explanation
Indices: 4327613--4327690 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
4327603 AGAGATAAAA
* * *
4327613 TTTTATTTTAAAAGAAATAGACTCAAAGAT
1 TTTTA-TTCAAAAGAAACAAACTCAAAGAT
*
4327643 TTTTATTCAAAAGGAACAAACTCAAAGAT
1 TTTTATTCAAAAGAAACAAACTCAAAGAT
* * *
4327672 TTGT-TTCAAGAGAGACAAA
1 TTTTATTCAAAAGAAACAAA
4327691 AATCGTTTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 12 0.30
29 23 0.57
30 5 0.12
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (29 bp):
TTTTATTCAAAAGAAACAAACTCAAAGAT
Found at i:4327654 original size:29 final size:30
Alignment explanation
Indices: 4327613--4327673 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
4327603 AGAGATAAAA
* * *
4327613 TTTTATTTTAAAAGAAATAGACTCAAAGAT
1 TTTTATTTCAAAAGAAACAAACTCAAAGAT
*
4327643 TTTTA-TTCAAAAGGAACAAACTCAAAGAT
1 TTTTATTTCAAAAGAAACAAACTCAAAGAT
4327672 TT
1 TT
4327674 GTTTCAAGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (30 bp):
TTTTATTTCAAAAGAAACAAACTCAAAGAT
Found at i:4328484 original size:12 final size:14
Alignment explanation
Indices: 4328443--4328488 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
4328433 ATGCAAAATT
4328443 TATGTATCATGTATG
1 TATGTAT-ATGTATG
*
4328458 TATGTGTATGTATG
1 TATGTATATGTATG
4328472 TATGTAT-TG-ATG
1 TATGTATATGTATG
4328484 TATGT
1 TATGT
4328489 TTTTTTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 8 0.28
13 2 0.07
14 13 0.45
15 6 0.21
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.50
Consensus pattern (14 bp):
TATGTATATGTATG
Found at i:4332104 original size:32 final size:32
Alignment explanation
Indices: 4332045--4332106 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
4332035 TGAAAAAAAT
* *
4332045 ACACAAACAAAAGAAAATAAATAAGTTAGTGC
1 ACACAAACAAAAAAAAAGAAATAAGTTAGTGC
* *
4332077 ACACAAAGAAAAAAAAAGAAATTAGTTAGT
1 ACACAAACAAAAAAAAAGAAATAAGTTAGT
4332107 ACAGGTAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.61, C:0.10, G:0.13, T:0.16
Consensus pattern (32 bp):
ACACAAACAAAAAAAAAGAAATAAGTTAGTGC
Found at i:4347506 original size:26 final size:27
Alignment explanation
Indices: 4347449--4347506 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
4347439 TATATTTATA
* * *
4347449 TTAAAATATTTTGAAGTTAAAATAAAC
1 TTAAAATATATTGAAATCAAAATAAAC
* *
4347476 ATAAAATATATT-AAATCAAAATAAAT
1 TTAAAATATATTGAAATCAAAATAAAC
4347502 TTAAA
1 TTAAA
4347507 TAAAGTTAGT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (27 bp):
TTAAAATATATTGAAATCAAAATAAAC
Found at i:4348392 original size:19 final size:20
Alignment explanation
Indices: 4348368--4348405 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
4348358 TTTTAACAAA
4348368 TTTATTTTT-AAATAAATAC
1 TTTATTTTTAAAATAAATAC
4348387 TTTATTTTTAAAATAAATA
1 TTTATTTTTAAAATAAATA
4348406 AACAAATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTATTTTTAAAATAAATAC
Found at i:4349787 original size:711 final size:710
Alignment explanation
Indices: 4347843--4349917 Score: 2368
Period size: 725 Copynumber: 2.9 Consensus size: 710
4347833 AACCAAGATA
* * *
4347843 GCAATTGATAATTATGCAAAGAAAAAAAGAGGATGGCAGGTTGAACAAAGATGATGAACCATGAT
1 GCAATTGATGATTATGCAAAGAAAAAAAGAGGCT-GCAGGTTGAACAAAGATGATGAACAATGAT
* * **
4347908 GAACT---A-AGAGAGATTATTCCTTAAG---T-CA-GT-TTATATAAGAGTTTTTA-TGTTCGT
65 GAACTAAGAGAGAGAGATTCTTCCTT-AGCTTTGCATGTATT-TATATGAGTTTTTAGTGACCGT
* * * * * *
4347962 GTCAGACTTAAAACAATGATTGTTATTTGTAGGTTGACAAAATGAATAAACTTGATTATTAAAAA
128 GTCAGACTTAAAATAATGATTGTTATTTATAGGTTGACAAAGTGAATAAATTTGATTATTATATA
* * * * *
4348027 GCATACTTTATCAATGATGGGACTGAAAACAATCATGTCAAGAAAAAATTATTAGATCGACCTGG
193 GAAGAATTTATCAATGATAGGACTTAAAACAATCATGTCAAGAAAAAATTATTAGATCGACCTGG
* * ** *
4348092 TTCATCACGTCATTCGTTCTCTAAACCAATAAGATCCAAGTATGTCACTTTTTTTATTGTGAATC
258 TTCATCACGTCATTCGTTGTCTAAATCAATAAGATCCATCTATGTCACTTTTTTCA-TGTGAATC
4348157 TTCATCTTTTTCCTACATGTAAATAAGGAGTTGATAATTATTTGAAGGCTTGATATAAAAAAAAA
322 TTCATCTTTTTCCTACATGTAAAT-AGGAGTTGATAATTATTTGAAGGCTTGATAT-AAAAAAAA
* * * *
4348222 GTGTCAAAACTATATGCAAAATTAA-TTTTGGTGTCTAAATAATTTTTCGATAAAAATAGATACC
385 GTATCCAAACTATA-CCAAAATTAATTTTTGGTGTCTAAAGAATTTTTCGATAAAAATAGATACC
* * * *
4348286 TAACATTTTGTCTATTACACTTTTAGGT-ATT-TACCGTT-AAAACCGTTAAATGACACGTGTCA
449 TAACATTTTCTCCATTACACTTTTAGGTGATTATA--GTTAAAAAACGTTAAATGACAAGTGTCA
* * * * *
4348348 TGTTTAGA-TTTTTTAACAAATTTATTTTTAAATAAATACTTTATTTTTAAAATAAATAAACAAA
512 TGTTCAGATTTTTTTAAAAAATCTATTTTTAAATAAATATTTTATTTTTAAAATAAATAAATAAA
** * *
4348412 TGTAAGGCTTAAATATAAAATAAGTGTCTAAACTATAGCGTTTTTCACGAATATGTTTCTAAACT
577 TGTAAGGCTTAAATATAAAATAAGTACCTAAACTATAGCGCTTTTCACGAATATGTGTCTAAACT
*
4348477 ATTTTTTTAATTAAATCAAAATTCTTCATCGAAAATTAGGTTGTGACATTTGTGAACAATTTATC
642 ATTTTTTAAATTAAATCAAAATTCTTCATCG---A--A------GACA--TGT-----ATTTATC
* * *
4348542 TCTTTTGATTTGGATTAATAAC
689 TCCTTTGATTTGGATCAAGAAC
* * * * * * *
4348564 ACAACTGATGATTATGCAAAG-AAAAAAGAGAACCGCTGGTGGAACAAACATGATGAACAATGAT
1 GCAATTGATGATTATGCAAAGAAAAAAAGAG-GCTGCAGGTTGAACAAAGATGATGAACAATGAT
*
4348628 GAACTAAGAGAGAGAGATTCTCCCTTAGCTTTGCATGTTAGTTTATATACGAGTTTTTAGTGACC
65 GAACTAAGAGAGAGAGATTCTTCCTTAGCTTTGCATG-TA-TTTATAT--GAGTTTTTAGTGACC
* * * * *
4348693 ATGTCAGACTTAAAATAATTATTGCTATTCATAAGTTGACAAAGTGAATAAATTTGATTATTATA
126 GTGTCAGACTTAAAATAATGATTGTTATTTATAGGTTGACAAAGTGAATAAATTTGATTATTATA
* *
4348758 TAGAAGAATTTATCAATGA-AGGGA-TTGAAA-AGTCATGTCAAGAAAAAAATTATTAGATCGAC
191 TAGAAGAATTTATCAATGATA-GGACTTAAAACAATCATGTCAAG-AAAAAATTATTAGATCGAC
* * * *
4348820 CTGGTTCATCACGTCATTCGTCATG-GTGAATC--T---TTACATC--TGTCAC-TTTTTCATGG
254 CTGGTTCATCACGTCATTCGT--TGTCTAAATCAATAAGATCCATCTATGTCACTTTTTTCAT-G
* *
4348876 TGAATCTTCATCTTTTTCTTACATATAAATAGGGAGTTGATAATTATTTGAAGGCTTGATAT--A
316 TGAATCTTCATCTTTTTCCTACATGTAAATA-GGAGTTGATAATTATTTGAAGGCTTGATATAAA
* * *
4348939 AAAAAGTATCCAAACTATACGCAAAATTGATTTTTGGTGTTTAAAGAATTTTTCGTTAAAAATAG
380 AAAAAGTATCCAAACTATAC-CAAAATTAATTTTTGGTGTCTAAAGAATTTTTCGATAAAAATAG
* * ** * * ** *
4349004 GTACCTAACATTTTCTTCATTGTACTGTTAGGTGTTTACCGTTAAAAACACGTTAAATGTCAAGT
444 ATACCTAACATTTTCTCCATTACACTTTTAGGTGATTATAGTTAAAAA-ACGTTAAATGACAAGT
*
4349069 GTCATGTTCAGATTTTTTTAAAAAAATCTA-TTTTAAA-ATATATTTTATTTTTAAAATAAATAA
508 GTCATGTTCAGATTTTTTT-AAAAAATCTATTTTTAAATAAATATTTTATTTTTAAAATAAATAA
* * * *
4349132 ATAAATGTAAGGCTTAAATATAAAATAAGTACCTAAACTTTAACGCTTTTAATGAATATGTGTCT
572 ATAAATGTAAGGCTTAAATATAAAATAAGTACCTAAACTATAGCGCTTTTCACGAATATGTGTCT
* *
4349197 AATCTATTATTTTAAATTAAATCAAAATTCTTCATCG-A-ACA-GT-TTT-TCTCCTTTGATTTT
637 AAACTATT-TTTTAAATTAAATCAAAATTCTTCATCGAAGACATGTATTTATCTCCTTTGATTTG
4349257 GATCAAGAAC
701 GATCAAGAAC
*
4349267 GCAATTGATGATTATGCAAAGAAAAAAAGAGGCTGACAGGTTGAACAAAGATGATGAAAAATGAT
1 GCAATTGATGATTATGCAAAGAAAAAAAGAGGCTG-CAGGTTGAACAAAGATGATGAACAATGAT
* *
4349332 GAAGTAAGAGAGAGAGATTCTTCCTTAGCTTTGCATGTCAATTTATATGAGTTTTTAGTGCCCGT
65 GAACTAAGAGAGAGAGATTCTTCCTTAGCTTTGCATGT--ATTTATATGAGTTTTTAGTGACCGT
*
4349397 GT-TGA-TCTAAAATAATGATTGTTATTTATAGGTTGACAAAGTGAATAAATTTGATTATTATAT
128 GTCAGACT-TAAAATAATGATTGTTATTTATAGGTTGACAAAGTGAATAAATTTGATTATTATAT
* *
4349460 AGAAGATTTTATTAATGATAGGACTTAAAACAATCATGTCAAGAAAAAATTATTAGATCGACCTG
192 AGAAGAATTTATCAATGATAGGACTTAAAACAATCATGTCAAGAAAAAATTATTAGATCGACCTG
** *
4349525 GTTCCCCACGTCA-TCTGTTGTCTCAATCAATAAGATCCATCTATGTCACTTTTTTCATGATGAA
257 GTTCATCACGTCATTC-GTTGTCTAAATCAATAAGATCCATCTATGTCACTTTTTTCATG-TGAA
* * *
4349589 TCTTTATATTTTTCCTACATGTAAATAGGAAGTTGGTAATTATTTGAAGGCTTGATATAAAAAAA
320 TCTTCATCTTTTTCCTACATGTAAATAGG-AGTTGATAATTATTTGAAGGCTTGATATAAAAAAA
* * * * *
4349654 AGTATCCAAACTATACCTAAAATTAATTTTTTGTGTCTAAAGATTTTTTAGAGAAAAATATATAC
384 AGTATCCAAACTATACC-AAAATTAATTTTTGGTGTCTAAAGAATTTTTCGATAAAAATAGATAC
** *
4349719 CTAACATTTTCTCCATTACACTTTTAGGTGATTATAGTTAAAAAATTATTAAATGACATGTGTCA
448 CTAACATTTTCTCCATTACACTTTTAGGTGATTATAGTTAAAAAA-CGTTAAATGACAAGTGTCA
* **
4349784 TGTTCATATATTTTTT-TTAAATCTATTTTTAAATAAATATTTTA-TTTT-AAATAAATAAATAA
512 TGTTCAGAT-TTTTTTAAAAAATCTATTTTTAAATAAATATTTTATTTTTAAAATAAATAAATAA
* * *
4349846 ATGTAAGGCTTAAATATAAAATAAGTAACC-AAACTATAGTGCTTTTCACGAATATGTGACGAAA
576 ATGTAAGGCTTAAATATAAAATAAGT-ACCTAAACTATAGCGCTTTTCACGAATATGTGTCTAAA
4349910 CTATTTTT
640 CTATTTTT
4349918 AATGATCCCG
Statistics
Matches: 1147, Mismatches: 148, Indels: 130
0.80 0.10 0.09
Matches are distributed among these distances:
700 3 0.00
701 80 0.07
702 58 0.05
703 54 0.05
704 79 0.07
705 1 0.00
706 5 0.00
708 9 0.01
709 65 0.06
710 82 0.07
711 133 0.12
712 15 0.01
713 3 0.00
720 41 0.04
721 18 0.02
722 26 0.02
723 63 0.05
724 22 0.02
725 176 0.15
726 47 0.04
727 10 0.01
728 4 0.00
729 1 0.00
730 4 0.00
731 14 0.01
732 53 0.05
733 80 0.07
734 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (710 bp):
GCAATTGATGATTATGCAAAGAAAAAAAGAGGCTGCAGGTTGAACAAAGATGATGAACAATGATG
AACTAAGAGAGAGAGATTCTTCCTTAGCTTTGCATGTATTTATATGAGTTTTTAGTGACCGTGTC
AGACTTAAAATAATGATTGTTATTTATAGGTTGACAAAGTGAATAAATTTGATTATTATATAGAA
GAATTTATCAATGATAGGACTTAAAACAATCATGTCAAGAAAAAATTATTAGATCGACCTGGTTC
ATCACGTCATTCGTTGTCTAAATCAATAAGATCCATCTATGTCACTTTTTTCATGTGAATCTTCA
TCTTTTTCCTACATGTAAATAGGAGTTGATAATTATTTGAAGGCTTGATATAAAAAAAAGTATCC
AAACTATACCAAAATTAATTTTTGGTGTCTAAAGAATTTTTCGATAAAAATAGATACCTAACATT
TTCTCCATTACACTTTTAGGTGATTATAGTTAAAAAACGTTAAATGACAAGTGTCATGTTCAGAT
TTTTTTAAAAAATCTATTTTTAAATAAATATTTTATTTTTAAAATAAATAAATAAATGTAAGGCT
TAAATATAAAATAAGTACCTAAACTATAGCGCTTTTCACGAATATGTGTCTAAACTATTTTTTAA
ATTAAATCAAAATTCTTCATCGAAGACATGTATTTATCTCCTTTGATTTGGATCAAGAAC
Found at i:4356161 original size:43 final size:43
Alignment explanation
Indices: 4356094--4356315 Score: 175
Period size: 43 Copynumber: 5.2 Consensus size: 43
4356084 TGAGAATAAA
* * **
4356094 AAACGCCGCAATAGGTAAAGATCTATAACGGCGTTTTTGAAAC
1 AAACGCCACAAAAGGTCGAGATCTATAACGGCGTTTTTGAAAC
* *
4356137 AAACACCACAAAAGGTCGAGATCTACAACGGCGTTTTT-AGAAC
1 AAACGCCACAAAAGGTCGAGATCTATAACGGCGTTTTTGA-AAC
* * * * **
4356180 AAATGCCGCAAAAGGTC-ATATCTATAGCAACGTTTTTGAAA-
1 AAACGCCACAAAAGGTCGAGATCTATAACGGCGTTTTTGAAAC
* * * * * *
4356221 AAAAGCCAC--AAGATTGAAATCTATAACGGCATTTTTTGGAAC
1 AAACGCCACAAAAGGTCGAGATCTATAACGGC-GTTTTTGAAAC
* * * * *
4356263 AAATGCCGCGAAATGTCGAGATCTATAGCGGCGTTTTTGAATAC
1 AAACGCCACAAAAGGTCGAGATCTATAACGGCGTTTTTGAA-AC
4356307 AAACGCCAC
1 AAACGCCAC
4356316 TAATTACCTT
Statistics
Matches: 136, Mismatches: 35, Indels: 15
0.73 0.19 0.08
Matches are distributed among these distances:
39 4 0.03
40 10 0.07
41 15 0.11
42 25 0.18
43 57 0.42
44 25 0.18
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.23
Consensus pattern (43 bp):
AAACGCCACAAAAGGTCGAGATCTATAACGGCGTTTTTGAAAC
Found at i:4356298 original size:84 final size:84
Alignment explanation
Indices: 4356098--4356315 Score: 226
Period size: 84 Copynumber: 2.6 Consensus size: 84
4356088 AATAAAAAAC
* * * * *
4356098 GCCGCAATAGGTAAAGATCTATAACGGCGTTTTTGAAACAAACACCACAAAAGGTCGAGATCTAC
1 GCCGCAAAAGGT-CAGATCTATAGCGGCGTTTTTGAAACAAACACCAC-AAAGATCGAAATCTAC
4356163 AACGGCGTTTTTAGAACAAAT
64 AACGGCGTTTTTAGAACAAAT
* ** * *
4356184 GCCGCAAAAGGTCATATCTATAGCAACGTTTTTGAAA-AAA-AGCCAC-AAGATTGAAATCTATA
1 GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGAAACAAACA-CCACAAAGATCGAAATCTACA
* *
4356246 ACGGCATTTTTTGGAACAAAT
65 ACGGC-GTTTTTAGAACAAAT
* * *
4356267 GCCGCGAAATGTCGAGATCTATAGCGGCGTTTTTGAATACAAACGCCAC
1 GCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGAA-ACAAACACCAC
4356316 TAATTACCTT
Statistics
Matches: 108, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
82 17 0.16
83 25 0.23
84 27 0.25
85 21 0.19
86 18 0.17
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (84 bp):
GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGAAACAAACACCACAAAGATCGAAATCTACAA
CGGCGTTTTTAGAACAAAT
Found at i:4360928 original size:81 final size:82
Alignment explanation
Indices: 4360813--4360981 Score: 252
Period size: 81 Copynumber: 2.1 Consensus size: 82
4360803 TAAAATTGCA
* * * *
4360813 GCGTTTGTATAGAAACGCCACTAAAGTACGAGTCTATAGCGATGTTTGTAT-AGAAATGCCACTA
1 GCGTTTGTATAGAAAAGCCACTAAAGTACAAGTCTATAGCGACGTTTGTATAAAAAAT-CCACTA
4360877 AAGTACGAGTCTATAGCG
65 AAGTACGAGTCTATAGCG
* *
4360895 GCGTTTGTATA-AAAAGCCATTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAAATCCACTAA
1 GCGTTTGTATAGAAAAGCCACTAAAGTACAAGTCTATAGCGACGTTTGTATAAAAAATCCACTAA
*
4360959 AGTACGAGTCTTTAGCG
66 AGTACGAGTCTATAGCG
4360976 GCGTTT
1 GCGTTT
4360982 ATTGGAAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
81 63 0.80
82 16 0.20
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (82 bp):
GCGTTTGTATAGAAAAGCCACTAAAGTACAAGTCTATAGCGACGTTTGTATAAAAAATCCACTAA
AGTACGAGTCTATAGCG
Found at i:4360930 original size:40 final size:41
Alignment explanation
Indices: 4360813--4360981 Score: 250
Period size: 41 Copynumber: 4.1 Consensus size: 41
4360803 TAAAATTGCA
*
4360813 GCGTTTGTATAGAAACGCCACTAAAGTACGAGTCTATAGCG
1 GCGTTTGTATAGAAAAGCCACTAAAGTACGAGTCTATAGCG
** *
4360854 ATGTTTGTATAGAAATGCCACTAAAGTACGAGTCTATAGCG
1 GCGTTTGTATAGAAAAGCCACTAAAGTACGAGTCTATAGCG
* *
4360895 GCGTTTGTATA-AAAAGCCATTAAAGTACAAGTCTATAGCG
1 GCGTTTGTATAGAAAAGCCACTAAAGTACGAGTCTATAGCG
* * *
4360935 GCGTTTGTATAAAAAATCCACTAAAGTACGAGTCTTTAGCG
1 GCGTTTGTATAGAAAAGCCACTAAAGTACGAGTCTATAGCG
4360976 GCGTTT
1 GCGTTT
4360982 ATTGGAAAAA
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 37 0.32
41 78 0.68
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (41 bp):
GCGTTTGTATAGAAAAGCCACTAAAGTACGAGTCTATAGCG
Found at i:4361118 original size:18 final size:18
Alignment explanation
Indices: 4361095--4361150 Score: 112
Period size: 18 Copynumber: 3.1 Consensus size: 18
4361085 AAAATGTTAT
4361095 CGACGTTTGCATAGTAAA
1 CGACGTTTGCATAGTAAA
4361113 CGACGTTTGCATAGTAAA
1 CGACGTTTGCATAGTAAA
4361131 CGACGTTTGCATAGTAAA
1 CGACGTTTGCATAGTAAA
4361149 CG
1 CG
4361151 CCGCTAGATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (18 bp):
CGACGTTTGCATAGTAAA
Found at i:4366183 original size:41 final size:41
Alignment explanation
Indices: 4366126--4366209 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
4366116 AGACTTGGTA
4366126 TCTTTTGCACTTACTGTTAGCAGTGATGATCCAGTTACTTT
1 TCTTTTGCACTTACTGTTAGCAGTGATGATCCAGTTACTTT
4366167 TCTTTTGCACTTACTGTTAGCAGTGATGATCCAGTTACTTT
1 TCTTTTGCACTTACTGTTAGCAGTGATGATCCAGTTACTTT
4366208 TC
1 TC
4366210 ATGATGCCGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.19, C:0.20, G:0.17, T:0.44
Consensus pattern (41 bp):
TCTTTTGCACTTACTGTTAGCAGTGATGATCCAGTTACTTT
Found at i:4382095 original size:131 final size:130
Alignment explanation
Indices: 4381925--4382322 Score: 463
Period size: 133 Copynumber: 3.0 Consensus size: 130
4381915 TGGATCTTAA
* *
4381925 GAGAGAAAACAATAATATCTTATTATTTCCAATCGAGAATAAATGACATCTCATGCCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGAC-TCTCATGCCTTAAAGCA
* * *
4381990 ATCATTTATTACTCCAATTAAAATGAAGAGATATCACTATTTCGTCTTAAAATTCAATATTGATT
65 ATCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTTCATCTTAAAAATCAATATTGATT
4382055 C
130 C
* * * * ** * *
4382056 GAGAGAAAATGATAACATCTGATTATTTCCAATCCAGAATAAACAACCTCTTATGCCTTATAAAA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGA-CTCTCATGCC-T-TAAAG
* *
4382121 CAATCATTTTTTACTCCAATCGAAATGAAGAGATATCACTATTTCATCTTAAAAATCAATATTGA
63 CAATCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTTCATCTTAAAAATCAATATTGA
4382186 TTC
128 TTC
* * * *
4382189 GAGAGAAAACGATAATATATAATTATATCCAATCGAGAATAAATGATCTCTCATGCTTTAAAGTA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGA-CTCTCATGCCTTAAAGCA
* * * ** * * * * * * * *
4382254 GTCATTTATTAATCCAACCGGAATGAAAATATATTATTATCTCATCCTAAAATTCAATATTAATT
65 ATCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTTCATCTTAAAAATCAATATTGATT
4382319 C
130 C
4382320 GAG
1 GAG
4382323 TGTTACTATT
Statistics
Matches: 224, Mismatches: 40, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
131 108 0.48
132 3 0.01
133 113 0.50
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (130 bp):
GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACTCTCATGCCTTAAAGCAA
TCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTTCATCTTAAAAATCAATATTGATTC
Found at i:4382796 original size:26 final size:25
Alignment explanation
Indices: 4382765--4382840 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 25
4382755 TGACTAAAAT
*
4382765 AAAATAAAATAAAAGCAATATGCAA
1 AAAATAAAATAAAAGCAAAATGCAA
*
4382790 AACAATAAAATAAAAGCAACATGCAA
1 AA-AATAAAATAAAAGCAAAATGCAA
*
4382816 AAATTAAAATAAAA-CAAAATGCAA
1 AAAATAAAATAAAAGCAAAATGCAA
4382840 A
1 A
4382841 TAGGACTAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
24 10 0.21
25 13 0.28
26 24 0.51
ACGTcount: A:0.68, C:0.11, G:0.07, T:0.14
Consensus pattern (25 bp):
AAAATAAAATAAAAGCAAAATGCAA
Found at i:4382890 original size:63 final size:63
Alignment explanation
Indices: 4382799--4382917 Score: 168
Period size: 63 Copynumber: 1.9 Consensus size: 63
4382789 AAACAATAAA
* *
4382799 ATAAAAGCAACATGCAAAAATTAAAATAAAACAAAATGCAAATAG-GACTAGAATGTAAACGG
1 ATAAAAGCAACATGCAAAAATTAAAATAAAACAAAATGCAAAAAGTGACTAAAATGTAAACGG
* * * *
4382861 ATAAAATCATCATGTCAAAAATTAAAATAAAATAAAGTGCAAAAAGTGACTAAAATG
1 ATAAAAGCAACATG-CAAAAATTAAAATAAAACAAAATGCAAAAAGTGACTAAAATG
4382918 AACATTTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
62 12 0.24
63 28 0.57
64 9 0.18
ACGTcount: A:0.58, C:0.10, G:0.13, T:0.19
Consensus pattern (63 bp):
ATAAAAGCAACATGCAAAAATTAAAATAAAACAAAATGCAAAAAGTGACTAAAATGTAAACGG
Found at i:4384735 original size:28 final size:28
Alignment explanation
Indices: 4384667--4384737 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 28
4384657 ATTTTAATTT
* *
4384667 TATTATAATTTA-GTCACTAATTTTAAA
1 TATTATAATTTATTTTACTAATTTTAAA
* * *
4384694 TATTTTCATTTATTTTACTACTTTTAAA
1 TATTATAATTTATTTTACTAATTTTAAA
4384722 TA-TATAATTGTATTTT
1 TATTATAATT-TATTTT
4384738 TTATTGTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
27 15 0.43
28 20 0.57
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (28 bp):
TATTATAATTTATTTTACTAATTTTAAA
Found at i:4388876 original size:16 final size:16
Alignment explanation
Indices: 4388857--4388895 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
4388847 TTTGGGATCA
*
4388857 ATACCTTTTTGCATAC
1 ATACATTTTTGCATAC
4388873 ATACATTTTTGCATAC
1 ATACATTTTTGCATAC
*
4388889 ATTCATT
1 ATACATT
4388896 ATTCATTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.46
Consensus pattern (16 bp):
ATACATTTTTGCATAC
Found at i:4389806 original size:11 final size:11
Alignment explanation
Indices: 4389790--4389817 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
4389780 AGCCAACATT
4389790 AGATCTTGGAA
1 AGATCTTGGAA
4389801 AGATCTTGGAA
1 AGATCTTGGAA
4389812 AGATCT
1 AGATCT
4389818 GGCTAAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.29
Consensus pattern (11 bp):
AGATCTTGGAA
Found at i:4396234 original size:7 final size:7
Alignment explanation
Indices: 4396222--4396248 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
4396212 ATGCTTGAAG
4396222 AAAAAGA
1 AAAAAGA
4396229 AAAAAGA
1 AAAAAGA
4396236 AAAAAGA
1 AAAAAGA
4396243 AAAAAG
1 AAAAAG
4396249 GGTGTCAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:4397730 original size:92 final size:92
Alignment explanation
Indices: 4397487--4397768 Score: 392
Period size: 92 Copynumber: 3.0 Consensus size: 92
4397477 GTTCATAGTA
* *
4397487 GAAAT-AAGAAGACCCAATAGCATCTTTTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTGGTA
1 GAAATAAAGAA-ACTCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
4397551 TGAACCCCGAAAAACCAATCATTGAATTT
65 TGAACCCCG-AAAACCAATCATTGAATTT
* ** * *
4397580 GAAAGATGAATG-TGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGA
1 G-AA-AT-AAAGAAACTCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
*
4397643 TATGAACCCCGAAAACCAATCATTGGATTT
63 TATGAACCCCGAAAACCAATCATTGAATTT
4397673 GAAATAAAGAAACTCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAT
1 GAAATAAAGAAACTCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAT
* *
4397738 GAAACCAC-AGAACCAATCATTGAATTT
66 G-AACCCCGAAAACCAATCATTGAATTT
4397765 GAAA
1 GAAA
4397769 GATGAATGTG
Statistics
Matches: 166, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
90 3 0.02
91 5 0.03
92 71 0.43
93 25 0.15
94 56 0.34
95 4 0.02
97 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (92 bp):
GAAATAAAGAAACTCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAT
GAACCCCGAAAACCAATCATTGAATTT
Found at i:4397878 original size:115 final size:114
Alignment explanation
Indices: 4397673--4397888 Score: 335
Period size: 115 Copynumber: 1.9 Consensus size: 114
4397663 CATTGGATTT
* * *
4397673 GAAATAAAGAAACTCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAT
1 GAAATAAAGAAACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTCGGTAT
*
4397738 GAAACCACAGAACCAATCATTGAATTTGAAAGATGAATGTGATCATAGTA
66 GAAACCACAGAACCAATCATTGAA-TTAAAAGATGAATGTGATCATAGTA
* *
4397788 GAAATAAAGAGACCCAATAGCATCTTCTGGAAGTGTTTTTTGAGTTATCTGATCTGGTTCGGTA-
1 GAAATAAAGAAACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTCGGTAT
* *
4397852 GGAACCACATAACCAATCATTGGAATTAAAAGATGAA
66 GAAACCACAGAACCAATCATT-GAATTAAAAGATGAA
4397889 CTGCATGATC
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
114 30 0.33
115 62 0.67
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (114 bp):
GAAATAAAGAAACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTCGGTAT
GAAACCACAGAACCAATCATTGAATTAAAAGATGAATGTGATCATAGTA
Found at i:4398789 original size:116 final size:115
Alignment explanation
Indices: 4398577--4399141 Score: 877
Period size: 116 Copynumber: 4.9 Consensus size: 115
4398567 GCAAAGATTC
* * * * * * * *
4398577 AAATCCATCATTTGATGGATCATCTTTTCCAGATAAAGTTCATAATGAGAAGAACT--CATCTGA
1 AAATTCATTATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGCATCTGA
*
4398640 AGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTTGTTT
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
*
4398690 AAATTCATTATTTGATGGATTAACATTGCTAGGTAGAGTTCATAATGAGAAGAACTCGCCATCTG
1 AAATTCATTATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCG-CATCTG
4398755 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
4398806 AAATTCATTATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATTATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCG-CATCTG
4398871 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
4398922 AAATTCATTATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATTATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCG-CATCTG
* *
4398987 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
* * * * * * * * * *
4399038 AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACT--CATCAGA
1 AAATTCATTATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGCATCTGA
4399101 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
4399142 ATTTCCAGAA
Statistics
Matches: 425, Mismatches: 24, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
113 94 0.22
116 331 0.78
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.31
Consensus pattern (115 bp):
AAATTCATTATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
Found at i:4399118 original size:40 final size:40
Alignment explanation
Indices: 4399074--4399208 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 40
4399064 TTCCAGTTCG
4399074 AGTTCATAATGAGAAGAACTCATCAGAAGAAGGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCAGAAGAAGGAAGAAGA
* ** *****
4399114 AGTTCATAATGAGAAGAATTTGTTCA-ACA-TTTCCAG-A-A
1 AGTTCATAATGAGAAGAA-CTCATCAGA-AGAAGGAAGAAGA
* *
4399152 AGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCAGAAGAAGGAAGAAGA
4399192 AGTTCATAATGAGAAGA
1 AGTTCATAATGAGAAGA
4399209 GCTTGTTCAA
Statistics
Matches: 72, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
37 4 0.06
38 22 0.31
39 2 0.03
40 39 0.54
41 5 0.07
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (40 bp):
AGTTCATAATGAGAAGAACTCATCAGAAGAAGGAAGAAGA
Found at i:4399203 original size:78 final size:78
Alignment explanation
Indices: 4399074--4399219 Score: 256
Period size: 78 Copynumber: 1.9 Consensus size: 78
4399064 TTCCAGTTCG
*
4399074 AGTTCATAATGAGAAGAACTCATCAGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCAGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
4399139 AACATTTCCAGAA
66 AACATTTCCAGAA
* * *
4399152 AGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCAGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
4399217 AAC
66 AAC
4399220 CTTTTGCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (78 bp):
AGTTCATAATGAGAAGAACTCATCAGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACATTTCCAGAA
Found at i:4399372 original size:123 final size:121
Alignment explanation
Indices: 4399137--4399466 Score: 483
Period size: 123 Copynumber: 2.7 Consensus size: 121
4399127 AAGAATTTGT
4399137 TCAACATTTCC--AGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATA
1 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAA-AA-GAAGAAGAAGTTCATA
*
4399200 ATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGTAGATAGATCAACA
64 ATGAGAAGAACTTGTTCAACCTTTTGCA-GACTCTATCACAGAAGTAGATAGATCAACA
*
4399259 TCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAATAAGAAGAAGAAGTTCATAA
1 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAA-AAGAAGAAGAAGTTCATAA
* *
4399324 TGAGAAGAACTTGTTTAACCTTTTGTTCA-ACTCTATCACAGAATTAGATAGATCAACA
65 TGAGAAGAACTTGTTCAACCTTTTG--CAGACTCTATCACAGAAGTAGATAGATCAACA
* *
4399382 TCAACATTTCCAGA-AATGTTCATAATGAGAAGAACTCATCTG-AAA-AAGAAGAAGTTCATAAT
1 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAAAGAAGAAGAAGTTCATAAT
* * *
4399444 AAGAAGAATTTGTTCAACATTTT
66 GAGAAGAACTTGTTCAACCTTTT
4399467 AGATTACATC
Statistics
Matches: 192, Mismatches: 12, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
119 36 0.19
120 2 0.01
121 1 0.01
122 36 0.19
123 81 0.42
124 34 0.18
125 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (121 bp):
TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAAAGAAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACCTTTTGCAGACTCTATCACAGAAGTAGATAGATCAACA
Found at i:4401813 original size:18 final size:19
Alignment explanation
Indices: 4401780--4401826 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
4401770 AATTCAAAAT
*
4401780 AAATAAAATAATAATAAAG
1 AAATAAATTAATAATAAAG
*
4401799 GAATAAATTAA-AATAAAG
1 AAATAAATTAATAATAAAG
*
4401817 AAAAAAATTA
1 AAATAAATTA
4401827 GACATGCACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.21
Consensus pattern (19 bp):
AAATAAATTAATAATAAAG
Found at i:4403731 original size:132 final size:133
Alignment explanation
Indices: 4403478--4403829 Score: 435
Period size: 132 Copynumber: 2.7 Consensus size: 133
4403468 GATCATTTTG
* * * *
4403478 AAAA-GGGATATGCTCCACTGCTTCTTTAGGGTAAATCAGATCTAGAAATTTTGATTCATTCCAA
1 AAAAGGGGATATGTTCCACTGCTTCTTTAGGGAAAATCAGATCTAGAAATATTGATTCATTCCAC
* ** *
4403542 TGTTCTTCAGGGAATATTGAATTGAGACAGACTTATTCCACTGTTTCTCAGGGAAGATTAAATCT
66 TGTTCTTCAGGGAAGATTGAATCAAGACAGACTTATTCCACTGTTTCTCAGGGAAGATCAAATCT
4403607 -AA
131 GAA
* * * * **
4403609 AAAAGGGGATCTGTTCCACTGCTTCTTCAGGGAAAATCAGATATGGAAACGTTGATTCATTCCAC
1 AAAAGGGGATATGTTCCACTGCTTCTTTAGGGAAAATCAGATCTAGAAATATTGATTCATTCCAC
* ** *
4403674 TGTTCTTCAGGGAAGATAGAATCAAGGTAGACTTGTTCCACTG-TTCTTC-GGGAAAGATCAAAT
66 TGTTCTTCAGGGAAGATTGAATCAAGACAGACTTATTCCACTGTTTC-TCAGGG-AAGATCAAAT
4403737 CTGAA
129 CTGAA
* * *
4403742 AAAAGAGGGATATGTTCCGCTACTTCTTTAGGGAAAATCAAATCTAGAAATATTG-TTCATTCCA
1 AAAAG-GGGATATGTTCCACTGCTTCTTTAGGGAAAATCAGATCTAGAAATATTGATTCATTCCA
* *
4403806 CTATTCTTTAGGGAAGATTGAATC
65 CTGTTCTTCAGGGAAGATTGAATC
4403830 GAGTTCGATT
Statistics
Matches: 187, Mismatches: 29, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
131 10 0.05
132 100 0.53
133 37 0.20
134 40 0.21
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (133 bp):
AAAAGGGGATATGTTCCACTGCTTCTTTAGGGAAAATCAGATCTAGAAATATTGATTCATTCCAC
TGTTCTTCAGGGAAGATTGAATCAAGACAGACTTATTCCACTGTTTCTCAGGGAAGATCAAATCT
GAA
Found at i:4403855 original size:133 final size:132
Alignment explanation
Indices: 4403481--4403875 Score: 426
Period size: 132 Copynumber: 3.0 Consensus size: 132
4403471 CATTTTGAAA
* * * *
4403481 AGGGATATGCTCCACTGCTTCTTTAGGGTAAATCAGATCTAGAAATTTTGATTCATTCCAATGTT
1 AGGGATATGTTCCACTGCTTCTTTAGGGAAAATCAGATCTAGAAATATTGATTCATTCCACTGTT
* * * *
4403546 CTTCAGGGAATATTGAATTGAGACAGACTTATTCCACTGTT-TCTCAGGGAAGATTAAATCT-AA
66 CTTCAGGGAAGATTGAATCGAGTC-GACTTATTCCACTGTTCT-TC-GGGAAGATCAAATCTGAA
4403609 AAAAG
128 AAAAG
* * * * **
4403614 -GGGATCTGTTCCACTGCTTCTTCAGGGAAAATCAGATATGGAAACGTTGATTCATTCCACTGTT
1 AGGGATATGTTCCACTGCTTCTTTAGGGAAAATCAGATCTAGAAATATTGATTCATTCCACTGTT
* * * *
4403678 CTTCAGGGAAGATAGAATCAAGGTAGACTTGTTCCACTGTTCTTCGGGAAAGATCAAATCTGAAA
66 CTTCAGGGAAGATTGAATCGA-GTCGACTTATTCCACTGTTCTTCGGG-AAGATCAAATCTGAAA
4403743 AAAG
129 AAAG
* * * *
4403747 AGGGATATGTTCCGCTACTTCTTTAGGGAAAATCAAATCTAGAAATATTG-TTCATTCCACTATT
1 AGGGATATGTTCCACTGCTTCTTTAGGGAAAATCAGATCTAGAAATATTGATTCATTCCACTGTT
* * * *
4403811 CTTTAGGGAAGATTGAATCGAGTTCGA-TTCACTT-CTCT-TATCTTCGAGAATATCAAATCTGA
66 CTTCAGGGAAGATTGAATCGAG-TCGACTT-A-TTCCACTGT-TCTTCGGGAAGATCAAATCTGA
4403873 AAA
127 AAA
4403876 TTAAACATTA
Statistics
Matches: 218, Mismatches: 35, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
131 3 0.01
132 120 0.55
133 53 0.24
134 42 0.19
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (132 bp):
AGGGATATGTTCCACTGCTTCTTTAGGGAAAATCAGATCTAGAAATATTGATTCATTCCACTGTT
CTTCAGGGAAGATTGAATCGAGTCGACTTATTCCACTGTTCTTCGGGAAGATCAAATCTGAAAAA
AG
Found at i:4404400 original size:41 final size:42
Alignment explanation
Indices: 4404332--4404454 Score: 106
Period size: 42 Copynumber: 3.0 Consensus size: 42
4404322 CATGTGAAAA
* * * * *
4404332 CATCCTGCCCAAAAGTCTTATGGATGACCCAAAGGACTT-AT
1 CATCATGCTCAAAAGACTTATAGATGACCCAAAGGACTTAAG
* * ** *
4404373 CATCTTGCTCAAAAGACTTATATATGACCTGAAGGATTTAAG
1 CATCATGCTCAAAAGACTTATAGATGACCCAAAGGACTTAAG
* * *
4404415 CATCATGCTCGAAAGACTTACT-GATGGCCCGAAGGACTTA
1 CATCATGCTCAAAAGACTTA-TAGATGACCCAAAGGACTTA
4404455 CTATCAAGAA
Statistics
Matches: 65, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
41 31 0.48
42 33 0.51
43 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.26
Consensus pattern (42 bp):
CATCATGCTCAAAAGACTTATAGATGACCCAAAGGACTTAAG
Found at i:4406015 original size:44 final size:44
Alignment explanation
Indices: 4405952--4406035 Score: 159
Period size: 44 Copynumber: 1.9 Consensus size: 44
4405942 GTATTCATGT
4405952 ATGATATGGGCCTTAAAAAATGCCCCAACATTTATCATTTTTCG
1 ATGATATGGGCCTTAAAAAATGCCCCAACATTTATCATTTTTCG
*
4405996 ATGATATGGGCCTTAAAAAATGCCCCAACATTTATTATTT
1 ATGATATGGGCCTTAAAAAATGCCCCAACATTTATCATTT
4406036 CTTGCTCCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (44 bp):
ATGATATGGGCCTTAAAAAATGCCCCAACATTTATCATTTTTCG
Found at i:4412771 original size:131 final size:132
Alignment explanation
Indices: 4412537--4412880 Score: 523
Period size: 131 Copynumber: 2.6 Consensus size: 132
4412527 TGGATCTTAA
* * * * * *
4412537 GAGAGAAAACGATAATATGTAATTATTTTCAATCGAAAATAAATGACCTCTCATACCTTAAAACA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTTATGCCTTAAAGCA
* * *
4412602 TTCATTTATTACTTC-ATTCGAAATGAAGAGATATCACTATTTCGTCTTAAAATTCAATATTGAT
66 ATCATTTATTACTCCAATTCGAAATGAAGAGATATCACTATTTCGTCTTAAAAATCAATATTGAT
4412666 TC
131 TC
* * *
4412668 GAGAGAAAACGATATTATCTGATTATTTCCAATCGAGAATAAACGACCTCTTATGCCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTTATGCCTTAAAGCA
*
4412733 ATCATTTATTACTCCAATT-GAAATGAAGAGATATCACTATTTCTTCTTAAAAATCAATATTGAT
66 ATCATTTATTACTCCAATTCGAAATGAAGAGATATCACTATTTCGTCTTAAAAATCAATATTGAT
4412797 TC
131 TC
*
4412799 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACAT-TTCATGCCTTAAAGC
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTT-ATGCCTTAAAGC
*
4412863 AGTCATTTATTACTCCAA
65 AATCATTTATTACTCCAA
4412881 CTAGAATGAA
Statistics
Matches: 193, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
130 2 0.01
131 188 0.97
132 3 0.02
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.33
Consensus pattern (132 bp):
GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTTATGCCTTAAAGCA
ATCATTTATTACTCCAATTCGAAATGAAGAGATATCACTATTTCGTCTTAAAAATCAATATTGAT
TC
Found at i:4420486 original size:39 final size:39
Alignment explanation
Indices: 4420442--4420520 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
4420432 CATTTCATAA
4420442 TTTGGAGGTCTCCTACGGAAGCTGCTCTCAACCTGGTGT
1 TTTGGAGGTCTCCTACGGAAGCTGCTCTCAACCTGGTGT
4420481 TTTGGAGGTCTCCTACGGAAGCTGCTCTCAACCTGGTGT
1 TTTGGAGGTCTCCTACGGAAGCTGCTCTCAACCTGGTGT
4420520 T
1 T
4420521 GGGGGCAGCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.15, C:0.25, G:0.28, T:0.32
Consensus pattern (39 bp):
TTTGGAGGTCTCCTACGGAAGCTGCTCTCAACCTGGTGT
Found at i:4431638 original size:32 final size:32
Alignment explanation
Indices: 4431601--4431735 Score: 135
Period size: 32 Copynumber: 4.2 Consensus size: 32
4431591 AAATGTTTTA
* * * *
4431601 CATTATTTAAATGCAATACTAACACTGTTCTG
1 CATTATCTAAATGCAACACTAACTCTGTTATG
* * ** *
4431633 CATTATCTGAATGCAACACTGACTCTGCAATA
1 CATTATCTAAATGCAACACTAACTCTGTTATG
* * *
4431665 CATTATCTGAATACAACACTGACTCTGTTATG
1 CATTATCTAAATGCAACACTAACTCTGTTATG
* * *
4431697 CATTATGTAAATGCAACACTAACTCTATTGTG
1 CATTATCTAAATGCAACACTAACTCTGTTATG
4431729 CATTATC
1 CATTATC
4431736 AGAATGGAAC
Statistics
Matches: 83, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 83 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (32 bp):
CATTATCTAAATGCAACACTAACTCTGTTATG
Found at i:4441262 original size:21 final size:19
Alignment explanation
Indices: 4441225--4441270 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
4441215 AATTAATCCT
4441225 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
4441245 ACTAATATTATAGAGCTAAGA
1 ACTAATATTA-A-AGCTAAGA
4441266 A-TAAT
1 ACTAAT
4441271 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.21
20 10 0.42
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.13, T:0.28
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:4451523 original size:21 final size:19
Alignment explanation
Indices: 4451485--4451530 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
4451475 AATTAATCCT
4451485 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
4451505 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
4451526 A-TAAT
1 ACTAAT
4451531 GATTCAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:4458920 original size:36 final size:36
Alignment explanation
Indices: 4458852--4458920 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
4458842 TATTTAGATT
* * *
4458852 CGATCAATTCATCTGATTCATCTCAGTCGATTCAAG
1 CGATCAACTCACCTGATTCATCTCAATCGATTCAAG
*
4458888 CGATCAACTCACCTGATTC-TACTCAATTGATTC
1 CGATCAACTCACCTGATTCAT-CTCAATCGATTC
4458921 GACCGATTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 1 0.04
36 27 0.96
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.33
Consensus pattern (36 bp):
CGATCAACTCACCTGATTCATCTCAATCGATTCAAG
Found at i:4466629 original size:117 final size:116
Alignment explanation
Indices: 4466423--4466711 Score: 366
Period size: 117 Copynumber: 2.5 Consensus size: 116
4466413 TTAGGCAAAC
* * ** *
4466423 TTTTCTCATTATTAACTTCTCATTGAGAA-TGTGATCCACCTTATTTTGTGATGGATTTAAGCAA
1 TTTTCTCATTATTAAC-TCTCATTAAAAAGT-TGATCCACCTCCTTTTGTGATGGATTTAAGAAA
* *
4466487 AAGGTTGAACAAGTTCTTCTCATTATGAATGTA-TCCTCCCTCGGTAGACGAGT
64 AAGGTTGAACAAGTTCTTCTCATTATGAA-CTACTCCTCCCTCCGTAGACGAGT
* * * *
4466540 TTTTCTCATTATGAACTACTCATTAAAAAGTTAATCCACCTCCTTTTGTAATGGATTTGAGAAAA
1 TTTTCTCATTATTAACT-CTCATTAAAAAGTTGATCCACCTCCTTTTGTGATGGATTTAAGAAAA
* * *
4466605 AGTTTGAACAAGTTCTTCTCATTATGAACTACTCCTCTCTCCGTGGACGAGT
65 AGGTTGAACAAGTTCTTCTCATTATGAACTACTCCTCCCTCCGTAGACGAGT
* * *
4466657 TTTTCTCATTATTAAATCTCCATTAAAATGTTGATCCAACTCCTTTTGTGATGGA
1 TTTTCTCATTATTAACTCT-CATTAAAAAGTTGATCCACCTCCTTTTGTGATGGA
4466712 ACCGAGCAAA
Statistics
Matches: 148, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
116 5 0.03
117 142 0.96
118 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.39
Consensus pattern (116 bp):
TTTTCTCATTATTAACTCTCATTAAAAAGTTGATCCACCTCCTTTTGTGATGGATTTAAGAAAAA
GGTTGAACAAGTTCTTCTCATTATGAACTACTCCTCCCTCCGTAGACGAGT
Found at i:4466755 original size:48 final size:48
Alignment explanation
Indices: 4466682--4466897 Score: 203
Period size: 50 Copynumber: 4.6 Consensus size: 48
4466672 ATCTCCATTA
* * *
4466682 AAATGTTGATCCAACTCCTTTTGTGATGGAACCGAGCAAAAAAAAAAG
1 AAATGTTGATCCAACTCCTTCTGTGATGGAATCTAGCAAAAAAAAAAG
* * * **
4466730 AAATGTTGATCTACCTCCTTCTGTGATGGAA--T--CAAACAAAAGTG
1 AAATGTTGATCCAACTCCTTCTGTGATGGAATCTAGCAAAAAAAAAAG
* * * * *
4466774 CAATGATGATCCAACTCCTTATATGATGGAATATAGCAACAAAAAAAAAG
1 AAATGTTGATCCAACTCCTTCTGTGATGGAATCTAGC-A-AAAAAAAAAG
* * * *
4466824 GAATGTTGATCCAACTCCTTGTGTGAAGGAATCTAGC--AAAAAAATG
1 AAATGTTGATCCAACTCCTTCTGTGATGGAATCTAGCAAAAAAAAAAG
*
4466870 -AATGTTGATCCACCTCCTTCTGTGATGG
1 AAATGTTGATCCAACTCCTTCTGTGATGG
4466898 GTCTAAGCAA
Statistics
Matches: 136, Mismatches: 26, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
44 34 0.25
45 25 0.18
46 9 0.07
48 29 0.21
49 1 0.01
50 38 0.28
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.26
Consensus pattern (48 bp):
AAATGTTGATCCAACTCCTTCTGTGATGGAATCTAGCAAAAAAAAAAG
Found at i:4466864 original size:94 final size:92
Alignment explanation
Indices: 4466683--4466856 Score: 231
Period size: 94 Copynumber: 1.9 Consensus size: 92
4466673 TCTCCATTAA
* * * * * *
4466683 AATGTTGATCCAACTCCTTTTGTGATGGAACCGAGCAAAAAAAAAAGAAATGTTGATCTACCTCC
1 AATGATGATCCAACTCCTTATATGATGGAACAGAGCAAAAAAAAAAGAAATGTTGATCCAACTCC
*
4466748 TTCTGTGATGGAATCAAACAAAAGTGC
66 TTCTGTGAAGGAATCAAACAAAAGTGC
* * *
4466775 AATGATGATCCAACTCCTTATATGATGGAATATAGCAACAAAAAAAAAGGAATGTTGATCCAACT
1 AATGATGATCCAACTCCTTATATGATGGAACAGAGC-A-AAAAAAAAAGAAATGTTGATCCAACT
*
4466840 CCTTGTGTGAAGGAATC
64 CCTTCTGTGAAGGAATC
4466857 TAGCAAAAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
92 30 0.43
93 1 0.01
94 38 0.55
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (92 bp):
AATGATGATCCAACTCCTTATATGATGGAACAGAGCAAAAAAAAAAGAAATGTTGATCCAACTCC
TTCTGTGAAGGAATCAAACAAAAGTGC
Found at i:4466909 original size:45 final size:45
Alignment explanation
Indices: 4466683--4466894 Score: 160
Period size: 45 Copynumber: 4.6 Consensus size: 45
4466673 TCTCCATTAA
* * * * *
4466683 AATGTTGATCCAACTCCTTTTGTGATGGAACCGAGCAAAAAAAAAAGA
1 AATGTTGATCCAACTCCTTCTGTGAAGGAATCTAGC---AAAAAAAGG
* * * *
4466731 AATGTTGATCTACCTCCTTCTGTGATGGAATC-A--AACAAAAGTG
1 AATGTTGATCCAACTCCTTCTGTGAAGGAATCTAGCAAAAAAAG-G
* * * * *
4466774 CAATGATGATCCAACTCCTTATATGATGGAATATAGCAACAAAAAAAAAGG
1 -AATGTTGATCCAACTCCTTCTGTGAAGGAATCTAG---C--AAAAAAAGG
* *
4466825 AATGTTGATCCAACTCCTTGTGTGAAGGAATCTAGCAAAAAAATG
1 AATGTTGATCCAACTCCTTCTGTGAAGGAATCTAGCAAAAAAAGG
*
4466870 AATGTTGATCCACCTCCTTCTGTGA
1 AATGTTGATCCAACTCCTTCTGTGA
4466895 TGGGTCTAAG
Statistics
Matches: 133, Mismatches: 21, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
42 7 0.05
44 26 0.20
45 32 0.24
47 2 0.02
48 28 0.21
50 30 0.23
51 1 0.01
52 7 0.05
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (45 bp):
AATGTTGATCCAACTCCTTCTGTGAAGGAATCTAGCAAAAAAAGG
Found at i:4467163 original size:45 final size:45
Alignment explanation
Indices: 4467108--4467271 Score: 136
Period size: 45 Copynumber: 3.7 Consensus size: 45
4467098 TCTCCTTTAA
* * * *
4467108 AAATGATGATCTAACCCCTTCTATGATGGAATCGAGCAAAAAATG
1 AAATGTTGATCCAACTCCTTCTATGATGGAATCAAGCAAAAAATG
* * *
4467153 AAATGTTGATCCATA-TCCTTCTATGATGAAATCAAACAAAAAGTG
1 AAATGTTGATCCA-ACTCCTTCTATGATGGAATCAAGCAAAAAATG
*** * * *
4467198 TGTTGTTGATCCAACTCCTT-GAGTGATGGAATCTAGC-AAAAAGG
1 AAATGTTGATCCAACTCCTTCTA-TGATGGAATCAAGCAAAAAATG
* * **
4467242 AAATGTTAATCCACCTCCTTCCGTGATGGA
1 AAATGTTGATCCAACTCCTTCTATGATGGA
4467272 TATGAGAAAA
Statistics
Matches: 92, Mismatches: 23, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
44 29 0.32
45 62 0.67
46 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (45 bp):
AAATGTTGATCCAACTCCTTCTATGATGGAATCAAGCAAAAAATG
Found at i:4473220 original size:14 final size:14
Alignment explanation
Indices: 4473201--4473227 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4473191 TTGGAGTGCA
4473201 AAAAGAAAGAAAAG
1 AAAAGAAAGAAAAG
4473215 AAAAGAAAGAAAA
1 AAAAGAAAGAAAA
4473228 ATTCAAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAGAAAGAAAAG
Found at i:4473671 original size:41 final size:41
Alignment explanation
Indices: 4473614--4473695 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
4473604 TGCTAGTAAG
4473614 GTTTTAATTTATTTTTATTTAACTAACCATGTCTCAAAGCC
1 GTTTTAATTTATTTTTATTTAACTAACCATGTCTCAAAGCC
4473655 GTTTTAATTTATTTTTATTTAACTAACCATGTCTCAAAGCC
1 GTTTTAATTTATTTTTATTTAACTAACCATGTCTCAAAGCC
4473696 CCATAGAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.17, G:0.07, T:0.46
Consensus pattern (41 bp):
GTTTTAATTTATTTTTATTTAACTAACCATGTCTCAAAGCC
Found at i:4477317 original size:15 final size:15
Alignment explanation
Indices: 4477286--4477340 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4477276 ATCTTTGATA
* *
4477286 TCATTTCTATCCCTT
1 TCATTTCTTTCCATT
4477301 TCATTTCTTTCCATT
1 TCATTTCTTTCCATT
* *
4477316 TCCTTCTATTTCCATT
1 TCATT-TCTTTCCATT
*
4477332 TCCTTTCTT
1 TCATTTCTT
4477341 AATTATCAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
15 20 0.59
16 14 0.41
ACGTcount: A:0.11, C:0.31, G:0.00, T:0.58
Consensus pattern (15 bp):
TCATTTCTTTCCATT
Found at i:4480618 original size:51 final size:51
Alignment explanation
Indices: 4480542--4480644 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
4480532 GTTCTAAGAA
4480542 AGATTTGGAGAGGTCTTTCTAGGATATGATGTTAACCCAACTTAATTGGGT
1 AGATTTGGAGAGGTCTTTCTAGGATATGATGTTAACCCAACTTAATTGGGT
4480593 AGATTTGGAGAGGTCTTTCTAGGATATGATGTTAACCCAACTTAATTGGGT
1 AGATTTGGAGAGGTCTTTCTAGGATATGATGTTAACCCAACTTAATTGGGT
4480644 A
1 A
4480645 TACCACCTAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (51 bp):
AGATTTGGAGAGGTCTTTCTAGGATATGATGTTAACCCAACTTAATTGGGT
Found at i:4483424 original size:16 final size:18
Alignment explanation
Indices: 4483398--4483430 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4483388 AGATTTGAAA
4483398 AGGATATTTAT-ATAATT
1 AGGATATTTATAATAATT
4483415 AGGA-ATTTATAATAAT
1 AGGATATTTATAATAAT
4483431 GACCCTCGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
AGGATATTTATAATAATT
Found at i:4485042 original size:55 final size:55
Alignment explanation
Indices: 4484953--4485268 Score: 409
Period size: 55 Copynumber: 5.7 Consensus size: 55
4484943 AAGTGTGCAA
* * *
4484953 AAACATAAGAAATTCACACTAATTGGATGAATTTCTGTATGGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGT
* * * *
4485008 AAACTTAAGAAATTCATACCAAGCGGATGAATTTCTATATGGGCACTTTACGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGT
* * * * *
4485063 AAACTTGATAAATGCATACTAAGTGGATGAATTTCCGCATGGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGT
*
4485118 AAACTTAAGAAAATTAATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGT
1 AAACTTAAG-AAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGT
* * * *
4485174 AAACTTAAGGAATTCTTACTAAGTGGATGAATTTATGTATGGGCACTTTATGTGCA
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTG-T
* * * * *
4485230 AAAC-TAGGAAATTCTTACTAAGTGTATAAATTTCCGTAT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTAT
4485269 TGGTAGTGGG
Statistics
Matches: 226, Mismatches: 33, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
55 171 0.76
56 55 0.24
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (55 bp):
AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGT
Found at i:4485194 original size:111 final size:110
Alignment explanation
Indices: 4484953--4485227 Score: 388
Period size: 111 Copynumber: 2.5 Consensus size: 110
4484943 AAGTGTGCAA
* * * *
4484953 AAACATAAGAAATTCACACTAATTGGATGAATTTCTGTATGGGCACTTTATGTGTAAACTTAAGA
1 AAACTTAAGAAATGCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGTAAACTTAAGA
*
4485018 AATTCATACCAAGCGGATGAATTTCTATATGGGCACTTTACGTGT
66 AATTAATACCAAGCGGATGAATTTCTATATGGGCACTTTACGTGT
* * * *
4485063 AAACTTGATAAATGCATACTAAGTGGATGAATTTCCGCATGGGCACTTTATGTGTAAACTTAAGA
1 AAACTTAAGAAATGCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGTAAACTTAAG-
* * * *
4485128 AAATTAATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGT
65 AAATTAATACCAAGCGGATGAATTTCTATATGGGCACTTTACGTGT
* * * *
4485174 AAACTTAAGGAATTCTTACTAAGTGGATGAATTTATGTATGGGCACTTTATGTG
1 AAACTTAAGAAATGCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTG
4485228 CAAAACTAGG
Statistics
Matches: 143, Mismatches: 21, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
110 56 0.39
111 87 0.61
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.34
Consensus pattern (110 bp):
AAACTTAAGAAATGCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGTAAACTTAAGA
AATTAATACCAAGCGGATGAATTTCTATATGGGCACTTTACGTGT
Found at i:4485251 original size:166 final size:165
Alignment explanation
Indices: 4484953--4485265 Score: 439
Period size: 166 Copynumber: 1.9 Consensus size: 165
4484943 AAGTGTGCAA
* *
4484953 AAACATAAGAAATTCACACTAATTGGATGAATTTCTGTATGGGCACTTTATGTGTAAACTTAAGA
1 AAACATAAGAAATTAACACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGTAAACTTAAGA
* * * *
4485018 AATTCATACCAAGCGGATGAATTTCTATATGGGCACTTTACGTGTAAACTTGATAAATGCATACT
66 AATTCATACCAAGCGGATGAATTTATATATGGGCACTTTACGTGAAAACTAGAGAAATGCATACT
*
4485083 AAGTGGATGAATTTCCGCATGGGCACTTTATGTGT
131 AAGTGGATAAATTTCCGCATGGGCACTTTATGTGT
* *
4485118 AAACTTAAGAAAATTAATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGTAAACTTAAG
1 AAACATAAG-AAATTAACACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGTAAACTTAAG
* * * * * * * *
4485183 GAATTCTTACTAAGTGGATGAATTTATGTATGGGCACTTTATGTGCAAAACTAG-GAAATTCTTA
65 AAATTCATACCAAGCGGATGAATTTATATATGGGCACTTTACGTG-AAAACTAGAGAAATGCATA
*
4485247 CTAAGTGTATAAATTTCCG
129 CTAAGTGGATAAATTTCCG
4485266 TATTGGTAGT
Statistics
Matches: 128, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
165 8 0.06
166 114 0.89
167 6 0.05
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (165 bp):
AAACATAAGAAATTAACACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGTAAACTTAAGA
AATTCATACCAAGCGGATGAATTTATATATGGGCACTTTACGTGAAAACTAGAGAAATGCATACT
AAGTGGATAAATTTCCGCATGGGCACTTTATGTGT
Found at i:4488328 original size:12 final size:12
Alignment explanation
Indices: 4488311--4488335 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4488301 CTTTCCTTGG
4488311 TCATATAGTCTC
1 TCATATAGTCTC
4488323 TCATATAGTCTC
1 TCATATAGTCTC
4488335 T
1 T
4488336 GCTGAAGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (12 bp):
TCATATAGTCTC
Found at i:4491080 original size:27 final size:27
Alignment explanation
Indices: 4491050--4491110 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
4491040 AAATGTGGTG
*
4491050 TGATTCTTAGAATTAAATTATCTTGAT
1 TGATTCTTAGAATCAAATTATCTTGAT
4491077 TGATTCTTAGAATCAAATTATCTTGAT
1 TGATTCTTAGAATCAAATTATCTTGAT
*
4491104 GGATTCT
1 TGATTCT
4491111 AGATGTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (27 bp):
TGATTCTTAGAATCAAATTATCTTGAT
Found at i:4491432 original size:19 final size:22
Alignment explanation
Indices: 4491408--4491458 Score: 81
Period size: 19 Copynumber: 2.5 Consensus size: 22
4491398 TGCAAAAATG
4491408 GTATCGATACCAT-A-ATAG-A
1 GTATCGATACCATAATATAGTA
4491427 GTATCGATACCATAATATAGTA
1 GTATCGATACCATAATATAGTA
4491449 GTATCGATAC
1 GTATCGATAC
4491459 AATGGTAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.45
20 1 0.03
21 4 0.14
22 11 0.38
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (22 bp):
GTATCGATACCATAATATAGTA
Found at i:4491900 original size:55 final size:55
Alignment explanation
Indices: 4491816--4492129 Score: 472
Period size: 55 Copynumber: 5.7 Consensus size: 55
4491806 AAGTGTGCAA
* * * *
4491816 AAACTTAAGAGATTCACACTAAATGGATGAATTTACGTATGGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGT
*
4491871 AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTACGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGT
*
4491926 AAACTTAAGAAATTCATACTAAGTGGATGAATTTACGTATGGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGT
* *
4491981 AAACTTAATAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATTTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGT
* * *
4492036 AAACTTAAGGAATTCATACTAAGTGGATGAATTTTTGTATGGGCAC-TTATGTGCA
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTG-T
* *
4492091 AAAC-T-AGAAAATTCATACTAAGTGTATAAATTTTCGTAT
1 AAACTTAAG-AAATTCATACTAAGTGGATGAATTTTCGTAT
4492130 TGGTAGTGGG
Statistics
Matches: 238, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
53 2 0.01
54 34 0.14
55 202 0.85
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (55 bp):
AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGT
Found at i:4493010 original size:9 final size:9
Alignment explanation
Indices: 4492984--4493027 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
4492974 TCTTGAGCCC
4492984 CCTTTATTTT
1 CCTTT-TTTT
4492994 -CTTCTTTTT
1 CCTT-TTTTT
4493003 CC-TTTTTT
1 CCTTTTTTT
4493011 CCTTTTTTT
1 CCTTTTTTT
4493020 CCTTTTTT
1 CCTTTTTT
4493028 CATCTCTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 7 0.23
9 22 0.71
10 2 0.06
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (9 bp):
CCTTTTTTT
Found at i:4493018 original size:17 final size:18
Alignment explanation
Indices: 4492984--4493028 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
4492974 TCTTGAGCCC
*
4492984 CCTTTATTTTCTTCTTTTT
1 CCTTT-TTTCCTTCTTTTT
4493003 CCTTTTTTCCTT-TTTTT
1 CCTTTTTTCCTTCTTTTT
4493020 CCTTTTTTC
1 CCTTTTTTC
4493029 ATCTCTTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 14 0.56
18 6 0.24
19 5 0.20
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (18 bp):
CCTTTTTTCCTTCTTTTT
Found at i:4493045 original size:8 final size:7
Alignment explanation
Indices: 4492990--4493056 Score: 53
Period size: 8 Copynumber: 8.7 Consensus size: 7
4492980 GCCCCCTTTA
4492990 TTTTCTTC
1 TTTT-TTC
*
4492998 TTTTTCC
1 TTTTTTC
4493005 TTTTTTCC
1 TTTTTT-C
4493013 TTTTTTTCC
1 -TTTTTT-C
4493022 TTTTTTC
1 TTTTTTC
* *
4493029 ATCTCTTC
1 -TTTTTTC
4493037 TATTTTTC
1 T-TTTTTC
4493045 TTTTTTC
1 TTTTTTC
4493052 TTTTT
1 TTTTT
4493057 CTTCAAGCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
7 20 0.41
8 21 0.43
9 8 0.16
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTTC
Found at i:4507960 original size:47 final size:47
Alignment explanation
Indices: 4507900--4508027 Score: 141
Period size: 47 Copynumber: 2.7 Consensus size: 47
4507890 ATTTTTTTCC
* *
4507900 TTTGAAAAGTATTTTCAGATATCTTCTAAAATTAA-TAGTTCTCTACT
1 TTTGAAAAATATTTTGAGATATCTTCTAAAATTAAGT-GTTCTCTACT
* * * * * *
4507947 TTTGAAAAATATTTTGAGAGATTTTCTGAAATTAAGTTTTCTTTCCT
1 TTTGAAAAATATTTTGAGATATCTTCTAAAATTAAGTGTTCTCTACT
* * *
4507994 TTTGAAAATTGTTTTGAGATATCTTCTACAATTA
1 TTTGAAAAATATTTTGAGATATCTTCTAAAATTA
4508028 GTCCCTAATT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
47 65 0.98
48 1 0.02
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.47
Consensus pattern (47 bp):
TTTGAAAAATATTTTGAGATATCTTCTAAAATTAAGTGTTCTCTACT
Found at i:4511852 original size:16 final size:17
Alignment explanation
Indices: 4511820--4511880 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
4511810 TGAGTACAAT
4511820 AAATAAAAAATAAAGAA
1 AAATAAAAAATAAAGAA
*
4511837 AAATAAAGAAAAAGAAGAAA
1 AAATAAA-AAATA-AAG-AA
* *
4511857 AAATATATAAATAAA-AC
1 AAATA-AAAAATAAAGAA
4511874 AAATAAA
1 AAATAAA
4511881 TACAATAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
16 1 0.03
17 13 0.37
18 4 0.11
19 5 0.14
20 11 0.31
21 1 0.03
ACGTcount: A:0.79, C:0.02, G:0.07, T:0.13
Consensus pattern (17 bp):
AAATAAAAAATAAAGAA
Found at i:4511858 original size:9 final size:10
Alignment explanation
Indices: 4511825--4511858 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
4511815 ACAATAAATA
4511825 AAAAATAAAG
1 AAAAATAAAG
4511835 AAAAATAAAG
1 AAAAATAAAG
*
4511845 AAAAA-GAAG
1 AAAAATAAAG
4511854 AAAAA
1 AAAAA
4511859 ATATATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (10 bp):
AAAAATAAAG
Found at i:4511953 original size:42 final size:43
Alignment explanation
Indices: 4511875--4512008 Score: 123
Period size: 43 Copynumber: 3.1 Consensus size: 43
4511865 AAATAAAACA
* * *
4511875 AATAAATACAATAA-TAATAAAAAAGTAAAATATATATATATATAT
1 AATAAATAAAACAAGTAAT-AAAAAGT--AACATATATATATATAT
*
4511920 AATAAATAAAA-ACATTAA-AAAATAGTAA-ATATATATATATAT
1 AATAAATAAAACA-AGTAATAAAA-AGTAACATATATATATATAT
* * *
4511962 AAATTAATAAAACAAGTAATAAAAATTAACATATATATATATGT
1 -AATAAATAAAACAAGTAATAAAAAGTAACATATATATATATAT
4512006 AAT
1 AAT
4512009 CTAAAAAAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
42 14 0.18
43 23 0.30
44 23 0.30
45 14 0.18
46 3 0.04
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (43 bp):
AATAAATAAAACAAGTAATAAAAAGTAACATATATATATATAT
Found at i:4511955 original size:44 final size:42
Alignment explanation
Indices: 4511893--4512003 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 42
4511883 CAATAATAAT
*
4511893 AAAAAAGTAAAATATATATATATATATAATAAATAAAA-ACATTA
1 AAAAAAGT-AAATATATATATATATA-AATAAATAAAACA-AGTA
*
4511937 AAAAATAGTAAATATATATATATATAAATTAATAAAACAAGTA
1 AAAAA-AGTAAATATATATATATATAAATAAATAAAACAAGTA
*
4511980 ATAAAAATTAACATATATATATAT
1 A-AAAAAGTAA-ATATATATATAT
4512004 GTAATCTAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
43 18 0.30
44 39 0.65
45 3 0.05
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (42 bp):
AAAAAAGTAAATATATATATATATAAATAAATAAAACAAGTA
Found at i:4512607 original size:37 final size:37
Alignment explanation
Indices: 4512557--4512631 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
4512547 ATGCTTGTGG
4512557 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
4512594 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
4512631 A
1 A
4512632 ACGTTATGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
Found at i:4513324 original size:84 final size:84
Alignment explanation
Indices: 4513205--4515056 Score: 1834
Period size: 84 Copynumber: 22.4 Consensus size: 84
4513195 ATTTGGTTTT
* * * * *
4513205 CCTTTGAGCTGAGTGTAATCGAACTCGAAAGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAG
1 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
*
4513270 CTATGCTGCAAATGATGTG
66 TTATGCTGCAAATGATGTG
* * * * *
4513289 CCTTGGAGCTGAGCGTAGTTGAACTTGAAGGTCTTT-GTTGGCAGATAACCCTTCTAGCCTTGAG
1 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
* *
4513353 TTATGCTACAAATTATGTG
66 TTATGCTGCAAATGATGTG
* * * * ** * *
4513372 CCCTCGAAGCTGAGTGTAATCGAACTCG-AGG-GATT--TTAGCAGATAGCCCTTCTCGACTTAA
1 -CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAA
*
4513433 GTTATGTTGCAAATGATGTG
65 GTTATGCTGCAAATGATGTG
** *
4513453 CCTTGGAGCTGAGCGTAGTTAAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAG
1 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
* * *
4513518 TTATGCTGCAAATTATATA
66 TTATGCTGCAAATGATGTG
* * * * ** *
4513537 CCTTGGAGCT-ACGCATAGTCGAACTCGAAGGTCTTTTCG-TGACAGGTAACCCTTCGAGCCTTG
1 CCTTGGAGCTGA-GCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTT-
*
4513600 AA-TTATGCTGTAAATGATGTG
63 AAGTTATGCTGCAAATGATGTG
* * * * * * * *
4513621 CCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC--T--TTGGCAGATAGCCTTTCTCTACTTAA
1 -CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAA
* * *
4513682 GCTATGTTACAAATGATGTG
65 GTTATGCTGCAAATGATGTG
* * *
4513702 CCTTGGAGCTGAGCTTAGTCAAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
1 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
* *
4513767 TTATGTTGCAAATGATATG
66 TTATGCTGCAAATGATGTG
* ** * * * *
4513786 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGG-TCACAGATAACCCTTTTAGCCTTGA
1 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAA
* * *
4513850 GTTATACTGTAAATGATATG
65 GTTATGCTGCAAATGATGTG
* * * * * * * *
4513870 CCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC--T--TTAGCAGATAGCCCTTCTAGACTTAA
1 -CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAA
*
4513931 GTTATGCTGCAAATAATGTG
65 GTTATGCTGCAAATGATGTG
* * *
4513951 TCTT--A---GAGCATAGTCGAACTCGAAGGTCTTT-GTTGGAAGATAACCCTTCTCGACTTAAG
1 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
* *
4514010 TTATGCTGCAAACGATATG
66 TTATGCTGCAAATGATGTG
** * * *
4514029 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TCACAGATAACCCTTCTAGCCTTGA
1 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAA
* *
4514093 GTTATGTTGTAAATGATGTG
65 GTTATGCTGCAAATGATGTG
* * * * * * *
4514113 CCCTTGAAGCTGAGTGCAATCGAACTCGATGGTC--T--TTGGAAGATAGCCCTTCTCGACTTAA
1 -CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAA
* *
4514174 GCTATGCTACAAATGATGTG
65 GTTATGCTGCAAATGATGTG
* * * *
4514194 CCTTGGAGCTGAGCGTAGTCAAACTCAAAGGTCTTTGGTTGGAAGATAACCCTTCTCGACTTATG
1 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
*
4514259 TTATGCTGCAAATGATATG
66 TTATGCTGCAAATGATGTG
* * * * *
4514278 CCTTGGAGCTGAGCGTAGTCGAACTCGAATGTCTTTTGGTT-ACAGATAACCCTTCTAGCCTTGA
1 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAA
* *
4514342 GTTATGCTGTAAATGATGTT
65 GTTATGCTGCAAATGATGTG
* * * * * *
4514362 CACTCGAAGCTGAGTGTAATCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAA
1 C-CTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAA
4514423 GTTATGCTGCAAATGATGTG
65 GTTATGCTGCAAATGATGTG
* *
4514443 CCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACGCTTCTCGACTTAAG
1 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
* *
4514508 TTACGCTGCAAATGATATG
66 TTATGCTGCAAATGATGTG
* * * * * *
4514527 CATTGGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTTGGTT-ACAGATAACCCTTCTAGCCTTGA
1 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAA
* * *
4514591 GTTATGTTGTAAATGGTGTG
65 GTTATGCTGCAAATGATGTG
*** * * * * *
4514611 CCCTCAAAGCTGAGTGTAATCGAACTCG-AGGATC--T--TTGGAAGATAGCCCTTCTCGAATTA
1 -CCTTGGAGCTGAGCGTAGTCGAACTCGAAGG-TCTTTGGTTGGCAGATAACCCTTCTCGACTTA
* *
4514671 AGCTATGCTGCAAATAATGTG
64 AGTTATGCTGCAAATGATGTG
*
4514692 TCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
1 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
*
4514757 TTATGCTGCAAATGATATG
66 TTATGCTGCAAATGATGTG
* * *
4514776 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTGG-TGGCAGATAGCCCTTCT-GGCATTGA
1 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGAC-TTAA
* *
4514838 GTTATGCTGTAAATGATGTA
65 GTTATGCTGCAAATGATGTG
* * * *
4514858 CCTTGGAGCTGAGCGTAGTCAAACACGAAGGTC-TTGG-TGGTAGATAACCCTTCTCAACTTAAG
1 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
*
4514921 TTATGCTGCAAATGATATG
66 TTATGCTGCAAATGATGTG
* * * * * * * *
4514940 CCTTGTAGCTTAGCGTAGTCGAACTCGAAGGTC-ATGG-TGACAGATAGCCCTTCTGGCCTTGAG
1 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
* **
4515003 TTATACTATAAATGATGTG
66 TTATGCTGCAAATGATGTG
*
4515022 CCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTT
1 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
4515057 GGCTGAAAGA
Statistics
Matches: 1430, Mismatches: 284, Indels: 109
0.78 0.16 0.06
Matches are distributed among these distances:
75 19 0.01
77 1 0.00
78 43 0.03
80 130 0.09
81 213 0.15
82 215 0.15
83 71 0.05
84 583 0.41
85 154 0.11
86 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (84 bp):
CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
TTATGCTGCAAATGATGTG
Done.