Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold29
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: 5511024
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 57772 characters in sequence are not A, C, G, or T
File 23 of 34
Found at i:3535025 original size:52 final size:51
Alignment explanation
Indices: 3534885--3535070 Score: 205
Period size: 52 Copynumber: 3.6 Consensus size: 51
3534875 TTAAGTTTCT
* * *
3534885 CAATTTTTCATAATCGGGGATACTCCAACCCTGGTTTTA-TTTCTAAAACAC
1 CAATTTTCCATAATCGGGGATACTCCAACCC-GATTTTATTTTCAAAAACAC
* * *
3534936 TAATTTTCCACAATCGGGGATACTGCAACCCCGATTTTATTTTC-AAAACAC
1 CAATTTTCCATAATCGGGGATACTCCAA-CCCGATTTTATTTTCAAAAACAC
* * *
3534987 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATAC
1 CAATTTTCC-ATAATCGGGGATACTCCAAC-CCGATTTTATTTTCAAAAACAC
* * * *
3535040 CAATTTTTCACAATCAGGGATACTCTAACCC
1 CAATTTTCCATAATCGGGGATACTCCAACCC
3535071 CGTTAATCAT
Statistics
Matches: 114, Mismatches: 16, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
51 48 0.42
52 52 0.46
53 14 0.12
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (51 bp):
CAATTTTCCATAATCGGGGATACTCCAACCCGATTTTATTTTCAAAAACAC
Found at i:3535078 original size:24 final size:25
Alignment explanation
Indices: 3535051--3535102 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
3535041 AATTTTTCAC
*
3535051 AATCA-GGGATACTCTAACCCCGTT
1 AATCACGGGATACTCCAACCCCGTT
*
3535075 AATCATCGGGGATACTCCAATCCCGTT
1 AATCA-C-GGGATACTCCAACCCCGTT
3535102 A
1 A
3535103 TTTTTGAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 5 0.22
27 18 0.78
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (25 bp):
AATCACGGGATACTCCAACCCCGTT
Found at i:3535317 original size:31 final size:28
Alignment explanation
Indices: 3535289--3535365 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
3535279 GTTTTTCACA
*
3535289 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
* **
3535317 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
3535345 --CGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
3535366 GCTTTATTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
28 40 0.95
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:3535426 original size:79 final size:79
Alignment explanation
Indices: 3535319--3535541 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 79
3535309 GTTATTTCAT
** *
3535319 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATAT
* *
3535384 TGATTTCTCATAAT
66 TGATTTCTCACAAC
* * * * *
3535398 TGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCTGATTTTATTTCC-TAATAA
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAAT-A
* *
3535462 TCGATTTTTCACAAC
65 TTGATTTCTCACAAC
* * * * *
3535477 CGGGAATACTCCAA-CCCTTTATTTTCAAGGGGATACTCCAACCCC-GTTATTATCTCCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT-TTATTTCCAAAATA
3535540 TT
65 TT
3535542 AAATTTTTCA
Statistics
Matches: 118, Mismatches: 23, Indels: 7
0.80 0.16 0.05
Matches are distributed among these distances:
77 2 0.02
78 38 0.32
79 78 0.66
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATAT
TGATTTCTCACAAC
Found at i:3535452 original size:237 final size:239
Alignment explanation
Indices: 3534951--3535454 Score: 617
Period size: 237 Copynumber: 2.1 Consensus size: 239
3534941 TTCCACAATC
* * **
3534951 GGGGATACTGCAACCCCGATTTTATTT-TCAAAACACCAATTTTCCTTTAATCGGGGATACTCCA
1 GGGGATACTCCAA-CCCGATTTTATTTCTCAAAACACCAATTCTCCTACAATCGGGGATACTCCA
* *
3535015 ACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCAGGGATACTCTAACCCCGTTAATCA
65 ACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAGGGATACTCCAACCCCGTTAATCA
* ** ** * **
3535080 TCGGGGATACTCCAATCCCGTTATTTTTGAGGGGATACTCCAACCCCCGGTTTTATTTCTTAAAC
130 TCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCCGGCTTTATTTCCAAAAC
*
3535145 ATCAATTTTTCATAATCAGGGATACTCCAACCCCATTATTCTCGA
195 ATCAATTTCTCATAATCAGGGATACTCCAACCCCATTATTCTCGA
* * * *
3535190 GGGGATACTCGAACCCCAGTTTTATTTCT-AAAACACCAATTCTCC-ACAATCGGGGATATTTCA
1 GGGGATACTCCAACCCGA-TTTTATTTCTCAAAACACCAATTCTCCTACAATCGGGGATACTCCA
* * * * * *
3535253 ACTTCGATTTTATTTTC-AAAACACTAGTTTTTCACAATC-GAGGATACTCCAACCTCGTTATTT
65 ACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAG-GGATACTCCAACCCCGTTA-AT
3535316 CATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAA-CCCCGGCTTTATTTCCAAA
128 CATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCCGGCTTTATTTCCAAA
* ** ** *
3535380 ATATTGATTTCTCATAATTGGGGATACTCCAACCCCGTTATT-TCCGA
193 ACATCAATTTCTCATAATCAGGGATACTCCAACCCCATTATTCT-CGA
*
3535427 GGGGATACTCCAATCCTGATTTTATTTC
1 GGGGATACTCCAA-CCCGATTTTATTTC
3535455 CTAATAATCG
Statistics
Matches: 225, Mismatches: 34, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
236 2 0.01
237 111 0.49
238 77 0.34
239 34 0.15
240 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (239 bp):
GGGGATACTCCAACCCGATTTTATTTCTCAAAACACCAATTCTCCTACAATCGGGGATACTCCAA
CTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAGGGATACTCCAACCCCGTTAATCAT
CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCCGGCTTTATTTCCAAAACA
TCAATTTCTCATAATCAGGGATACTCCAACCCCATTATTCTCGA
Found at i:3537208 original size:20 final size:20
Alignment explanation
Indices: 3537185--3537257 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
3537175 ACAATTCAAA
3537185 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
3537205 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
3537226 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
3537246 GTATCGATACAT
1 GTATCGATACAT
3537258 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:3537229 original size:21 final size:21
Alignment explanation
Indices: 3537203--3537278 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
3537193 ACATGTTGCA
3537203 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
3537224 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
3537244 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
3537265 ATGTATCGATACAT
1 ATGTATCGATACAT
3537279 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:3537236 original size:41 final size:41
Alignment explanation
Indices: 3537185--3537278 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
3537175 ACAATTCAAA
*
3537185 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
3537226 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
3537267 GTATCGATACAT
1 GTATCGATACAT
3537279 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:3537335 original size:13 final size:13
Alignment explanation
Indices: 3537317--3537342 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3537307 TACAGCAAGT
3537317 ATGTATCGATACA
1 ATGTATCGATACA
3537330 ATGTATCGATACA
1 ATGTATCGATACA
3537343 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3543064 original size:1 final size:1
Alignment explanation
Indices: 3543058--3543151 Score: 80
Period size: 1 Copynumber: 94.0 Consensus size: 1
3543048 AAATCTTCAC
* * ** * * *
3543058 TTTTTTTTTTTGTTTTTTTTTTTTTCTTTTTCCTTTTTTTTGTTTTGTTTTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** * * *
3543123 CCTTTTTTTTGTTTTGTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3543152 CCAATTGCCA
Statistics
Matches: 73, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.87
Consensus pattern (1 bp):
T
Found at i:3543104 original size:35 final size:35
Alignment explanation
Indices: 3543058--3543152 Score: 167
Period size: 34 Copynumber: 2.8 Consensus size: 35
3543048 AAATCTTCAC
3543058 TTTTTTT-TTTTGTTTTTTTTTTTTTCTTTTTCCT
1 TTTTTTTGTTTTGTTTTTTTTTTTTTCTTTTTCCT
3543092 TTTTTTTGTTTTG-TTTTTTTTTTTTCTTTTTCCT
1 TTTTTTTGTTTTGTTTTTTTTTTTTTCTTTTTCCT
*
3543126 TTTTTTTGTTTTGTTTTTTTCTTTTTC
1 TTTTTTTGTTTTGTTTTTTTTTTTTTC
3543153 CAATTGCCAT
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
34 41 0.71
35 17 0.29
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.86
Consensus pattern (35 bp):
TTTTTTTGTTTTGTTTTTTTTTTTTTCTTTTTCCT
Found at i:3551784 original size:15 final size:15
Alignment explanation
Indices: 3551764--3551794 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3551754 TAAAAATGTC
*
3551764 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
3551779 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
3551794 C
1 C
3551795 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:3553887 original size:20 final size:21
Alignment explanation
Indices: 3553808--3553886 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
3553798 AATGTCCAAA
*
3553808 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
3553828 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
3553853 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
3553873 TTGTATCGATACAT
1 ATGTATCGATACAT
3553887 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:3553891 original size:13 final size:13
Alignment explanation
Indices: 3553873--3553911 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3553863 ACATTTTTCT
3553873 TTGTATCGATACA
1 TTGTATCGATACA
3553886 TTGTATCGATACA
1 TTGTATCGATACA
*
3553899 CTGTATCGATACA
1 TTGTATCGATACA
3553912 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3556403 original size:20 final size:20
Alignment explanation
Indices: 3556380--3556452 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
3556370 ACAATTCAAA
3556380 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
3556400 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
3556421 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
3556441 GTATCGATACAT
1 GTATCGATACAT
3556453 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:3556424 original size:21 final size:21
Alignment explanation
Indices: 3556398--3556473 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
3556388 ACATGTTGCA
3556398 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
3556419 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
3556439 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
3556460 ATGTATCGATACAT
1 ATGTATCGATACAT
3556474 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:3556431 original size:41 final size:41
Alignment explanation
Indices: 3556380--3556473 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
3556370 ACAATTCAAA
*
3556380 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
3556421 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
3556462 GTATCGATACAT
1 GTATCGATACAT
3556474 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:3556530 original size:13 final size:13
Alignment explanation
Indices: 3556512--3556537 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3556502 TACAGCAAGT
3556512 ATGTATCGATACA
1 ATGTATCGATACA
3556525 ATGTATCGATACA
1 ATGTATCGATACA
3556538 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3557999 original size:4 final size:4
Alignment explanation
Indices: 3557990--3558022 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
3557980 TATTTTGAGG
*
3557990 TATT TATT TATT TATT TATT TATT GATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT T
3558023 GTTTTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:3564245 original size:55 final size:55
Alignment explanation
Indices: 3564180--3564641 Score: 662
Period size: 55 Copynumber: 8.4 Consensus size: 55
3564170 CTCCTTTCGC
* * **
3564180 CCTTT-AGTCCTCAAAGAGTAGGACACCTTTCAAAGCCAACACAAGTCAGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
3564234 CCTTTCAGTCCTCAAAGAGCAAGACACCTTTCAAATCCCACACAAGATGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
3564289 CCTTTCAGTCCACAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
3564344 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
3564399 CCTTTCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
3564454 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
3564509 -CTTCCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACGAGTTGCTGGCA
1 CCTT-TCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
3564564 -TTTTCCAGTCGTTAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
3564619 -CTTCCCAGTCCTCAAAGAGCAGG
1 CCTT-TCAGTCCTCAAAGAGCAGG
3564642 GCGCTCTCTC
Statistics
Matches: 370, Mismatches: 34, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
54 8 0.02
55 362 0.98
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (55 bp):
CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:3564454 original size:165 final size:164
Alignment explanation
Indices: 3564182--3565243 Score: 1201
Period size: 165 Copynumber: 6.5 Consensus size: 164
3564172 CCTTTCGCCC
* * **
3564182 TTTAGTCCTCAAAGAGTAGGACACCTTTCAAAGCCAACACAAGTCAGTGGCACCTTTCAGTCCTC
1 TTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
* * * *
3564247 AAAGAGCAAGACACCTTTCAAATCCCACACAAGATGGTGGCACCTTTCAGTCCACAAAGAGCAGG
66 AAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGG
3564312 ACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
131 ACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CT
*
3564347 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
1 TTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
* *
3564412 AAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGG
66 AAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGG
*
3564477 ACGCCTTTTAAAGCCCACACAAGTTGGTGGCACT
131 ACGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
** * * * *
3564511 TCCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACGAGTTGCTGGCA-TTTTCCAGTCG
1 T-TTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCC
* * *
3564575 TTAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGC
64 TCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGC
* * * * *
3564639 AGGGCG-C--T-----CTCTC-C---TT--TTGC-CC
128 AGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
3564661 TTTAGTCCTTAAAGAGCAGGACGCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
1 TTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
* * *
3564726 AAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGCTGGAACCTTTCAGTCCTCAAAGAGCAGG
66 AAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGG
* * *
3564791 GCACCTTTTAAAGCCCACACAAGTTGGTGGCACCT
131 ACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CT
*
3564826 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
1 TTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
* * * * * * *
3564891 GAAGAGTAGGACGCCTTTTAAAGCCCACATAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAACAG
66 AAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCAG
**
3564955 GACGCCTTTCAAAGCCCACATGAGTTGGTGGCA-T
130 GACGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * * * **
3564989 TTTCCGGTCTTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCATTTTTCAGTCC
1 TTT--AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
* * * *
3565054 TCGAAGAGCAGGACACCTTTTAAAGCCCGCACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGC
64 TCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGC
* *
3565118 AGGATGCTTTCTCTTTACCAAGCCCACACAAGTTGGTGGCACCT
128 AGGA--C--GC-CTTT-CAAAGCCCACACAAGTTGGTGGCA-CT
** * * ** * *
3565162 TCCAGTCCTCAAAAAGCAGGACGCCTTTCCTTTTCAAAGCCCACATGAGTTGGTGGCACTTTTTA
1 TTTAGTCCTCAAAGAGCAGGA---C--ACC-TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCA
3565227 GTCCTCAAAGAGCAGGA
60 GTCCTCAAAGAGCAGGA
3565244 TGCACTTTAT
Statistics
Matches: 768, Mismatches: 90, Indels: 66
0.83 0.10 0.07
Matches are distributed among these distances:
149 108 0.14
150 9 0.01
151 3 0.00
152 1 0.00
153 2 0.00
156 1 0.00
157 6 0.01
158 1 0.00
161 2 0.00
162 1 0.00
163 7 0.01
164 13 0.02
165 520 0.68
167 1 0.00
169 1 0.00
170 4 0.01
171 36 0.05
173 2 0.00
174 1 0.00
176 2 0.00
177 47 0.06
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (164 bp):
TTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
AAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGG
ACGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
Found at i:3564724 original size:55 final size:55
Alignment explanation
Indices: 3564659--3565243 Score: 655
Period size: 55 Copynumber: 10.4 Consensus size: 55
3564649 CTCCTTTTGC
*
3564659 CCTTT-AGTCCTTAAAGAGCAGGACGCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
3564713 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGCTGGAA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACAAGTTGGTGGCA
3564768 CCTTTCAGTCCTCAAAGAGCAGGGCAC-CTTTT-AAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCA-GG-ACGCTTTTCAAAGCCCACACAAGTTGGTGGCA
* *
3564823 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
3564878 CCTTTCAGTCCTCGAAGAGTAGGACGCCTTTT-AAAGCCCACATAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACG-CTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * **
3564933 -CTTCCCAGTCCTCAAAGAACAGGACGCCTTTCAAAGCCCACATGAGTTGGTGGCA
1 CCTT-TCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
3564988 -TTTTCCGGTCTTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTT-CAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACAAGTTGGTGGCA
** * * *
3565043 TTTTTCAGTCCTCGAAGAGCAGGACACCTTTT-AAAGCCCGCACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGAC-GCTTTTCAAAGCCCACACAAGTTGGTGGCA
* *
3565098 -TTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTACCAAGCCCACACAAGTTGGTGGCA
1 CCTTT-CAGTCCTCAAAGAGCAGGACGCTTT-TC---A--AAGCCCACACAAGTTGGTGGCA
* * **
3565159 CCTTCCAGTCCTCAAAAAGCAGGACGCCTTTCCTTTTCAAAGCCCACATGAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACG------CTTTTCAAAGCCCACACAAGTTGGTGGCA
* *
3565220 CTTTTTAGTCCTCAAAGAGCAGGA
1 CCTTTCAGTCCTCAAAGAGCAGGA
3565244 TGCACTTTAT
Statistics
Matches: 458, Mismatches: 47, Indels: 45
0.83 0.09 0.08
Matches are distributed among these distances:
53 2 0.00
54 26 0.06
55 320 0.70
56 18 0.04
57 2 0.00
59 1 0.00
61 80 0.17
62 2 0.00
63 1 0.00
66 2 0.00
67 4 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (55 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:3564743 original size:26 final size:25
Alignment explanation
Indices: 3564712--3564790 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 25
3564702 AGTTGGTGGC
3564712 ACCTTTCAGTCCTCAAAGAGCAGGA
1 ACCTTTCAGTCCTCAAAGAGCAGGA
* * * * *
3564737 CGCCTTTCAAAGCCCACACAAGTTGCTGGA
1 -ACCTTTC--AGTCCTCA-AAG-AGCAGGA
3564767 ACCTTTCAGTCCTCAAAGAGCAGG
1 ACCTTTCAGTCCTCAAAGAGCAGG
3564791 GCACCTTTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 9
0.67 0.17 0.16
Matches are distributed among these distances:
25 4 0.10
26 9 0.23
27 6 0.15
28 6 0.15
29 9 0.23
30 5 0.13
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (25 bp):
ACCTTTCAGTCCTCAAAGAGCAGGA
Found at i:3564785 original size:149 final size:149
Alignment explanation
Indices: 3564515--3564792 Score: 407
Period size: 149 Copynumber: 1.9 Consensus size: 149
3564505 GGCACTTCCC
* * * *
3564515 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACGAGTTGCTGGCATTTTCCAGTCGTTAAA
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGCTGGCACTTTCCAGTCCTCAAA
* * *
3564580 GAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGGCG
66 GAGCAGGACACCTTTCAAAGCCCACACAAGTTGCTGGAACTTCCCAGTCCTCAAAGAGCAGGGCG
3564645 CTCTCTCCTTTTGCCCTTT
131 CTCTCTCCTTTTGCCCTTT
* * * *
3564664 AGTCCTTAAAGAGCAGGACGCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGCTGGCA-CTTTCCAGTCCTCAA
* *
3564728 AGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGCTGGAACCTT-TCAGTCCTCAAAGAGCAGGG
65 AGAGCAGGACACCTTTCAAAGCCCACACAAGTTGCTGGAA-CTTCCCAGTCCTCAAAGAGCAGGG
3564792 C
129 C
3564793 ACCTTTTAAA
Statistics
Matches: 114, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
149 108 0.95
150 6 0.05
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (149 bp):
AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGCTGGCACTTTCCAGTCCTCAAA
GAGCAGGACACCTTTCAAAGCCCACACAAGTTGCTGGAACTTCCCAGTCCTCAAAGAGCAGGGCG
CTCTCTCCTTTTGCCCTTT
Found at i:3566093 original size:19 final size:21
Alignment explanation
Indices: 3566050--3566099 Score: 77
Period size: 19 Copynumber: 2.5 Consensus size: 21
3566040 TTCAATAATT
*
3566050 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
3566071 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
3566090 TGTATCGATA
1 TGTATCGATA
3566100 TAGTGTATCG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 12 0.43
20 4 0.14
21 12 0.43
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:3566172 original size:13 final size:13
Alignment explanation
Indices: 3566154--3566179 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3566144 ATTTGTAGGA
3566154 TGTATCGATACAT
1 TGTATCGATACAT
3566167 TGTATCGATACAT
1 TGTATCGATACAT
3566180 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3568606 original size:51 final size:51
Alignment explanation
Indices: 3568539--3568723 Score: 228
Period size: 51 Copynumber: 3.6 Consensus size: 51
3568529 TTAAGTTTCT
**
3568539 CAATTTTTCATTATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACAC
* * *
3568590 TAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACAC
* ** * * * *
3568641 CAATTTTCCTTTAATTGGGGATACT-CAAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCT-CGGTTTTATTT-CTAAAACAC
3568694 CAATTTTTCACAATCGGGGATACTCCAACC
1 CAATTTTTCACAATCGGGGATACTCCAACC
3568724 ACATCAATCA
Statistics
Matches: 110, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
51 57 0.52
52 34 0.31
53 19 0.17
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACAC
Found at i:3568816 original size:107 final size:107
Alignment explanation
Indices: 3568657--3568861 Score: 288
Period size: 107 Copynumber: 1.9 Consensus size: 107
3568647 TCCTTTAATT
*
3568657 GGGGATACTCAAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
1 GGGGATACTCAAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
3568722 CCACATCAATCATC-GGGGATACTCCAACCCCGTTATTTTCGA
66 CCACATCAATC-TCAGGGGATACTCCAACCCCGTTATTTTCGA
* * * *
3568764 GGGGATACTCCAACCCCTGATTTTATTT-CTAAAACATCAATTTTTCATAATCGGGGATACTCCA
1 GGGGATACTCAAACCCC-GATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCA
* * * *
3568828 ACCCCATTATTCTCGAGGGGATACTCGAACCCCG
65 ACCACATCAATCTC-AGGGGATACTCCAACCCCG
3568862 GTTTTATTTC
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
106 2 0.02
107 57 0.66
108 27 0.31
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (107 bp):
GGGGATACTCAAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
CCACATCAATCTCAGGGGATACTCCAACCCCGTTATTTTCGA
Found at i:3568946 original size:51 final size:51
Alignment explanation
Indices: 3568844--3568960 Score: 135
Period size: 51 Copynumber: 2.3 Consensus size: 51
3568834 TTATTCTCGA
* * * *
3568844 GGGGATACTCGAACCCCGGTTTTATTTCTAAAACACCAATTCTCCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTCCACAATC
* * * * * *
3568895 GGGGATATTCCAACTCCGATTTTATTTCCAAAACACTAGTTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTCCACAATC
*
3568946 GAGGATACTCCAACC
1 GGGGATACTCCAACC
3568961 TCGTTATTTC
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTCCACAATC
Found at i:3568979 original size:28 final size:30
Alignment explanation
Indices: 3568943--3569019 Score: 99
Period size: 28 Copynumber: 2.7 Consensus size: 30
3568933 GTTTTTCACA
* * *
3568943 ATCGAGGATACTCCAACCTCGTTA-TTTC-
1 ATCGGGGATACTCCAACCCCGTTACCTTCG
3568971 ATCGGGGATACTCCAACCCCGTTACCTTCG
1 ATCGGGGATACTCCAACCCCGTTACCTTCG
3569001 A--GGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
3569020 GCTTTATTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 40 0.91
29 3 0.07
30 1 0.02
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (30 bp):
ATCGGGGATACTCCAACCCCGTTACCTTCG
Found at i:3569031 original size:107 final size:107
Alignment explanation
Indices: 3568895--3569098 Score: 259
Period size: 107 Copynumber: 1.9 Consensus size: 107
3568885 CTCCATAATC
* * * *
3568895 GGGGATATTCCAACTCCGATTTTATTTCCAAAACACTAG-TTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACA-TAGATTTCTCACAATCGAGGATACTCCAA
* *
3568959 CCTCGTTATTTCAT-CGGGGATACTCCAACCCCGTTACCTTCGA
65 CCCCGTTATTTC-TGAGGGGATACTCCAACCCCGTTACCTTCGA
* * * * * *
3569002 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACATAGATTTCTCACAATCGAGGATACTCCAAC
*
3569067 CCCGTTATTTCTGAGGGGATACTCCAATCCCG
66 CCCGTTATTTCTGAGGGGATACTCCAACCCCG
3569099 ATTTTATTTC
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
106 3 0.04
107 79 0.96
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.30
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAACATAGATTTCTCACAATCGAGGATACTCCAAC
CCCGTTATTTCTGAGGGGATACTCCAACCCCGTTACCTTCGA
Found at i:3569057 original size:79 final size:78
Alignment explanation
Indices: 3568973--3569207 Score: 285
Period size: 79 Copynumber: 3.0 Consensus size: 78
3568963 GTTATTTCAT
* *
3568973 CGGGGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTA-TTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATAT
*
3569038 TGATTTCTCATAAT
65 TGATTTCTCATAAC
* * * *
3569052 TGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAATCCCGATTTTATTTCC-TAATAA
1 CGGGGATACTCCAACCCCGTTATTTC-GAGGGGATACTCCAACCCCGGTTTTATTTCCAAAAT-A
* * *
3569116 TCGATTTTTCACAAC
64 TTGATTTCTCATAAC
* *
3569131 CGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCC-GTTATTATCTCCAAAATA
1 CGGGGATACTCCAACCCCGTTA-TTTCGAGGGGATACTCCAACCCCGGTT-TTATTTCCAAAATA
*
3569195 TTAAATTTCTCAT
64 TT-GATTTCTCAT
3569208 CGGGAAATAT
Statistics
Matches: 130, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 8 0.06
79 108 0.83
80 14 0.11
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.31
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATATT
GATTTCTCATAAC
Found at i:3569090 original size:237 final size:239
Alignment explanation
Indices: 3568605--3569108 Score: 719
Period size: 237 Copynumber: 2.1 Consensus size: 239
3568595 TTTCACAATC
* * * *
3568605 GGGGATACTCCAACCCCGGTTTTATTTTTAAAACACCAATTTTCCTTTAATTGGGGATACTCAAA
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTCTCCTATAATCGGGGATACTCAAA
*
3568670 CTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAACCACATCAATCAT
66 CTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCACATCAATCAT
** * *
3568735 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCTGATTTTATTTCTAAAACA
131 CGGGGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCCTGACTTTATTTCCAAAACA
*
3568800 TCAATTTTTCATAATCGGGGATACTCCAACCCCATTATTCTCGA
196 TCAATTTCTCATAATCGGGGATACTCCAACCCCATTATTCTCGA
* * *
3568844 GGGGATACTCGAACCCCGGTTTTATTTCTAAAACACCAATTCTCC-ATAATCGGGGATATTCCAA
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTCTCCTATAATCGGGGATACTCAAA
* * * * * *
3568908 CTCCGATTTTATTTCC-AAAACACTAGTTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCA
66 CTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCACATCA-ATCA
* *
3568972 TCGGGGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCC-GGCTTTATTTCCAAAAT
130 TCGGGGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCCTGACTTTATTTCCAAAAC
** * *
3569036 ATTGATTTCTCATAATTGGGGATACTCCAACCCCGTTATT-TCTGA
195 ATCAATTTCTCATAATCGGGGATACTCCAACCCCATTATTCTC-GA
* *
3569081 GGGGATACTCCAATCCCGATTTTATTTC
1 GGGGATACTCCAACCCCGGTTTTATTTC
3569109 CTAATAATCG
Statistics
Matches: 235, Mismatches: 28, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
236 2 0.01
237 112 0.48
238 79 0.34
239 42 0.18
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (239 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTCTCCTATAATCGGGGATACTCAAA
CTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCACATCAATCAT
CGGGGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCCTGACTTTATTTCCAAAACA
TCAATTTCTCATAATCGGGGATACTCCAACCCCATTATTCTCGA
Found at i:3574092 original size:52 final size:51
Alignment explanation
Indices: 3574001--3574114 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 51
3573991 CTTACCAAAA
* ** * * *
3574001 TTTATCATCTTTCATTCTAATGTTGCTGACCTTGGATCAGCATGTTGGCACC
1 TTTATCATCTTTAAAACTAATGTTGCTGACCTCGAATCAGCACGTTGGCA-C
* *
3574053 TTTCTCATCTTTAAAACTAATGTTGCT-AGCCTCGAATCAGCACGTTGGTAC
1 TTTATCATCTTTAAAACTAATGTTGCTGA-CCTCGAATCAGCACGTTGGCAC
3574104 TTTATCATCTT
1 TTTATCATCTT
3574115 GAAATTCAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
51 12 0.23
52 40 0.77
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (51 bp):
TTTATCATCTTTAAAACTAATGTTGCTGACCTCGAATCAGCACGTTGGCAC
Found at i:3574900 original size:20 final size:20
Alignment explanation
Indices: 3574875--3574940 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
3574865 GCCAAGGAAA
3574875 TGTATCGATACATTGATCTT
1 TGTATCGATACATTGATCTT
3574895 TGTATCGATAC----A---T
1 TGTATCGATACATTGATCTT
3574908 TGTATCGATACATTGATCTT
1 TGTATCGATACATTGATCTT
3574928 TGTATCGATACAT
1 TGTATCGATACAT
3574941 GCAGGCAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.31
16 1 0.03
17 1 0.03
20 25 0.64
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTGATCTT
Found at i:3574912 original size:13 final size:13
Alignment explanation
Indices: 3574894--3574922 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3574884 ACATTGATCT
3574894 TTGTATCGATACA
1 TTGTATCGATACA
3574907 TTGTATCGATACA
1 TTGTATCGATACA
3574920 TTG
1 TTG
3574923 ATCTTTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3574917 original size:33 final size:33
Alignment explanation
Indices: 3574875--3574940 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
3574865 GCCAAGGAAA
3574875 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCTTTGTATCGATACAT
3574908 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCTTTGTATCGATACAT
3574941 GCAGGCAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTGATCTTTGTATCGATACAT
Found at i:3578155 original size:52 final size:52
Alignment explanation
Indices: 3578089--3578375 Score: 203
Period size: 52 Copynumber: 5.5 Consensus size: 52
3578079 ATTCTTTACA
* *
3578089 AAGTCTAATGTCGCTGGCCCTGAATCAGCATATTAACACTT-TCTTCA-TCTTT
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTAACACTTAT-TTCATTC-TT
* * **
3578141 AAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACTTATTTCATTCTT
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTAACACTTATTTCATTCTT
* * * * *
3578193 AAGTCTAGTGTTGCTGGCCTTGAATCAGCACACTAGCACATT-TGTCA-TCTT
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTAACAC-TTATTTCATTCTT
* * * * * ** * *
3578244 AAGTTTGATGTTGTTGGCCTTAAATCAATACATTGGA-ACTTATCTT-ATTTTT
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATT-AACACTTAT-TTCATTCTT
* * * ** *
3578296 AAATCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTT-TGTCA-TCTTT
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTAACA-CTTATTTCATTC-TT
* *
3578348 AAGTCTAATATCGCTTGCCTTGAATCAG
1 AAGTCTAATGTCGCTGGCCTTGAATCAG
3578376 TATATCGACA
Statistics
Matches: 183, Mismatches: 41, Indels: 22
0.74 0.17 0.09
Matches are distributed among these distances:
50 2 0.01
51 37 0.20
52 136 0.74
53 8 0.04
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (52 bp):
AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTAACACTTATTTCATTCTT
Found at i:3578285 original size:103 final size:104
Alignment explanation
Indices: 3578095--3578351 Score: 286
Period size: 103 Copynumber: 2.5 Consensus size: 104
3578085 TACAAAGTCT
* * * * * * *** * *
3578095 AATGTCGCTGGCCCTGAATCAGCATATTAACAC-TTTCTTCATCTTTAAGTCCAATGTCGCTGGC
1 AATGTTGCTGGCCTTGAATCAGCACACTAGCACATTT-GTCATCTTTAAGTTTGATGTTGTTGGC
* * * *
3578159 CTTGAATCAACACATTGGCACTTAT-TTCATTCTTAAGTCT
65 CTTAAATCAACACATTGGAACTTATCTT-ATTCTTAAATCC
*
3578199 AGTGTTGCTGGCCTTGAATCAGCACACTAGCACATTTGTCATC-TTAAGTTTGATGTTGTTGGCC
1 AATGTTGCTGGCCTTGAATCAGCACACTAGCACATTTGTCATCTTTAAGTTTGATGTTGTTGGCC
* *
3578263 TTAAATCAATACATTGGAACTTATCTTATTTTTAAATCC
66 TTAAATCAACACATTGGAACTTATCTTATTCTTAAATCC
* * *
3578302 AATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGT
1 AATGTTGCTGGCCTTGAATCAGCACACTAGCACATTTGTCATCTTTAAGT
3578352 CTAATATCGC
Statistics
Matches: 128, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
103 85 0.66
104 40 0.31
105 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (104 bp):
AATGTTGCTGGCCTTGAATCAGCACACTAGCACATTTGTCATCTTTAAGTTTGATGTTGTTGGCC
TTAAATCAACACATTGGAACTTATCTTATTCTTAAATCC
Found at i:3578463 original size:52 final size:52
Alignment explanation
Indices: 3578406--3578518 Score: 118
Period size: 52 Copynumber: 2.2 Consensus size: 52
3578396 TCCTAAGCTC
* * * * * *
3578406 AATGTCACTGATCTTGAATCAGCACACTGGCGCTCTTCTCATCTTCAAGTCT
1 AATGTCACTGACCATGAATCAGCACAATGGCACTCTTCGCATCTTCAAGCCT
* * * * *
3578458 AATGTCGCTGGCCATGAATTAGCACAATGGCATTCTTCGCATCTTTAAGCCT
1 AATGTCACTGACCATGAATCAGCACAATGGCACTCTTCGCATCTTCAAGCCT
*
3578510 AATATCACT
1 AATGTCACT
3578519 AGCCTTGAAT
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (52 bp):
AATGTCACTGACCATGAATCAGCACAATGGCACTCTTCGCATCTTCAAGCCT
Found at i:3578528 original size:52 final size:52
Alignment explanation
Indices: 3578418--3578530 Score: 127
Period size: 52 Copynumber: 2.2 Consensus size: 52
3578408 TGTCACTGAT
* * * * * * *
3578418 CTTGAATCAGCACACTGGCGCTCTTCTCATCTTCAAGTCTAATGTCGCTGGC
1 CTTGAATCAGCACAATGGCACTCTTCGCATCTTCAAGCCTAATATCACTAGC
* * * *
3578470 CATGAATTAGCACAATGGCATTCTTCGCATCTTTAAGCCTAATATCACTAGC
1 CTTGAATCAGCACAATGGCACTCTTCGCATCTTCAAGCCTAATATCACTAGC
3578522 CTTGAATCA
1 CTTGAATCA
3578531 ACATATTGGC
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (52 bp):
CTTGAATCAGCACAATGGCACTCTTCGCATCTTCAAGCCTAATATCACTAGC
Found at i:3578623 original size:61 final size:61
Alignment explanation
Indices: 3578526--3578664 Score: 167
Period size: 61 Copynumber: 2.3 Consensus size: 61
3578516 ACTAGCCTTG
* * *
3578526 AATCAACATATTGGCACCTTTATCATTCTCGTCATCTTTAAG-CCAGATATCGTT-AGTCGTA
1 AATCAACATATTGGCATCTTTATCATTCTCGACATCTTTAAGTCCA-ATATCGTTGA-CCGTA
* * * *
3578587 AATCAACATATTGGCATCTTTATCATTTTTC-ACATCTTTAAGTCCAATATTGTTGACCTTG
1 AATCAACATATTGGCATCTTTATCA-TTCTCGACATCTTTAAGTCCAATATCGTTGACCGTA
3578648 AATCAACATATTGGCAT
1 AATCAACATATTGGCAT
3578665 TTTTCTTATC
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
61 60 0.88
62 8 0.12
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (61 bp):
AATCAACATATTGGCATCTTTATCATTCTCGACATCTTTAAGTCCAATATCGTTGACCGTA
Found at i:3579334 original size:21 final size:20
Alignment explanation
Indices: 3579308--3579400 Score: 82
Period size: 21 Copynumber: 4.7 Consensus size: 20
3579298 TACTACAGTT
3579308 TGTATCGATACAAATAGTAAA
1 TGTATCGATACAAA-AGTAAA
* **
3579329 TGTATCGATACATAAGT-TT
1 TGTATCGATACAAAAGTAAA
**
3579348 TGTATCGATACAAACAACAAA
1 TGTATCGATACAAA-AGTAAA
* **
3579369 TGTATCGATACATAAGT-TT
1 TGTATCGATACAAAAGTAAA
3579388 TGTATCGATACAA
1 TGTATCGATACAA
3579401 TGTATCGATA
Statistics
Matches: 56, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
19 25 0.45
20 5 0.09
21 26 0.46
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (20 bp):
TGTATCGATACAAAAGTAAA
Found at i:3579353 original size:19 final size:19
Alignment explanation
Indices: 3579306--3579431 Score: 102
Period size: 19 Copynumber: 6.7 Consensus size: 19
3579296 ATTACTACAG
*
3579306 TTTGTATCGATACAAATAGT
1 TTTGTATCGATACATA-AGT
**
3579326 AAATGTATCGATACATAAGT
1 -TTTGTATCGATACATAAGT
* **
3579346 TTTGTATCGATACAAACAACA
1 TTTGTATCGATAC--ATAAGT
**
3579367 AATGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
3579386 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
3579401 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
3579418 TTTGTATCGATACA
1 TTTGTATCGATACA
3579432 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
13 11 0.13
15 2 0.02
17 2 0.02
19 37 0.45
20 3 0.04
21 27 0.33
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:3579358 original size:40 final size:37
Alignment explanation
Indices: 3579306--3579432 Score: 165
Period size: 40 Copynumber: 3.4 Consensus size: 37
3579296 ATTACTACAG
3579306 TTTGTATCGATACAAATAGTAAATGTATCGATACATAAGT
1 TTTGTATCGATACAAA-A--AAATGTATCGATACATAAGT
3579346 TTTGTATCGATACAAACAACAAATGTATCGATACATAAGT
1 TTTGTATCGATAC-AA-AA-AAATGTATCGATACATAAGT
3579386 TTTGTATCGATAC-----AATGTATCGATACATAAGT
1 TTTGTATCGATACAAAAAAATGTATCGATACATAAGT
3579418 TTTGTATCGATACAA
1 TTTGTATCGATACAA
3579433 TGTATCGATA
Statistics
Matches: 82, Mismatches: 1, Indels: 14
0.85 0.01 0.14
Matches are distributed among these distances:
32 32 0.39
40 46 0.56
41 3 0.04
42 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (37 bp):
TTTGTATCGATACAAAAAAATGTATCGATACATAAGT
Found at i:3579406 original size:13 final size:13
Alignment explanation
Indices: 3579388--3579445 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
3579378 ACATAAGTTT
3579388 TGTATCGATACAA
1 TGTATCGATACAA
3579401 TGTATCGATACATAA
1 TGTATCGATAC--AA
3579416 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
3579433 TGTATCGATACAA
1 TGTATCGATACAA
3579446 AACTACCCTG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.62
15 2 0.05
17 2 0.05
19 11 0.28
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3579408 original size:32 final size:32
Alignment explanation
Indices: 3579367--3579444 Score: 156
Period size: 32 Copynumber: 2.4 Consensus size: 32
3579357 ACAAACAACA
3579367 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTTTTGTATCGATAC
3579399 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTTTTGTATCGATAC
3579431 AATGTATCGATACA
1 AATGTATCGATACA
3579445 AAACTACCCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTTTTGTATCGATAC
Found at i:3579508 original size:20 final size:19
Alignment explanation
Indices: 3579483--3579566 Score: 71
Period size: 20 Copynumber: 4.2 Consensus size: 19
3579473 GCATCAATAC
*
3579483 ACATTTACAATTATATCGAT
1 ACATTT-CAATTGTATCGAT
* *
3579503 ACATTTCTCATTGTATCAAT
1 ACATTTC-AATTGTATCGAT
3579523 ACATTATTCAA-TGTATCGAT
1 ACA-T-TTCAATTGTATCGAT
* *
3579543 ACATTATTAAATGTATCGAT
1 ACATT-TCAATTGTATCGAT
3579563 ACAT
1 ACAT
3579567 GCAGGCAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
18 1 0.02
19 5 0.09
20 42 0.79
21 2 0.04
22 3 0.06
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.40
Consensus pattern (19 bp):
ACATTTCAATTGTATCGAT
Found at i:3583343 original size:155 final size:155
Alignment explanation
Indices: 3583048--3583899 Score: 782
Period size: 155 Copynumber: 5.5 Consensus size: 155
3583038 ATCATTGTTA
* * * * * * *
3583048 TTTATCCTTTTTAAGTCCTTTAGGGTTAACGGGATACTTTCACGTCGAAGGTATACCC-ATTGAG
1 TTTATCCTTTTTAAGTCTTTTAGGGGTATCAGGATACTTTCACATCGAAGGTATCCCCTA-AG-G
* * * * *
3583112 GCATTTTCGTAATTTTTTAGAA-CAAACTCCTAAGTCATCACCGAGTTCGCTTTTATGCCGAAGG
64 GAATTTTCGTAATTTTTTAGAATC-GAGTCCTAGGTCATCACCGAGTCCGCTTTTATGCCGAAGG
* *
3583176 TGGGCATTTAGGATAGGTTCATCCCATT
128 TAGGTATTTAGGATAGGTTCATCCCATT
* * * ** *
3583204 TTTATCCTTTTTAGGTCTTTTAGGGTTA-CAGGGATACTTTTATGTCGAGGGTATCCCCTAAGGG
1 TTTATCCTTTTTAAGTCTTTTAGGGGTATCA-GGATACTTTCACATCGAAGGTATCCCCTAAGGG
* * * **
3583268 AATATTCATAATTTTTTTA-AATTGAGTCCTAGGTCATCGTCGAGTCCGCTTTTATGCCGAAGGT
65 AATTTTCGTAA-TTTTTTAGAATCGAGTCCTAGGTCATCACCGAGTCCGCTTTTATGCCGAAGGT
3583332 AGGTATTTAGGATAGGTTCATCCCATT
129 AGGTATTTAGGATAGGTTCATCCCATT
* * * * * *
3583359 TCTATCCTTTTTAAGTCTTTTAGGGGTATTA-GATACTTTCACATCAAAGGTATCCCTTAGGGGT
1 TTTATCCTTTTTAAGTCTTTTAGGGGTATCAGGATACTTTCACATCGAAGGTATCCCCTAAGGGA
* * ** * * *
3583423 ATTTTTGTAATTTTTTAGAATCGAGTCTTAGGTTTTCACCGAGTCTGCTTTTATGCCAAAGGTAA
66 ATTTTCGTAATTTTTTAGAATCGAGTCCTAGGTCATCACCGAGTCCGCTTTTATGCCGAAGGTAG
* *
3583488 GTATTTAAGATAGGTTCATCCCATC
131 GTATTTAGGATAGGTTCATCCCATT
* * * * * * *
3583513 TGTATCCTTTTTAAGCCCTTTAGGGTTACCAAGATACTTTCACATCGAAGGTATCCCCTAAGGGC
1 TTTATCCTTTTTAAGTCTTTTAGGGGTATCAGGATACTTTCACATCGAAGGTATCCCCTAAGGGA
* * * * * *
3583578 ATTTTCGTAACTTTTTAGAATCGAATCTTAGGTTATCACCG-GTCTGCTTTTATGCCGAAGGTGG
66 ATTTTCGTAATTTTTTAGAATCGAGTCCTAGGTCATCACCGAGTCCGCTTTTATGCCGAAGGTAG
*
3583642 GTATTTAGGATAAGTTCATCCC-TT
131 GTATTTAGGATAGGTTCATCCCATT
* * ** * *
3583666 TTATAGTCCTTTTTAAGT-TCTTTAGGGGTATCGGGATATTTTCATGTCGAAAGTAT-CTCTAAG
1 TT-TA-TCCTTTTTAAGTCT-TTTAGGGGTATCAGGATACTTTCACATCGAAGGTATCCCCTAA-
* * * * *
3583729 GGGCATTTTTGTAATTTTTCAGAATCGAGTCTTAGG-CTATAACCGAGTCCGC---TATGCCGAA
62 GGGAATTTTCGTAATTTTTTAGAATCGAGTCCTAGGTC-ATCACCGAGTCCGCTTTTATGCCGAA
* * *
3583790 GATGGGTATTTAGGATAGGTTCTTCCCATCT
126 GGTAGGTATTTAGGATAGGTTCATCCCAT-T
* * * * * *
3583821 ATAATCATTTTTAAGTGC-TTTAGAGGTATC-GGGTA-TTTCTACTTCGAAGGTATCCCCTAAGG
1 TTTATCCTTTTTAAGT-CTTTTAGGGGTATCAGGATACTTTC-ACATCGAAGGTATCCCCTAAGG
* **
3583883 GCATTTTCAAAATTTTT
64 GAATTTTCGTAATTTTT
3583900 CTTGAACTTA
Statistics
Matches: 577, Mismatches: 100, Indels: 42
0.80 0.14 0.06
Matches are distributed among these distances:
151 4 0.01
152 30 0.05
153 69 0.12
154 167 0.29
155 243 0.42
156 63 0.11
157 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.38
Consensus pattern (155 bp):
TTTATCCTTTTTAAGTCTTTTAGGGGTATCAGGATACTTTCACATCGAAGGTATCCCCTAAGGGA
ATTTTCGTAATTTTTTAGAATCGAGTCCTAGGTCATCACCGAGTCCGCTTTTATGCCGAAGGTAG
GTATTTAGGATAGGTTCATCCCATT
Found at i:3583679 original size:309 final size:308
Alignment explanation
Indices: 3583050--3583899 Score: 900
Period size: 309 Copynumber: 2.8 Consensus size: 308
3583040 CATTGTTATT
* * * * *
3583050 TATCCTTTTTAAGTCCTTTAGGGTTAACGGGATACTTTCACGTCGAAGGTATACCCATT-GAGGC
1 TATCCTTTTTAAGTCTTTTAGGGGT-ATGGGATACTTTCACGTCAAAGGTAT-CCC-TTAGGGGC
* * * * * *
3583114 ATTTTCGTAATTTTTTAGAA-CAAACTCCTAAGTCATCACCGAGT-TCGCTTTTATGCCGAAGGT
63 ATTTTTGTAATTTTTTAGAATC-GAGTCTTAGGTTATCACCGAGTCT-GCTTTTATGCCGAAGGT
* * * * *
3583177 GGGCATTTAGGATAGGTTCATCCCATTTTTATCCTTTTTAGGTCTTTTAGGGTTACAGGGATACT
126 GGGTATTTAGGATAGGTTCATCCCATCTATATCCTTTTTAAGTCCTTTAGGGTTACA-GGATACT
* ** * * * * * * *
3583242 TTTATGTCGAGGGTATCCCCTAAGGGAATATTCATAATTTTTTTAAATTGAGTCCTAGGTCATCG
190 TTCACATCGAAGGTATCCCCTAAGGGCATTTTCATAATCTTTTTAAATCGAATCCTAGGTCATCA
* * *
3583307 TCGAGTCCGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCATCCCATTTC
255 CCGAGTCCGCTTTTATGCCGAAGGTAGGTATTTAGGATAAGTTCATCCCATTTA
** * *
3583361 TATCCTTTTTAAGTCTTTTAGGGGTATTAGATACTTTCACATCAAAGGTATCCCTTAGGGGTATT
1 TATCCTTTTTAAGTCTTTTAGGGGTATGGGATACTTTCACGTCAAAGGTATCCCTTAGGGGCATT
* * **
3583426 TTTGTAATTTTTTAGAATCGAGTCTTAGGTTTTCACCGAGTCTGCTTTTATGCCAAAGGTAAGTA
66 TTTGTAATTTTTTAGAATCGAGTCTTAGGTTATCACCGAGTCTGCTTTTATGCCGAAGGTGGGTA
* * * *
3583491 TTTAAGATAGGTTCATCCCATCTGTATCCTTTTTAAGCCCTTTAGGGTTACCAAGATACTTTCAC
131 TTTAGGATAGGTTCATCCCATCTATATCCTTTTTAAGTCCTTTAGGGTTA-CAGGATACTTTCAC
* * *
3583556 ATCGAAGGTATCCCCTAAGGGCATTTTCGTAA-CTTTTTAGAATCGAATCTTAGGTTATCACCG-
195 ATCGAAGGTATCCCCTAAGGGCATTTTCATAATCTTTTTA-AATCGAATCCTAGGTCATCACCGA
* * *
3583619 GTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAAGTTCATCCCTTTTA
259 GTCCGCTTTTATGCCGAAGGTAGGTATTTAGGATAAGTTCATCCCATTTA
* * * *
3583669 TAGTCCTTTTTAAGT-TCTTTAGGGGTATCGGGATATTTTCATGTCGAAA-GTATCTCTAAGGGG
1 TA-TCCTTTTTAAGTCT-TTTAGGGGTAT-GGGATACTTTCACGTC-AAAGGTATCCCTTAGGGG
* * * * *
3583732 CATTTTTGTAATTTTTCAGAATCGAGTCTTAGGCTATAACCGAGTCCGC---TATGCCGAAGATG
62 CATTTTTGTAATTTTTTAGAATCGAGTCTTAGGTTATCACCGAGTCTGCTTTTATGCCGAAGGTG
* * * *
3583794 GGTATTTAGGATAGGTTCTTCCCATCTATAATCATTTTTAAGTGCTTTAGAGG-TATC-GGGTA-
127 GGTATTTAGGATAGGTTCATCCCATCTAT-ATCCTTTTTAAGTCCTTTAG-GGTTA-CAGGATAC
* *
3583856 TTTCTACTTCGAAGGTATCCCCTAAGGGCATTTTCAAAAT-TTTT
189 TTTC-ACATCGAAGGTATCCCCTAAGGGCATTTTCATAATCTTTT
3583900 CTTGAACTTA
Statistics
Matches: 451, Mismatches: 75, Indels: 30
0.81 0.13 0.05
Matches are distributed among these distances:
306 4 0.01
307 73 0.16
308 76 0.17
309 181 0.40
310 91 0.20
311 26 0.06
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (308 bp):
TATCCTTTTTAAGTCTTTTAGGGGTATGGGATACTTTCACGTCAAAGGTATCCCTTAGGGGCATT
TTTGTAATTTTTTAGAATCGAGTCTTAGGTTATCACCGAGTCTGCTTTTATGCCGAAGGTGGGTA
TTTAGGATAGGTTCATCCCATCTATATCCTTTTTAAGTCCTTTAGGGTTACAGGATACTTTCACA
TCGAAGGTATCCCCTAAGGGCATTTTCATAATCTTTTTAAATCGAATCCTAGGTCATCACCGAGT
CCGCTTTTATGCCGAAGGTAGGTATTTAGGATAAGTTCATCCCATTTA
Found at i:3600981 original size:10 final size:10
Alignment explanation
Indices: 3600944--3600991 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
3600934 CCTCCGCAAA
3600944 AAAAAAAAAG
1 AAAAAAAAAG
3600954 AAAAGAAAGAAG
1 AAAA-AAA-AAG
*
3600966 AAAAAAAAAT
1 AAAAAAAAAG
* *
3600976 AAAAAACAAC
1 AAAAAAAAAG
3600986 AAAAAA
1 AAAAAA
3600992 GGTCCGGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 20 0.61
11 6 0.18
12 7 0.21
ACGTcount: A:0.85, C:0.04, G:0.08, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:3601687 original size:13 final size:13
Alignment explanation
Indices: 3601669--3601694 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3601659 TACAGCAAGT
3601669 ATGTATCGATACA
1 ATGTATCGATACA
3601682 ATGTATCGATACA
1 ATGTATCGATACA
3601695 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3603953 original size:21 final size:21
Alignment explanation
Indices: 3603920--3603964 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3603910 TTGCAAGTTG
*
3603920 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
3603942 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
3603962 AAA
1 AAA
3603965 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:3606556 original size:28 final size:28
Alignment explanation
Indices: 3606481--3606568 Score: 115
Period size: 29 Copynumber: 3.1 Consensus size: 28
3606471 TGTTCCTCAC
*
3606481 CCTTCAAAAGCCCACAAGTCAGTGGCAT
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
* * *
3606509 CTTTTCTAAAGCCCACAAGTTAGTGGCAA
1 C-CTTCAAAAGCCCACAAGTCAGTGGCAA
*
3606538 CCTTCAAAAGTCCACAAGTCAGTGGC-A
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
3606565 CCTT
1 CCTT
3606569 TCTTCTTTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
27 5 0.10
28 22 0.43
29 24 0.47
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
CCTTCAAAAGCCCACAAGTCAGTGGCAA
Found at i:3606804 original size:102 final size:101
Alignment explanation
Indices: 3606545--3606874 Score: 439
Period size: 102 Copynumber: 3.2 Consensus size: 101
3606535 CAACCTTCAA
* * * * *
3606545 AAGTCCACAAGTCAGTGGCACCTTTCTTCTTTTTAAAGCCCACCACTTTGTGGCACTCTTTTTCC
1 AAGTCCACAACTCTGTGGCACCTTT-TTCCTTTT-AAGCCCACAACTTCGTGGCACTCTTTTTCC
3606610 TTTTAAGCCCACAACTCCGTGGCAC-CTTTCTTCTTTTT
64 TTTTAAGCCCACAACTCCGTGGCACTCTTT-TTCTTTTT
* * *
3606648 AAAG-CCGACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCATAACTCCATGGCACTCTTTTTC
1 -AAGTCC-ACAACTCTGTGGCAC-CTTTTTCCTTTTAAGCCCACAACTTCGTGGCACTCTTTTTC
* * * *
3606712 CTTTTAAGCCTATAACTCCGTGGCACTCTTTTTCCTCTT
63 CTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* *
3606751 AAGTCCACAACTCTGTGGCACAATTTTTCCTTCTAAGCCCACAACTTCGTGGCACTCTTTTTCCT
1 AAGTCCACAACTCTGTGGCAC-CTTTTTCCTTTTAAGCCCACAACTTCGTGGCACTCTTTTTCCT
*
3606816 TTTAAGCCCACAACTCTGTGGCACTCTTTTTCTTTTT
65 TTTAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
*
3606853 AAGTCCACAACTCTGTCGCACC
1 AAGTCCACAACTCTGTGGCACC
3606875 CTTGTAAGCC
Statistics
Matches: 197, Mismatches: 25, Indels: 11
0.85 0.11 0.05
Matches are distributed among these distances:
102 108 0.55
103 58 0.29
104 27 0.14
105 4 0.02
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.37
Consensus pattern (101 bp):
AAGTCCACAACTCTGTGGCACCTTTTTCCTTTTAAGCCCACAACTTCGTGGCACTCTTTTTCCTT
TTAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
Found at i:3606866 original size:34 final size:34
Alignment explanation
Indices: 3606549--3606873 Score: 386
Period size: 34 Copynumber: 9.5 Consensus size: 34
3606539 CTTCAAAAGT
* * *
3606549 CCACAAGTCAGTGGCAC-CTTTCTTCTTTTTAAAGC
1 CCACAACTCTGTGGCACTCTTT-TTCCTTTT-AAGC
* *
3606584 CCACCACTTTGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
* *
3606618 CCACAACTCCGTGGCAC-CTTTCTTCTTTTTAAAGC
1 CCACAACTCTGTGGCACTCTTT-TTCCTTTT-AAGC
*
3606653 CGACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
* **
3606687 CCATAACTCCATGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
* * * * *
3606721 CTATAACTCCGTGGCACTCTTTTTCCTCTTAAGT
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
** *
3606755 CCACAACTCTGTGGCACAATTTTTCCTTCTAAGC
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
3606789 CCACAACT-TCGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCT-GTGGCACTCTTTTTCCTTTTAAGC
* *
3606823 CCACAACTCTGTGGCACTCTTTTTCTTTTTAAGT
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
*
3606857 CCACAACTCTGTCGCAC
1 CCACAACTCTGTGGCAC
3606874 CCTTGTAAGC
Statistics
Matches: 250, Mismatches: 34, Indels: 13
0.84 0.11 0.04
Matches are distributed among these distances:
33 5 0.02
34 190 0.76
35 47 0.19
36 8 0.03
ACGTcount: A:0.19, C:0.32, G:0.12, T:0.37
Consensus pattern (34 bp):
CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
Found at i:3606900 original size:27 final size:26
Alignment explanation
Indices: 3606850--3606933 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 26
3606840 TCTTTTTCTT
* * * *
3606850 TTTAAGTCCACAACTCTGTCGCACCC
1 TTTAAGCCCACAAGTCAGTGGCACCC
*
3606876 TTGTAAGCCCACAAGTCGGTGGCACCCC
1 TT-TAAGCCCACAAGTCAGTGGCA-CCC
*
3606904 TTTCAAAGCCCACAAGTCAGTGGCAACC
1 TTT--AAGCCCACAAGTCAGTGGCACCC
3606932 TT
1 TT
3606934 CAAAAGCACA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
26 2 0.04
27 18 0.38
28 9 0.19
29 19 0.40
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.23
Consensus pattern (26 bp):
TTTAAGCCCACAAGTCAGTGGCACCC
Found at i:3606916 original size:29 final size:29
Alignment explanation
Indices: 3606880--3606986 Score: 103
Period size: 29 Copynumber: 3.7 Consensus size: 29
3606870 GCACCCTTGT
3606880 AAGCCCACAAGTCGGTGGCACCCCTTTC-A
1 AAGCCCACAAGTCGGTGGCA-CCCTTTCAA
* *
3606909 AAGCCCACAAGTCAGTGGCAACC-TTCAA
1 AAGCCCACAAGTCGGTGGCACCCTTTCAA
* * *
3606937 AAGCACACAAGTTGAT-GCAACCCTTTCAA
1 AAGCCCACAAGTCGGTGGC-ACCCTTTCAA
*
3606966 AAGGCCACACAAGTTGGTGGC
1 AA-GCC-CACAAGTCGGTGGC
3606987 GTCTTCTTCT
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
27 5 0.08
28 18 0.29
29 26 0.41
30 2 0.03
31 10 0.16
32 2 0.03
ACGTcount: A:0.32, C:0.31, G:0.21, T:0.17
Consensus pattern (29 bp):
AAGCCCACAAGTCGGTGGCACCCTTTCAA
Found at i:3607254 original size:87 final size:87
Alignment explanation
Indices: 3607097--3607302 Score: 252
Period size: 87 Copynumber: 2.4 Consensus size: 87
3607087 TTGAAGTCGG
* *
3607097 ATATCGTTGGCCTTGAATCAGCATATTGGCACTGGCATCTTTAAGACCAACGTTGCTGGCCTTGA
1 ATATCGTTGGCCTTGAATCAGCATATTGGCACT-GCATCTTTAAGACCAACGTCGCCGGCCTTGA
* *
3607162 ATCAGCACATTGGCATAAGCCCA
65 ATCAGCACATCGGCACAAGCCCA
* * * * * * *
3607185 ATATCGCTGGCTTTGAATCGGCGTATTGGCACCT-TATCTTTAAGTCCAATGTCGCCGGCCTTGA
1 ATATCGTTGGCCTTGAATCAGCATATTGGCA-CTGCATCTTTAAGACCAACGTCGCCGGCCTTGA
* *
3607249 TTCAGCACATCGGCACAAGTCCA
65 ATCAGCACATCGGCACAAGCCCA
* *
3607272 GTATCGTTGGCCGTGAATCAGCATATTGGCA
1 ATATCGTTGGCCTTGAATCAGCATATTGGCA
3607303 TCTTTATCAC
Statistics
Matches: 98, Mismatches: 19, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
87 69 0.70
88 27 0.28
89 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (87 bp):
ATATCGTTGGCCTTGAATCAGCATATTGGCACTGCATCTTTAAGACCAACGTCGCCGGCCTTGAA
TCAGCACATCGGCACAAGCCCA
Found at i:3608146 original size:13 final size:13
Alignment explanation
Indices: 3608124--3608213 Score: 54
Period size: 13 Copynumber: 6.0 Consensus size: 13
3608114 TTCAACAATT
*
3608124 TGTATTGATACAA
1 TGTATCGATACAA
3608137 TGTATCGATACATAA
1 TGTATCGATAC--AA
3608152 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
3608169 TGTATCGATACATAA
1 TGTATCGATAC--AA
3608184 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
*
3608201 TGTATCGCTACAA
1 TGTATCGATACAA
3608214 AGCTACTGCC
Statistics
Matches: 63, Mismatches: 2, Indels: 24
0.71 0.02 0.27
Matches are distributed among these distances:
13 33 0.52
15 4 0.06
17 4 0.06
19 22 0.35
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3608161 original size:19 final size:18
Alignment explanation
Indices: 3608137--3608199 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
3608127 ATTGATACAA
3608137 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
3608156 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
3608169 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
3608188 TGTATCGATACA
1 TGTATCGATACA
3608200 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:3608166 original size:32 final size:32
Alignment explanation
Indices: 3608123--3608212 Score: 153
Period size: 32 Copynumber: 2.8 Consensus size: 32
3608113 TTTCAACAAT
*
3608123 TTGTATTGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
3608155 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
3608187 TTGTATCGATACAATGTATCGCTACA
1 TTGTATCGATACAATGTATCGATACA
3608213 AAGCTACTGC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 55 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:3608255 original size:20 final size:21
Alignment explanation
Indices: 3608230--3608281 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
3608220 TGCCAAGTAA
*
3608230 ATGTATCGATACAT-TATTCC
1 ATGTATCGATACATGGATTCC
*
3608250 ATGTATCGATACATGGATTTC
1 ATGTATCGATACATGGATTCC
3608271 -TGTATCGATAC
1 ATGTATCGATAC
3608282 TGAAAGCTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
ATGTATCGATACATGGATTCC
Found at i:3609072 original size:13 final size:13
Alignment explanation
Indices: 3609054--3609079 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3609044 CAATTTTTTG
3609054 TGTATCGATACAT
1 TGTATCGATACAT
3609067 TGTATCGATACAT
1 TGTATCGATACAT
3609080 ACTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3609076 original size:33 final size:33
Alignment explanation
Indices: 3609034--3609098 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
3609024 TACAAGCTAA
* *
3609034 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
3609067 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
3609099 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:3612673 original size:53 final size:53
Alignment explanation
Indices: 3612609--3612745 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
3612599 CTACTTCCAA
3612609 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACCGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACCGCCAATGACC
* * *
3612662 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACCGCCAATGACC
3612715 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
3612746 TATGCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACCGCCAATGACC
Found at i:3612778 original size:20 final size:20
Alignment explanation
Indices: 3612715--3612785 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
3612705 GCCAATGTCC
**
3612715 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
3612735 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
3612755 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
3612775 TGTATCGATAC
1 TGTATCGATAC
3612786 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:3612851 original size:21 final size:21
Alignment explanation
Indices: 3612825--3612865 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3612815 GTCAACCTTG
3612825 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
3612846 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
3612866 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:3616338 original size:85 final size:85
Alignment explanation
Indices: 3616195--3616350 Score: 240
Period size: 85 Copynumber: 1.8 Consensus size: 85
3616185 TATCCCTTCG
* * * * *
3616195 AAAAGATAGGGTTGAAGTGTCCTCGTTGATGAAAAATAATTTTGACGAAGGAAGGGTTCAAATCT
1 AAAAGATAGGGATGAAGTGTCCCCATTGATGAAAAATAATTTTGACCAAAGAAGGGTTCAAATCT
3616260 TGACAAATTTTGACCCCTCA
66 TGACAAATTTTGACCCCTCA
** *
3616280 AAAAGATAGGGATGGTGTGTCCCCATTGATGATAAATAATTTTGACCAAAGAAGGGTTCAAATCT
1 AAAAGATAGGGATGAAGTGTCCCCATTGATGAAAAATAATTTTGACCAAAGAAGGGTTCAAATCT
3616345 TGACAA
66 TGACAA
3616351 TTATGAAGAG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 63 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (85 bp):
AAAAGATAGGGATGAAGTGTCCCCATTGATGAAAAATAATTTTGACCAAAGAAGGGTTCAAATCT
TGACAAATTTTGACCCCTCA
Found at i:3618826 original size:51 final size:52
Alignment explanation
Indices: 3618723--3618833 Score: 163
Period size: 51 Copynumber: 2.2 Consensus size: 52
3618713 TTGCTTGCTA
* * *
3618723 TATCGATACATTTAGGTCAAAAACCTAGAATGTATCGATCCAACAAAGAATG
1 TATCGATACATTTAGGTCAAAAACCCAAAATGTATCGATACAACAAAGAATG
*
3618775 TATCGATACATTTAGGTC-AAAACCCAAAATGTATCGATACAATGAAA-AATG
1 TATCGATACATTTAGGTCAAAAACCCAAAATGTATCGATACAA-CAAAGAATG
3618826 TATCGATA
1 TATCGATA
3618834 TTTTTTAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
51 33 0.61
52 21 0.39
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.26
Consensus pattern (52 bp):
TATCGATACATTTAGGTCAAAAACCCAAAATGTATCGATACAACAAAGAATG
Found at i:3620630 original size:12 final size:13
Alignment explanation
Indices: 3620613--3620641 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3620603 CATCTTAGCC
3620613 AAAACA-TCAACA
1 AAAACACTCAACA
3620625 AAAACACTCAACA
1 AAAACACTCAACA
3620638 AAAA
1 AAAA
3620642 TCTATTCTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.69, C:0.24, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAACACTCAACA
Found at i:3624235 original size:36 final size:36
Alignment explanation
Indices: 3624194--3624265 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
3624184 AAAAGGGAGT
3624194 AAGGCAAAGTTTCTTCTTCAAGTTCAATCCTCTTTC
1 AAGGCAAAGTTTCTTCTTCAAGTTCAATCCTCTTTC
* *
3624230 AAGGCAAAGTTTCTTCTTCAAGTTCAGTTCTCTTTC
1 AAGGCAAAGTTTCTTCTTCAAGTTCAATCCTCTTTC
3624266 CATGGTACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (36 bp):
AAGGCAAAGTTTCTTCTTCAAGTTCAATCCTCTTTC
Found at i:3624251 original size:19 final size:19
Alignment explanation
Indices: 3624194--3624251 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
3624184 AAAAGGGAGT
3624194 AAGGCAAAGTTTCTTCTTC
1 AAGGCAAAGTTTCTTCTTC
* *
3624213 AAGTTC-AA---TCCTCTTTC
1 AAG-GCAAAGTTTCTTC-TTC
3624230 AAGGCAAAGTTTCTTCTTC
1 AAGGCAAAGTTTCTTCTTC
3624249 AAG
1 AAG
3624252 TTCAGTTCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
16 5 0.17
17 8 0.28
19 11 0.38
20 5 0.17
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (19 bp):
AAGGCAAAGTTTCTTCTTC
Found at i:3627901 original size:33 final size:33
Alignment explanation
Indices: 3627849--3628214 Score: 269
Period size: 33 Copynumber: 11.0 Consensus size: 33
3627839 AAATGTTTGA
* * * *
3627849 AACCTTTTTCAAAAACCCACACAAGTTGCTAGC
1 AACCTTCTTCAAAAGCCCACACAAGTTGGTGGC
*
3627882 AACCGTCTTCAAAAGCCCACACAAGTTGGTGGC
1 AACCTTCTTCAAAAGCCCACACAAGTTGGTGGC
* * * *
3627915 AACGTTTCCCTACAAAAG-CC-CATAAGTTAGTGGC
1 AAC-CTT--CTTCAAAAGCCCACACAAGTTGGTGGC
*
3627949 ATCCCTTTCTTTCAAAAGCCCACACAAGTTGGTGGC
1 A-ACC-TTC-TTCAAAAGCCCACACAAGTTGGTGGC
*
3627985 AACCCTTTTTC-AAAGCCCACACAAGTTGGTGGC
1 AA-CCTTCTTCAAAAGCCCACACAAGTTGGTGGC
* * * * *
3628018 AACCTTTTTTCCAAAGCCCACATAAGTCGATGGC
1 AACC-TTCTTCAAAAGCCCACACAAGTTGGTGGC
* * * * *
3628052 AACCTTCCTCCAAAGCCCATACAAGCTGATGGC
1 AACCTTCTTCAAAAGCCCACACAAGTTGGTGGC
* * *
3628085 AACCTTTTTC-AAAGCCCACATAAGTCGGTGGC
1 AACCTTCTTCAAAAGCCCACACAAGTTGGTGGC
* * * * *
3628117 AACCTTCTT-TAGAGCCCACACAAAGTCGTTAGC
1 AACCTTCTTCAAAAGCCCACAC-AAGTTGGTGGC
* * * ****
3628150 AA-CTTCCTCAAAAGCCCATATAAGTTGCCATC
1 AACCTTCTTCAAAAGCCCACACAAGTTGGTGGC
*
3628182 AACCCTCTT-AAAAGCCCACACAAGTTGGTGGC
1 AACCTTCTTCAAAAGCCCACACAAGTTGGTGGC
3628214 A
1 A
3628215 TCTCTTTCCA
Statistics
Matches: 263, Mismatches: 55, Indels: 31
0.75 0.16 0.09
Matches are distributed among these distances:
32 68 0.26
33 116 0.44
34 47 0.18
35 9 0.03
36 23 0.09
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (33 bp):
AACCTTCTTCAAAAGCCCACACAAGTTGGTGGC
Found at i:3628042 original size:103 final size:99
Alignment explanation
Indices: 3627849--3628122 Score: 286
Period size: 103 Copynumber: 2.7 Consensus size: 99
3627839 AAATGTTTGA
* * * * *
3627849 AACCTT-TTTCAAAAACCCACACAAGTTGCTAGCAACCGTCTTCAAAAGCCCACACAAGTTGGTG
1 AACCTTCTTTCAAAAGCCCACACAAGTTGATGGCAACCTTTTTC-AAAGCCCACACAAGTTGGTG
*
3627913 GCAACGTTTCCCTACAAAAGCCCATAAGTTAG-TGGC
65 GCAACCTTT-CCTACAAAAGCCCATAAG-TAGATGGC
* *
3627949 ATCCCTTTCTTTCAAAAGCCCACACAAGTTGGTGGCAACCCTTTTTCAAAGCCCACACAAGTTGG
1 A-ACC-TTCTTTCAAAAGCCCACACAAGTTGATGGCAA-CCTTTTTCAAAGCCCACACAAGTTGG
* * * *
3628014 TGGCAACCTTT-TTTCCAAAGCCCACATAAGTCGATGGC
63 TGGCAACCTTTCCTACAAAAG-CC-CATAAGTAGATGGC
* * * * * *
3628052 AACCTTC-CTCCAAAGCCCATACAAGCTGATGGCAACCTTTTTCAAAGCCCACATAAGTCGGTGG
1 AACCTTCTTTCAAAAGCCCACACAAGTTGATGGCAACCTTTTTCAAAGCCCACACAAGTTGGTGG
3628116 CAACCTT
66 CAACCTT
3628123 CTTTAGAGCC
Statistics
Matches: 148, Mismatches: 19, Indels: 15
0.81 0.10 0.08
Matches are distributed among these distances:
99 34 0.23
100 24 0.16
101 11 0.07
102 8 0.05
103 65 0.44
104 6 0.04
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (99 bp):
AACCTTCTTTCAAAAGCCCACACAAGTTGATGGCAACCTTTTTCAAAGCCCACACAAGTTGGTGG
CAACCTTTCCTACAAAAGCCCATAAGTAGATGGC
Found at i:3628052 original size:67 final size:67
Alignment explanation
Indices: 3627849--3628139 Score: 247
Period size: 67 Copynumber: 4.4 Consensus size: 67
3627839 AAATGTTTGA
* * * * * * * *
3627849 AACCTT-TTTCAAAAACCCACACAAGTTGCTAGCAACC-GTCTTCAAAAGCCCACACAAGTTGGT
1 AACCTTCTTTC-AAAGCCCACACAAGTTGGTGGCAACCTTTTTTCCAAAGCCCACATAAGTCGGT
3627912 GGC
65 GGC
* * * * * * * *
3627915 AACGTTTCCCTACAAAAG-CC-CATAAGTTAGTGGCATCCCTTTCTTTCAAAAGCCCACACAAGT
1 AAC-CTT-CTTTC-AAAGCCCACACAAGTTGGTGGCA-ACCTTT-TTTCCAAAGCCCACATAAGT
*
3627978 TGGTGGC
61 CGGTGGC
*
3627985 AACCCTT-TTTCAAAGCCCACACAAGTTGGTGGCAACCTTTTTTCCAAAGCCCACATAAGTCGAT
1 AA-CCTTCTTTCAAAGCCCACACAAGTTGGTGGCAACCTTTTTTCCAAAGCCCACATAAGTCGGT
3628049 GGC
65 GGC
* * * * *
3628052 AACCTTCCTCCAAAGCCCATACAAGCTGATGGCAACC-TTTTT-CAAAGCCCACATAAGTCGGTG
1 AACCTTCTTTCAAAGCCCACACAAGTTGGTGGCAACCTTTTTTCCAAAGCCCACATAAGTCGGTG
3628115 GC
66 GC
*
3628117 AACCTTCTTT-AGAGCCCACACAA
1 AACCTTCTTTCAAAGCCCACACAA
3628140 AGTCGTTAGC
Statistics
Matches: 184, Mismatches: 31, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
64 11 0.06
65 30 0.16
66 12 0.07
67 67 0.36
68 13 0.07
69 20 0.11
70 30 0.16
71 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (67 bp):
AACCTTCTTTCAAAGCCCACACAAGTTGGTGGCAACCTTTTTTCCAAAGCCCACATAAGTCGGTG
GC
Found at i:3628152 original size:65 final size:65
Alignment explanation
Indices: 3627958--3628206 Score: 218
Period size: 65 Copynumber: 3.8 Consensus size: 65
3627948 CATCCCTTTC
* * * *
3627958 TTTCAAAAGCCCACACAAGTTGGTGGCAACCCTT-TTTCAAAGCCCACACAAGTTGGTGGCAACC
1 TTTCAAAAGCCCACATAAGTCGGTGGCAA-CCTTCTTT-AAAGCCCACACAAGTCGATGGCAACC
3628022 TTT
64 -TT
* * ** *
3628025 TTTCCAAAGCCCACATAAGTCGATGGCAACCTTCCTCCAAAGCCCATACAAG-CTGATGGCAACC
1 TTTCAAAAGCCCACATAAGTCGGTGGCAACCTT-CTTTAAAGCCCACACAAGTC-GATGGCAACC
3628089 TT
64 TT
* * *
3628091 TTTC-AAAGCCCACATAAGTCGGTGGCAACCTTCTTTAGAGCCCACACAAAGTCGTTAGCAA-CT
1 TTTCAAAAGCCCACATAAGTCGGTGGCAACCTTCTTTAAAGCCCACAC-AAGTCGATGGCAACCT
3628154 T
65 T
** * * **** * *
3628155 CCTCAAAAGCCCATATAAGTTGCCATCAACCCTCTTAAAAGCCCACACAAGT
1 TTTCAAAAGCCCACATAAGTCGGTGGCAACCTTCTTTAAAGCCCACACAAGT
3628207 TGGTGGCATC
Statistics
Matches: 149, Mismatches: 27, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
64 20 0.13
65 70 0.47
66 11 0.07
67 47 0.32
68 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (65 bp):
TTTCAAAAGCCCACATAAGTCGGTGGCAACCTTCTTTAAAGCCCACACAAGTCGATGGCAACCTT
Found at i:3628185 original size:97 final size:97
Alignment explanation
Indices: 3627960--3628214 Score: 282
Period size: 97 Copynumber: 2.6 Consensus size: 97
3627950 TCCCTTTCTT
* * * *
3627960 TCAAAAGCCCACACAAGTTGGTGGCAACCCTTTTTCAAAGCCCACACAAGTTGGTGGCAACCTTT
1 TCAAAAGCCCATACAAGCTGAT-GCAA-CCTTTTTCAAAGCCCACACAAGTTGGTGGCAACCTTC
* *
3628025 TTTCCAAAGCCCACATAAGTCGATGGCAACCTTCC
64 TTT-CAAAGCCCACAAAAGTCGATAGCAACCTTCC
* * *
3628060 TCCAAAGCCCATACAAGCTGATGGCAACCTTTTTCAAAGCCCACATAAGTCGGTGGCAACCTTCT
1 TCAAAAGCCCATACAAGCTGAT-GCAACCTTTTTCAAAGCCCACACAAGTTGGTGGCAACCTTCT
* *
3628125 TT-AGAGCCCACACAAAGTCGTTAGCAA-CTTCC
65 TTCAAAGCCCACA-AAAGTCGATAGCAACCTTCC
* * * * *
3628157 TCAAAAGCCCATATAAGTTGCCAT-CAACCCTCTTAAAAGCCCACACAAGTTGGTGGCA
1 TCAAAAGCCCATACAAGCTG--ATGCAACCTTTTTCAAAGCCCACACAAGTTGGTGGCA
3628215 TCTCTTTCCA
Statistics
Matches: 133, Mismatches: 19, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
97 60 0.45
98 11 0.08
99 39 0.29
100 23 0.17
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (97 bp):
TCAAAAGCCCATACAAGCTGATGCAACCTTTTTCAAAGCCCACACAAGTTGGTGGCAACCTTCTT
TCAAAGCCCACAAAAGTCGATAGCAACCTTCC
Found at i:3628400 original size:52 final size:52
Alignment explanation
Indices: 3628344--3628713 Score: 186
Period size: 52 Copynumber: 7.1 Consensus size: 52
3628334 TTCAAAGTTT
* * *
3628344 AATGTCGTTGGCCCTAAATCAGCATATTAGCATTTTCTTCATCTTTAAGTTC
1 AATGTCGTTGGCCTTGAATCAGCATATTAGCATTTTCTTCATCTTTAAGTCC
* ** ** *
3628396 AATGTCGTTGGCCTTGAATCAGCACATTAGTC-CCTTCACCATCTTTAAGACC
1 AATGTCGTTGGCCTTGAATCAGCATATTAG-CATTTTCTTCATCTTTAAGTCC
* * * ** * *
3628448 AATATCGTTAGCCATGAATCATAATATTGGCATTTTTTATCATCTTTAAGTCC
1 AATGTCGTTGGCCTTGAATCAGCATATTAGCATTTTCT-TCATCTTTAAGTCC
* * *
3628501 AATGTTGCTGGCCTTGAATCAGCTTATCTAGCA--TTCTT-ATCATTTCGAAGTCC
1 AATGTCGTTGGCCTTGAATCAGCATAT-TAGCATTTTCTTCATC-TTT--AAGTCC
* * * * *
3628554 AATGGCGCTAGCCTTGAATCAACACATTCAGCA-----TTC-TCTTTATAGTCC
1 AATGTCGTTGGCCTTGAATCAGCATATT-AGCATTTTCTTCATCTTTA-AGTCC
** * * ** * * * * *
3628602 AATGTCACTAGCTTTGAATCAGCGCATTGGTACTTTCGTCATCTTTTAA-ACC
1 AATGTCGTTGGCCTTGAATCAGCATATTAGCATTTTCTTCATC-TTTAAGTCC
* * * * * * *
3628654 AATATCGTTGGTCATGAATCAACATATTGGCATTTTTTATCATCTTTAAAGTCT
1 AATGTCGTTGGCCTTGAATCAGCATATTAGCATTTTCT-TCATCTTT-AAGTCC
3628708 AATGTC
1 AATGTC
3628714 ACTAGCCCAA
Statistics
Matches: 234, Mismatches: 64, Indels: 38
0.70 0.19 0.11
Matches are distributed among these distances:
47 3 0.01
48 28 0.12
49 3 0.01
50 7 0.03
51 5 0.02
52 101 0.43
53 73 0.31
54 14 0.06
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.37
Consensus pattern (52 bp):
AATGTCGTTGGCCTTGAATCAGCATATTAGCATTTTCTTCATCTTTAAGTCC
Found at i:3629008 original size:26 final size:26
Alignment explanation
Indices: 3628972--3629043 Score: 135
Period size: 26 Copynumber: 2.8 Consensus size: 26
3628962 TATCATCATC
*
3628972 AGGGACACTCCAACCCCATTCCTCCT
1 AGGGACACTCCATCCCCATTCCTCCT
3628998 AGGGACACTCCATCCCCATTCCTCCT
1 AGGGACACTCCATCCCCATTCCTCCT
3629024 AGGGACACTCCATCCCCATT
1 AGGGACACTCCATCCCCATT
3629044 TTTCAATCGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.22, C:0.44, G:0.12, T:0.21
Consensus pattern (26 bp):
AGGGACACTCCATCCCCATTCCTCCT
Found at i:3633481 original size:13 final size:13
Alignment explanation
Indices: 3633463--3633488 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3633453 TATAGCAAGT
3633463 ATGTATCGATACA
1 ATGTATCGATACA
3633476 ATGTATCGATACA
1 ATGTATCGATACA
3633489 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3635736 original size:21 final size:21
Alignment explanation
Indices: 3635703--3635747 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3635693 TTGTAAGTTG
*
3635703 AAATAAATAAGTTGGCTAATGA
1 AAATAAATAAGTTAGCTAA-GA
*
3635725 AAAT-AATGAGTTAGCTAAGA
1 AAATAAATAAGTTAGCTAAGA
3635745 AAA
1 AAA
3635748 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 12 0.57
22 4 0.19
ACGTcount: A:0.53, C:0.04, G:0.18, T:0.24
Consensus pattern (21 bp):
AAATAAATAAGTTAGCTAAGA
Found at i:3637569 original size:15 final size:15
Alignment explanation
Indices: 3637551--3637581 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3637541 TAAAAATGTC
*
3637551 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
3637566 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
3637581 C
1 C
3637582 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:3639659 original size:13 final size:13
Alignment explanation
Indices: 3639641--3639665 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3639631 GGAAATTCAA
3639641 TGTATCGATACAT
1 TGTATCGATACAT
3639654 TGTATCGATACA
1 TGTATCGATACA
3639666 GGGTGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3642198 original size:13 final size:13
Alignment explanation
Indices: 3642180--3642205 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3642170 TACAGCAAGT
3642180 ATGTATCGATACA
1 ATGTATCGATACA
3642193 ATGTATCGATACA
1 ATGTATCGATACA
3642206 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3646653 original size:13 final size:12
Alignment explanation
Indices: 3646597--3646663 Score: 50
Period size: 12 Copynumber: 5.6 Consensus size: 12
3646587 TCAGCTTATT
3646597 TAAAAAAATAAA
1 TAAAAAAATAAA
3646609 -AAATAAAA-AAA
1 TAAA-AAAATAAA
* *
3646620 TAATCATAATTAAA
1 TAA--AAAAATAAA
*
3646634 TAAAAATAT-AA
1 TAAAAAAATAAA
*
3646645 TAAAAAAATAAT
1 TAAAAAAATAAA
3646657 TAAAAAA
1 TAAAAAA
3646664 TCAAAAATCA
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
11 16 0.38
12 17 0.40
13 2 0.05
14 7 0.17
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.22
Consensus pattern (12 bp):
TAAAAAAATAAA
Found at i:3646890 original size:23 final size:23
Alignment explanation
Indices: 3646860--3646928 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
3646850 AATGGCAGAA
* *
3646860 GAAAATAACTAAGTTGTTGAAAC
1 GAAAATAACTAAGCTGCTGAAAC
* *
3646883 GAAAATAATTAAGCTGCTGACAC
1 GAAAATAACTAAGCTGCTGAAAC
* *
3646906 GAAAACAATTAAGCTGCATGAAA
1 GAAAATAACTAAGCTGC-TGAAA
3646929 AAAAAAGCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 35 0.90
24 4 0.10
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (23 bp):
GAAAATAACTAAGCTGCTGAAAC
Found at i:3646945 original size:25 final size:23
Alignment explanation
Indices: 3646884--3646945 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
3646874 TGTTGAAACG
* * **
3646884 AAAATAATTAAGCTGCTGACACG
1 AAAACAATTAAGCTGCTGAAAAA
3646907 AAAACAATTAAGCTGCATGAAAAA
1 AAAACAATTAAGCTGC-TGAAAAA
3646931 AAAAGCAATTAAGCT
1 AAAA-CAATTAAGCT
3646946 ACTAGCAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 15 0.45
24 8 0.24
25 10 0.30
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.19
Consensus pattern (23 bp):
AAAACAATTAAGCTGCTGAAAAA
Found at i:3656799 original size:34 final size:34
Alignment explanation
Indices: 3656761--3656831 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
3656751 ATAAATTTGT
*
3656761 TTAAAATGAGAAAGATAACAAAAAGAGGGAGTAG
1 TTAAAATAAGAAAGATAACAAAAAGAGGGAGTAG
* *
3656795 TTAAAATAAGAAGGATAACAAAAAGGGGGAGTAG
1 TTAAAATAAGAAAGATAACAAAAAGAGGGAGTAG
3656829 TTA
1 TTA
3656832 TTAAGGGGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.54, C:0.03, G:0.27, T:0.17
Consensus pattern (34 bp):
TTAAAATAAGAAAGATAACAAAAAGAGGGAGTAG
Found at i:3657557 original size:20 final size:19
Alignment explanation
Indices: 3657512--3657563 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
3657502 TGTCTCGATA
* * *
3657512 CATTGTATCAATACATATT
1 CATTGTATCGATACACACT
3657531 CATTGTATCGATACACACT
1 CATTGTATCGATACACACT
3657550 CAATTGTATCGATA
1 C-ATTGTATCGATA
3657564 TATGAAACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.37
Consensus pattern (19 bp):
CATTGTATCGATACACACT
Found at i:3661542 original size:20 final size:21
Alignment explanation
Indices: 3661519--3661572 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
3661509 CGTTTCAGGC
3661519 ATGTATCGATACATTCACT-T
1 ATGTATCGATACATTCACTAT
*
3661539 ATGTATCGATACATTTACTAT
1 ATGTATCGATACATTCACTAT
* *
3661560 ATATATCAATACA
1 ATGTATCGATACA
3661573 AATTGTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (21 bp):
ATGTATCGATACATTCACTAT
Found at i:3662582 original size:52 final size:52
Alignment explanation
Indices: 3662490--3662680 Score: 157
Period size: 52 Copynumber: 3.5 Consensus size: 52
3662480 AATGATAAAA
* * * * *
3662490 GTGCCAATATGCTTATTTAAGGCCAACGATAATGGGCTTAAAGATTACAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTAAAGATTACAAAG
* * * *
3662542 GTGCCAATATGCTGATTCAAGGCTAGCAACATTGGCCTTAAAGATGAGAAGAATGATAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTAAAGAT--------T-ACAAAG
* *
3662603 GTGCCATTATGCTGATTCAAGGCCAGCAATATTGGGCTTAAAGATGACAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTAAAGATTACAAAG
* * ** *
3662655 ATACCAAGGTGTTGATTCAAGGCCAG
1 GTGCCAATATGCTGATTCAAGGCCAG
3662681 TGACATTGGA
Statistics
Matches: 109, Mismatches: 21, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
52 62 0.57
60 1 0.01
61 46 0.42
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (52 bp):
GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTAAAGATTACAAAG
Found at i:3662616 original size:183 final size:181
Alignment explanation
Indices: 3662291--3662621 Score: 437
Period size: 183 Copynumber: 1.8 Consensus size: 181
3662281 GGGCTTGAAG
* ** * * *
3662291 ATGAGAAAAATGATAAAGGTGTTAATATGCTGATACAAGGCTAGCAATATTAGGCTTAAAGATGA
1 ATGAGAAAAATGATAAAAGTGCCAATATGCTGATACAAGGCCAACAATAATAGGCTTAAAGATGA
* * * *
3662356 CAGGTGCTAATGTGCTAATTCAAGGCCAACGACATTGGACTTGAAGATAAGAAAAATGATAAAGG
66 CAGGTGCCAATATGCTAATTCAAGGCCAACAACATTGGACTTAAAGATAAGAAAAATGATAAAGG
3662421 TGCCAATATGCTGATTCACGACCAACGATATCGAGGTTGAAGATGAGAAAA
131 TGCCAATATGCTGATTCACGACCAACGATATCGAGGTTGAAGATGAGAAAA
* ** * * *
3662472 ATGAGAAAAATGATAAAAGTGCCAATATGCTTATTTAAGGCCAACGATAATGGGCTTAAAGATTA
1 ATGAGAAAAATGATAAAAGTGCCAATATGCTGATACAAGGCCAACAATAATAGGCTTAAAGATGA
* * * * * *
3662537 CAAAGGTGCCAATATGCTGATTCAAGGCTAGCAACATTGGCCTTAAAGATGAGAAGAATGATAAA
66 C--AGGTGCCAATATGCTAATTCAAGGCCAACAACATTGGACTTAAAGATAAGAAAAATGATAAA
*
3662602 GGTGCCATTATGCTGATTCA
129 GGTGCCAATATGCTGATTCA
3662622 AGGCCAGCAA
Statistics
Matches: 125, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
181 54 0.43
183 71 0.57
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (181 bp):
ATGAGAAAAATGATAAAAGTGCCAATATGCTGATACAAGGCCAACAATAATAGGCTTAAAGATGA
CAGGTGCCAATATGCTAATTCAAGGCCAACAACATTGGACTTAAAGATAAGAAAAATGATAAAGG
TGCCAATATGCTGATTCACGACCAACGATATCGAGGTTGAAGATGAGAAAA
Found at i:3662627 original size:113 final size:113
Alignment explanation
Indices: 3662472--3662677 Score: 286
Period size: 113 Copynumber: 1.8 Consensus size: 113
3662462 GATGAGAAAA
* * * *
3662472 ATGAGAAAAATGATAAAAGTGCCAATATGCTTATTTAAGGCCAACGATAATGGGCTTAAAGATTA
1 ATGAGAAAAATGATAAAAGTGCCAATATGCTGATTCAAGGCCAACAATAATGGGCTTAAAGATGA
* * *
3662537 CAAAGGTGCCAATATGCTGATTCAAGGCTAGCAACATTGGCCTTAAAG
66 CAAAGATACCAAGATGCTGATTCAAGGCTAGCAACATTGGCCTTAAAG
* * * * *
3662585 ATGAGAAGAATGATAAAGGTGCCATTATGCTGATTCAAGGCCAGCAATATTGGGCTTAAAGATGA
1 ATGAGAAAAATGATAAAAGTGCCAATATGCTGATTCAAGGCCAACAATAATGGGCTTAAAGATGA
* *
3662650 CAAAGATACCAAGGTGTTGATTCAAGGC
66 CAAAGATACCAAGATGCTGATTCAAGGC
3662678 CAGTGACATT
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
113 79 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (113 bp):
ATGAGAAAAATGATAAAAGTGCCAATATGCTGATTCAAGGCCAACAATAATGGGCTTAAAGATGA
CAAAGATACCAAGATGCTGATTCAAGGCTAGCAACATTGGCCTTAAAG
Found at i:3662806 original size:32 final size:33
Alignment explanation
Indices: 3662768--3663207 Score: 408
Period size: 33 Copynumber: 13.7 Consensus size: 33
3662758 GATGCAATCT
* *
3662768 ACTTGTGTGGGCTTTTGAGAA-GGTTGCCACTG
1 ACTTGTGTGGGCTTTAGAAAAGGGTTGCCACTG
*
3662800 ACTTGTGTGGGC-TTCGAAGAAGGGTTGCCACTG
1 ACTTGTGTGGGCTTTAGAA-AAGGGTTGCCACTG
* **
3662833 ACTTGTATGGGCTTTAG-AAA-GGTTGCCACCA
1 ACTTGTGTGGGCTTTAGAAAAGGGTTGCCACTG
*
3662864 ACTTGTGTGGGCTTT-GAAAATGGTTGCCACTG
1 ACTTGTGTGGGCTTTAGAAAAGGGTTGCCACTG
* * *
3662896 ACTTATGTGGGCTTT-GAGAAGGGTTGCCACCG
1 ACTTGTGTGGGCTTTAGAAAAGGGTTGCCACTG
* **
3662928 ACTTGCGTGGGCTTTA-AAAGAAAGTTGCCA-TCG
1 ACTTGTGTGGGCTTTAGAAA-AGGGTTGCCACT-G
*
3662961 ACTTGTGTGGGCTTTAG-AAAGAGGTTGCCACCG
1 ACTTGTGTGGGCTTTAGAAAAG-GGTTGCCACTG
* *
3662994 ATTTGTGTGGGCTTTAGAAAAGGGTTACCACTG
1 ACTTGTGTGGGCTTTAGAAAAGGGTTGCCACTG
**
3663027 ACTTGTGTGGGCTTTA-AAGGGGGTTGCCA-TCG
1 ACTTGTGTGGGCTTTAGAAAAGGGTTGCCACT-G
* * * * *
3663059 ACTTATGTGGGCTTTAGAAAAAGATTACCACTA
1 ACTTGTGTGGGCTTTAGAAAAGGGTTGCCACTG
* * *
3663092 ACGTGTGTAGGCTTTAGATAAGGGTTGCCACTG
1 ACTTGTGTGGGCTTTAGAAAAGGGTTGCCACTG
** * * *
3663125 ACTTACGTGGGCTTT--ACAAGGGTTACCACCG
1 ACTTGTGTGGGCTTTAGAAAAGGGTTGCCACTG
* * *
3663156 ACTTGTGCGGGCTTT--AAAAGGGTTACCACTA
1 ACTTGTGTGGGCTTTAGAAAAGGGTTGCCACTG
*
3663187 ACTTGTATGGGCTTTA-AAAAG
1 ACTTGTGTGGGCTTTAGAAAAG
3663208 AAAAAAAAAT
Statistics
Matches: 332, Mismatches: 60, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
30 1 0.00
31 82 0.25
32 100 0.30
33 141 0.42
34 8 0.02
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (33 bp):
ACTTGTGTGGGCTTTAGAAAAGGGTTGCCACTG
Found at i:3663054 original size:98 final size:96
Alignment explanation
Indices: 3662768--3663207 Score: 462
Period size: 98 Copynumber: 4.6 Consensus size: 96
3662758 GATGCAATCT
* * *
3662768 ACTTGTGTGGGCTTTTGAGAAGGTTGCCACTGACTTGTGTGGGC-TTCGAAGAAGGGTTGCCACT
1 ACTTGTGTGGGCTTTAGAAAAGGTTGCCACTGACTTGTGTGGGCTTTAGAA-AAGGGTTGCCACT
** * *
3662832 GACTTGTATGGGCTTTAGAAAGGTTGCCACCA
65 GACTTGCGTGGGCTTTACAAAGGTTGCCACCG
* * *
3662864 ACTTGTGTGGGCTTT-GAAAATGGTTGCCACTGACTTATGTGGGCTTT-GAGAAGGGTTGCCACC
1 ACTTGTGTGGGCTTTAGAAAA-GGTTGCCACTGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACT
*
3662927 GACTTGCGTGGGCTTTA-AAAGAAAGTTGCCATCG
65 GACTTGCGTGGGCTTTACAAAG---GTTGCCACCG
* * *
3662961 ACTTGTGTGGGCTTTAGAAAGAGGTTGCCACCGATTTGTGTGGGCTTTAGAAAAGGGTTACCACT
1 ACTTGTGTGGGCTTTAGAAA-AGGTTGCCACTGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACT
* * *
3663026 GACTTGTGTGGGCTTTA-AAGGGGGTTGCCATCG
65 GACTTGCGTGGGCTTTACAA--AGGTTGCCACCG
* * * * * * *
3663059 ACTTATGTGGGCTTTAGAAAAAGATTACCACTAACGTGTGTAGGCTTTAGATAAGGGTTGCCACT
1 ACTTGTGTGGGCTTTAG-AAAAGGTTGCCACTGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACT
* * *
3663124 GACTTACGTGGGCTTTACAAGGGTTACCACCG
65 GACTTGCGTGGGCTTTACAAAGGTTGCCACCG
* * * * *
3663156 ACTTGTGCGGGCTTTA-AAAGGGTTACCACTAACTTGTATGGGCTTTA-AAAAG
1 ACTTGTGTGGGCTTTAGAAAAGGTTGCCACTGACTTGTGTGGGCTTTAGAAAAG
3663208 AAAAAAAAAT
Statistics
Matches: 294, Mismatches: 38, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
94 8 0.03
95 57 0.19
96 39 0.13
97 49 0.17
98 103 0.35
99 37 0.13
101 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (96 bp):
ACTTGTGTGGGCTTTAGAAAAGGTTGCCACTGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACTG
ACTTGCGTGGGCTTTACAAAGGTTGCCACCG
Found at i:3663281 original size:29 final size:30
Alignment explanation
Indices: 3663247--3663460 Score: 138
Period size: 29 Copynumber: 6.9 Consensus size: 30
3663237 AAAGGAAAAG
* *
3663247 GTGCCACAAAGTTGTGGACTTAGAAAGAA-
1 GTGCCACAGAGTTGTGGACTTAAAAAGAAC
* * *
3663276 GTGCCAC-GAAGTTGTGAACTTTAAGAAGAAAAAAG
1 GTGCCACAG-AGTTGTGGAC-TT---AA-AAAGAAC
* *
3663311 GTACCACAGAGTTATGGACTT-AAAA-AAC
1 GTGCCACAGAGTTGTGGACTTAAAAAGAAC
*
3663339 GATGCCACAGAGTTGTGAACTTAAAAAG-A-
1 G-TGCCACAGAGTTGTGGACTTAAAAAGAAC
* *
3663368 GATGCCACAGAGTTATGGACTTTAAAAAGAAAAAAT
1 G-TGCCACAGAGTTGTGGAC-TTAAAAAG----AAC
* *
3663404 GTGCCACGGAGTTATGGACTTAAAAAG-A-
1 GTGCCACAGAGTTGTGGACTTAAAAAGAAC
3663432 GATGCCACAGAGTTGTGGACTTAAAAAGA
1 G-TGCCACAGAGTTGTGGACTTAAAAAGA
3663461 GATGAAAGGT
Statistics
Matches: 149, Mismatches: 16, Indels: 39
0.73 0.08 0.19
Matches are distributed among these distances:
28 4 0.03
29 79 0.53
30 16 0.11
33 1 0.01
34 15 0.10
35 32 0.21
36 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (30 bp):
GTGCCACAGAGTTGTGGACTTAAAAAGAAC
Found at i:3663361 original size:93 final size:94
Alignment explanation
Indices: 3663198--3663464 Score: 301
Period size: 93 Copynumber: 2.8 Consensus size: 94
3663188 CTTGTATGGG
** * * * * * * *
3663198 CTTTAAAAAGAAAAAAAAATGCCACGGAGTTATGAACTAAAAGGAAAAGGTGCCACAAAGTTGTG
1 CTTTAAAAAG-AAAAAAGGTACCACAGAGTTATGGACTTAAA--AAGAGATGCCACAGAGTTGTG
* *
3663263 GACTTAGAAAGAAG-TGCCAC-GAAGTTGTGAA
63 GACTTAAAAAGAAGATGCCACAG-AGTTATGAA
* *
3663294 CTTTAAGAAGAAAAAAGGTACCACAGAGTTATGGACTTAAAAA-ACGATGCCACAGAGTTGTGAA
1 CTTTAAAAAGAAAAAAGGTACCACAGAGTTATGGACTTAAAAAGA-GATGCCACAGAGTTGTGGA
*
3663358 CTTAAAAAG-AGATGCCACAGAGTTATGGA
65 CTTAAAAAGAAGATGCCACAGAGTTATGAA
* * *
3663387 CTTTAAAAAGAAAAAATGTGCCACGGAGTTATGGACTTAAAAAGAGATGCCACAGAGTTGTGGAC
1 CTTTAAAAAGAAAAAAGGTACCACAGAGTTATGGACTTAAAAAGAGATGCCACAGAGTTGTGGAC
3663452 TTAAAAAG-AGATG
66 TTAAAAAGAAGATG
3663465 AAAGGTGCCA
Statistics
Matches: 149, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
92 3 0.02
93 110 0.74
94 2 0.01
95 25 0.17
96 9 0.06
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (94 bp):
CTTTAAAAAGAAAAAAGGTACCACAGAGTTATGGACTTAAAAAGAGATGCCACAGAGTTGTGGAC
TTAAAAAGAAGATGCCACAGAGTTATGAA
Found at i:3663401 original size:64 final size:62
Alignment explanation
Indices: 3663314--3663583 Score: 262
Period size: 64 Copynumber: 4.3 Consensus size: 62
3663304 AAAAAAGGTA
* * * *
3663314 CCACAGAGTTATGGACTT---AA-AAAACGATGCCACAGAGTTGTGAACTTAAAAAGAGATG
1 CCACAGAGTTATGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGAGATG
* *
3663372 CCACAGAGTTATGGACTTTAAAAAGAAAAAATGTGCCACGGAGTTATGGACTTAAAAAGAGATG
1 CCACAGAGTTATGGAC-TTAAAAAG-AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGAGATG
* * * * *
3663436 CCACAGAGTTGTGGACTTAAAAAGAGATGAAAGGTGCCATGAAGCTGTGGACTTAAAAGGAAAAG
1 CCACAGAGTTATGGACTTAAAAAGA-A--AAAGGTGCCACGGAGTTGTGGACTT-AAA--AAGAG
*
3663501 GTG
60 ATG
* * * * *
3663504 CCACTGAGTTGTGGACTTAAAAAGAAAAAGGTGCCATGGAGTTGTGGACTTTAAGAAG-GGTG
1 CCACAGAGTTATGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAGATG
*
3663566 CCACGGAGTTATGGACTT
1 CCACAGAGTTATGGACTT
3663584 TGAAGAAGGA
Statistics
Matches: 178, Mismatches: 21, Indels: 22
0.81 0.10 0.10
Matches are distributed among these distances:
58 16 0.09
59 2 0.01
62 23 0.13
63 11 0.06
64 47 0.26
65 43 0.24
66 5 0.03
67 1 0.01
68 30 0.17
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.22
Consensus pattern (62 bp):
CCACAGAGTTATGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGAGATG
Found at i:3663461 original size:29 final size:29
Alignment explanation
Indices: 3663314--3663464 Score: 187
Period size: 29 Copynumber: 5.0 Consensus size: 29
3663304 AAAAAAGGTA
3663314 CCACAGAGTTATGGACTTAAAAA-ACGATG
1 CCACAGAGTTATGGACTTAAAAAGA-GATG
* *
3663343 CCACAGAGTTGTGAACTTAAAAAGAGATG
1 CCACAGAGTTATGGACTTAAAAAGAGATG
*
3663372 CCACAGAGTTATGGACTTTAAAAAGAAAAAATGTG
1 CCACAGAGTTATGGAC-TTAAAAAG---AGA--TG
*
3663407 CCACGGAGTTATGGACTTAAAAAGAGATG
1 CCACAGAGTTATGGACTTAAAAAGAGATG
*
3663436 CCACAGAGTTGTGGACTTAAAAAGAGATG
1 CCACAGAGTTATGGACTTAAAAAGAGATG
3663465 AAAGGTGCCA
Statistics
Matches: 106, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
29 68 0.64
30 9 0.08
31 2 0.02
33 2 0.02
34 8 0.08
35 17 0.16
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (29 bp):
CCACAGAGTTATGGACTTAAAAAGAGATG
Found at i:3663506 original size:32 final size:32
Alignment explanation
Indices: 3663377--3663554 Score: 150
Period size: 33 Copynumber: 5.4 Consensus size: 32
3663367 AGATGCCACA
* * * *
3663377 GAGTTATGGACTTTAAAAAGAAAAAATGTGCCACG
1 GAGTTGTGGAC-TTAAAAAG-GAAAAGGTGCCA-T
* * *
3663412 GAGTTATGGACTTAAAAA-G---AGATGCCACA
1 GAGTTGTGGACTTAAAAAGGAAAAGGTGCCA-T
3663441 GAGTTGTGGACTTAAAAAGAGATGAAAGGTGCCAT
1 GAGTTGTGGACTTAAAAAG-GA--AAAGGTGCCAT
*
3663476 GAAGCTGTGGACTT-AAAAGGAAAAGGTGCCACT
1 G-AGTTGTGGACTTAAAAAGGAAAAGGTGCCA-T
*
3663509 GAGTTGTGGACTTAAAAAGAAAAAGGTGCCAT
1 GAGTTGTGGACTTAAAAAGGAAAAGGTGCCAT
3663541 GGAGTTGTGGACTT
1 -GAGTTGTGGACTT
3663555 TAAGAAGGGT
Statistics
Matches: 122, Mismatches: 10, Indels: 24
0.78 0.06 0.15
Matches are distributed among these distances:
29 24 0.20
31 1 0.01
32 22 0.18
33 31 0.25
34 9 0.07
35 17 0.14
36 18 0.15
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (32 bp):
GAGTTGTGGACTTAAAAAGGAAAAGGTGCCAT
Found at i:3663519 original size:68 final size:62
Alignment explanation
Indices: 3663352--3663583 Score: 216
Period size: 65 Copynumber: 3.6 Consensus size: 62
3663342 GCCACAGAGT
* * * * * * *
3663352 TGTGAACTTAAA-AAGAGATGCCACAGAGTTATGGACTTTAAAAAGAAAAAATGTGCCACGGAGT
1 TGTGGACTTAAAGAA-AGGTGCCACAGAGTTGTGGAC-TTAAAAAG-AAAAAGGTGCCATGAAGC
* *
3663416 TATGGACTTAAA-AAGAGATGCCACAGAGTTGTGGACTTAAAAAGAGATGAAAGGTGCCATGAAG
1 TGTGGACTTAAAGAA-AGGTGCCACAGAGTTGTGGACTTAAAAAGA-A--AAAGGTGCCATGAAG
3663480 C
62 C
* * *
3663481 TGTGGACTTAAAAGGAAAAGGTGCCACTGAGTTGTGGACTTAAAAAGAAAAAGGTGCCATGGAGT
1 TGTGGACTT-AAA-G-AAAGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAGGTGCCATGAAGC
* * * *
3663546 TGTGGACTTTAAGAAGGGTGCCACGGAGTTATGGACTT
1 TGTGGACTTAAAGAAAGGTGCCACAGAGTTGTGGACTT
3663584 TGAAGAAGGA
Statistics
Matches: 145, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
62 23 0.16
63 10 0.07
64 35 0.24
65 43 0.30
66 3 0.02
67 1 0.01
68 28 0.19
69 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.22
Consensus pattern (62 bp):
TGTGGACTTAAAGAAAGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAGGTGCCATGAAGC
Found at i:3663534 original size:65 final size:63
Alignment explanation
Indices: 3663217--3663583 Score: 261
Period size: 64 Copynumber: 5.8 Consensus size: 63
3663207 GAAAAAAAAA
* * * * * * *
3663217 TGCCACGGAGTTATGAACTAAAAGGAAAAGGTGCCACAAAGTTGTGGACTTAGAAAG---AA-G
1 TGCCATGGAGTTGTGGACTTAAA-GAAAAGGTGCCACAGAGTTATGGACTTAAAAAGAAAAAGG
* * * *
3663277 TGCCACGAAGTTGTGAACTTTAAGAAGAAAAAAGGTACCACAGAGTTATGGACTT---AA-AAAA
1 TGCCATGGAGTTGTGGAC-TT-A-AAG--AAAAGGTGCCACAGAGTTATGGACTTAAAAAGAAAA
* *
3663338 CGA
61 AGG
** * * * *
3663341 TGCCACAGAGTTGTGAACTTAAA-AAGAGATGCCACAGAGTTATGGACTTTAAAAAGAAAAAATG
1 TGCCATGGAGTTGTGGACTTAAAGAAAAGGTGCCACAGAGTTATGGAC-TTAAAAAG-AAAAAGG
* * * * *
3663405 TGCCACGGAGTTATGGACTTAAA-AAGAGATGCCACAGAGTTGTGGACTTAAAAAGAGATGAAAG
1 TGCCATGGAGTTGTGGACTTAAAGAAAAGGTGCCACAGAGTTATGGACTTAAAAAGA-A--AAAG
3663469 G
63 G
* * * *
3663470 TGCCATGAAGCTGTGGACTTAAAAGGAAAAGGTGCCACTGAGTTGTGGACTTAAAAAGAAAAAGG
1 TGCCATGGAGTTGTGGACTT-AAA-GAAAAGGTGCCACAGAGTTATGGACTTAAAAAGAAAAAGG
* * *
3663535 TGCCATGGAGTTGTGGACTTTAAG-AAGGGTGCCACGGAGTTATGGACTT
1 TGCCATGGAGTTGTGGACTTAAAGAAAAGGTGCCACAGAGTTATGGACTT
3663584 TGAAGAAGGA
Statistics
Matches: 252, Mismatches: 34, Indels: 40
0.77 0.10 0.12
Matches are distributed among these distances:
58 21 0.08
59 2 0.01
60 16 0.06
61 5 0.02
62 28 0.11
63 15 0.06
64 88 0.35
65 43 0.17
66 3 0.01
67 1 0.00
68 30 0.12
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.21
Consensus pattern (63 bp):
TGCCATGGAGTTGTGGACTTAAAGAAAAGGTGCCACAGAGTTATGGACTTAAAAAGAAAAAGG
Found at i:3663573 original size:29 final size:29
Alignment explanation
Indices: 3663500--3663598 Score: 99
Period size: 29 Copynumber: 3.2 Consensus size: 29
3663490 AAAAGGAAAA
* * *
3663500 GGTGCCACTGAGTTGTGGACTTAAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGACTT--TAAG--AAG
*
3663533 GGTGCCATGGAGTTGTGGACTTTAAGAAG
1 GGTGCCACGGAGTTGTGGACTTTAAGAAG
*
3663562 GGTGCCACGGAGTTATGGACTTTGAAGAAG
1 GGTGCCACGGAGTTGTGGACTTT-AAGAAG
*
3663592 GATGCCA
1 GGTGCCA
3663599 TTAAGTCGCA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.40
30 12 0.21
31 3 0.05
33 20 0.34
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.23
Consensus pattern (29 bp):
GGTGCCACGGAGTTGTGGACTTTAAGAAG
Found at i:3663643 original size:30 final size:30
Alignment explanation
Indices: 3663548--3663746 Score: 132
Period size: 30 Copynumber: 6.5 Consensus size: 30
3663538 CATGGAGTTG
* * ** *
3663548 TGGACTTTAAGAAG-GGTGCCACGGAGTTA
1 TGGACTTTGAGAAGAGATGCCATTGAGTCA
* *
3663577 TGGACTTTGAAGAAG-GATGCCATTAAGTCG
1 TGGACTTTG-AGAAGAGATGCCATTGAGTCA
**
3663607 CAGACTTTGAGAAGAGATGCCATTGAGTCA
1 TGGACTTTGAGAAGAGATGCCATTGAGTCA
* * * * **
3663637 TGGACTTTTAAGAAGAAATGCGATTGACTTG
1 TGGAC-TTTGAGAAGAGATGCCATTGAGTCA
* * *
3663668 TGGACTTTGAAGGGAAAAAGAATGCCACTGAGTCT
1 TGGACTTTG-A--G-AAGAG-ATGCCATTGAGTCA
* *
3663703 TGGAATTCGAGAAGAGATGCCATTGAGTCA
1 TGGACTTTGAGAAGAGATGCCATTGAGTCA
*
3663733 TGGACTTTTAGAAG
1 TGGACTTTGAGAAG
3663747 GTTACTTCAT
Statistics
Matches: 127, Mismatches: 35, Indels: 15
0.72 0.20 0.08
Matches are distributed among these distances:
29 13 0.10
30 63 0.50
31 29 0.23
32 1 0.01
33 1 0.01
34 4 0.03
35 16 0.13
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (30 bp):
TGGACTTTGAGAAGAGATGCCATTGAGTCA
Found at i:3672395 original size:21 final size:21
Alignment explanation
Indices: 3672365--3672420 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
3672355 AGGGTGGTTT
* *
3672365 TGTATTGATACATTTCAGGC-A
1 TGTATCGATACATTTCA-CCTA
3672386 TGTATCGATACA-TTCACCTA
1 TGTATCGATACATTTCACCTA
*
3672406 TGTATCGATAAATTT
1 TGTATCGATACATTT
3672421 ACTATTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 1 0.03
20 16 0.53
21 13 0.43
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (21 bp):
TGTATCGATACATTTCACCTA
Found at i:3672860 original size:70 final size:71
Alignment explanation
Indices: 3672700--3672863 Score: 226
Period size: 70 Copynumber: 2.3 Consensus size: 71
3672690 CTACACAATT
3672700 AAGAAAAAACGGTAGTTGATGGACGAACAAGAAGAAATAAAACAGAAAGCAATTAAGCTGCTAGC
1 AAGAAAAAACGGTAGTTGATGGACGAACAAGAAGAAATAAAACAGAAAGCAATTAAGCTGCTAGC
*
3672765 AATTAA
66 AATCAA
* * ** * *
3672771 AA-AAGAAACGATAACTGATGGACGAACAAGAAGAAATAAAAGAGAAAGCAATTAAGTTGCT-GC
1 AAGAAAAAACGGTAGTTGATGGACGAACAAGAAGAAATAAAACAGAAAGCAATTAAGCTGCTAGC
3672834 AA-CAA
66 AATCAA
*
3672839 GAAGAAAAAAAGGTAGTTGATGGAC
1 -AAGAAAAAACGGTAGTTGATGGAC
3672864 AATTCTTGCT
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
68 2 0.03
69 6 0.08
70 69 0.87
71 2 0.03
ACGTcount: A:0.52, C:0.10, G:0.23, T:0.15
Consensus pattern (71 bp):
AAGAAAAAACGGTAGTTGATGGACGAACAAGAAGAAATAAAACAGAAAGCAATTAAGCTGCTAGC
AATCAA
Found at i:3673112 original size:21 final size:21
Alignment explanation
Indices: 3673068--3673127 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
3673058 TCCAAATAGC
* *
3673068 AAACAAAAAAAGAAGAAACGA
1 AAACAAAAAAAAAAGCAACGA
*
3673089 AAA-AAATAAAAAAAGCAACTA
1 AAACAAA-AAAAAAAGCAACGA
*
3673110 AAACAAAAAAGAAAGCAA
1 AAACAAAAAAAAAAGCAA
3673128 GCAACAACTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.09
21 27 0.82
22 3 0.09
ACGTcount: A:0.77, C:0.10, G:0.10, T:0.03
Consensus pattern (21 bp):
AAACAAAAAAAAAAGCAACGA
Found at i:3673283 original size:23 final size:23
Alignment explanation
Indices: 3673255--3673299 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
3673245 AAACAGTAAA
3673255 AACAGCAAGCAAACACCAGCAAT
1 AACAGCAAGCAAACACCAGCAAT
* *
3673278 AACAGCAAGCAAGCACTAGCAA
1 AACAGCAAGCAAACACCAGCAA
3673300 AATAGTAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.51, C:0.29, G:0.16, T:0.04
Consensus pattern (23 bp):
AACAGCAAGCAAACACCAGCAAT
Found at i:3674552 original size:159 final size:156
Alignment explanation
Indices: 3674229--3674691 Score: 515
Period size: 159 Copynumber: 2.9 Consensus size: 156
3674219 AGATATTTCC
* * * *
3674229 ATATTAAT-TTTTTTAAT-TGTTTATATTCTTATGGGTATCTGTAAGGGTATAAAAGATTTTGAA
1 ATATTAATCATTTTTAATCT-TTTATATTCTTATGGGTATCTATAAGGGTATAAAA-ATTCTAAA
* * * *
3674292 AATATTTCATATCTTTTCAGGTTGGTTTCCATTAAGGTACGAAATAATATTTTTTAAAAATAAAT
64 AAT-TTTCGTATCTTTTCA----GG-TTCCATTAAGGTACAAAATGATATTTTTAAAAAATAAAT
*
3674357 AAAAATTAAATTAACACTCTAATAATTAAAATAA
123 AAAAATTAAATTAACACTCGAATAATTAAAATAA
*
3674391 ATATTAATCGTTTTTAATCTTTTATATTCTTATGGGTATCTATAAGGGTATAAACAATTCTAAAA
1 ATATTAATCATTTTTAATCTTTTATATTCTTATGGGTATCTATAAGGGTATAAA-AATTCTAAAA
* *
3674456 GTTGTTCGTATCTTTTCAGGCTTCTATTAAGGTACAAAATGATATTTTTAAAAAATAAATAAAAA
65 ATT-TTCGTATCTTTTCAGG-TTCCATTAAGGTACAAAATGATATTTTTAAAAAATAAATAAAAA
*
3674521 CTT-AATTAACACTCGCATAATTAAAATAA
128 -TTAAATTAACACTCGAATAATTAAAATAA
* * * *
3674550 ATATTAATCATTTTTAATCTTTTATATTCCTATGCGTGTCTATAAGGGTATAAAGGA-TCTTAAA
1 ATATTAATCATTTTTAATCTTTTATATTCTTATGGGTATCTATAAGGGTATAAA-AATTC-TAAA
* *
3674614 AACTTTTCGTATTTTTTCAGGTCTCCATTAAGGTACGAAAAAG-TATTTCTTGAAAACGAATAAA
64 AA-TTTTCGTATCTTTTCAGGT-TCCATTAAGGTAC-AAAATGATATTT-TT-AAAA--AATAAA
*
3674678 T-AAAATAAAATTAA
122 TAAAAATTAAATTAA
3674692 TACTTATACA
Statistics
Matches: 263, Mismatches: 24, Indels: 28
0.83 0.08 0.09
Matches are distributed among these distances:
158 3 0.01
159 154 0.59
160 11 0.04
161 5 0.02
162 19 0.07
163 69 0.26
164 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (156 bp):
ATATTAATCATTTTTAATCTTTTATATTCTTATGGGTATCTATAAGGGTATAAAAATTCTAAAAA
TTTTCGTATCTTTTCAGGTTCCATTAAGGTACAAAATGATATTTTTAAAAAATAAATAAAAATTA
AATTAACACTCGAATAATTAAAATAA
Found at i:3680222 original size:13 final size:13
Alignment explanation
Indices: 3680204--3680229 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3680194 CAATTTTTTG
3680204 TGTATCGATACAT
1 TGTATCGATACAT
3680217 TGTATCGATACAT
1 TGTATCGATACAT
3680230 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3680940 original size:21 final size:21
Alignment explanation
Indices: 3680899--3680942 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3680889 CTCCCCTTTA
* *
3680899 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
3680920 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
3680941 TC
1 TC
3680943 ATATTCATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:3683915 original size:15 final size:15
Alignment explanation
Indices: 3683895--3683925 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3683885 ATTTCGTTTG
*
3683895 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3683910 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3683925 G
1 G
3683926 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3685775 original size:21 final size:21
Alignment explanation
Indices: 3685729--3685773 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
3685719 AAGTTTTCAT
3685729 TTTTC-TTAGCTAACTCATTA
1 TTTTCATTAGCTAACTCATTA
*
3685749 TTTTCATTAGCTAACTTCTTTA
1 TTTTCATTAGCTAAC-TCATTA
3685771 TTT
1 TTT
3685774 CAACTTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCATTAGCTAACTCATTA
Found at i:3688014 original size:19 final size:19
Alignment explanation
Indices: 3687990--3688044 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 19
3687980 CAATTTTTTG
3687990 TGTATCGATACATACTTGC
1 TGTATCGATACATACTTGC
3688009 TGTATCGATACATTACATACTTGC
1 TGTATCG----A-TACATACTTGC
3688033 TGTATCGATACA
1 TGTATCGATACA
3688045 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
19 11 0.35
20 1 0.03
23 1 0.03
24 18 0.58
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATACTTGC
Found at i:3688025 original size:24 final size:24
Alignment explanation
Indices: 3687998--3688044 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
3687988 TGTGTATCGA
3687998 TACATACTTGCTGTATCGATACAT
1 TACATACTTGCTGTATCGATACAT
3688022 TACATACTTGCTGTATCGATACA
1 TACATACTTGCTGTATCGATACA
3688045 AGTTTGGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (24 bp):
TACATACTTGCTGTATCGATACAT
Found at i:3691261 original size:166 final size:163
Alignment explanation
Indices: 3691015--3691473 Score: 484
Period size: 166 Copynumber: 2.8 Consensus size: 163
3691005 TTTTTCTTCG
* *
3691015 TAAATTTTTTTCA-AAGGATTTTCTTAGTTTTTAATTTTTAAAATGCATCAAATATTATTATTTA
1 TAAATTTTTTT-AGGAGGATTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTA
* * * *
3691079 ATTCATAGTAAATCAGTTTTCAAAAATTCATTTGTTTTCATGATTTTTTTCATTTTTCTTTGAAA
65 ATTC-TATTTAATCAGTTTTCAAAAATTCATTTATTTTCATGA-GTTTTTCATTTTTCTTTGAAA
* *
3691144 ATCCT-TTGTTTTCAAAATATAG-AGTTTTTTACTCAA
128 ATCATCTTGTTTTCAAAATA-AGAAG-GTTTTACTCAA
*
3691180 TAAATTTTTTTAGGAGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCCAATATTATTATTTA
1 TAAATTTTTTTAGGAGGA-TTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTA
* * * * ** *
3691245 ATTACTATTTAATCAGTTTTTAAAAATTTATTTATTTGCAAGAGTTTTGAATTTTT-TTCTTAAA
65 ATT-CTATTTAATCAGTTTTCAAAAATTCATTTATTTTCATGAGTTTTTCATTTTTCTT-TGAAA
* * **
3691309 ATTATCTTGTTTTCAAAATACGAAGGTTTTACTCTG
128 ATCATCTTGTTTTCAAAATAAGAAGGTTTTACTCAA
** * *
3691345 TAAATGTTTTCAAGG-GGATTTT-TTGGTTTTTAATTTTTAAAATTCATCAAATA-TATTTATTC
1 TAAAT-TTTTTTAGGAGGATTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTA-TTATTT
* * * *
3691407 ATTTC-ATGTTAAATCAGTTTTCACAAATTCATTCATTTTCATGAGTTTTTCACTTTTTTCCTTG
64 AATTCTAT-TT-AATCAGTTTTCAAAAATTCATTTATTTTCATGAGTTTTTCA--TTTTTCTTTG
3691471 AAA
125 AAA
3691474 TTTTCCTATT
Statistics
Matches: 245, Mismatches: 36, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
161 2 0.01
162 5 0.02
163 70 0.29
164 7 0.03
165 58 0.24
166 102 0.42
167 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (163 bp):
TAAATTTTTTTAGGAGGATTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAA
TTCTATTTAATCAGTTTTCAAAAATTCATTTATTTTCATGAGTTTTTCATTTTTCTTTGAAAATC
ATCTTGTTTTCAAAATAAGAAGGTTTTACTCAA
Found at i:3692146 original size:22 final size:21
Alignment explanation
Indices: 3692120--3692169 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
3692110 TTTGTTGACT
3692120 AGAAAAAAAGAGAGAA-AAAGAA
1 AGAAAAAAAGAGA-AATAAA-AA
*
3692142 AGAAAAACAGAGAAATAAAAA
1 AGAAAAAAAGAGAAATAAAAA
3692163 AGAAAAA
1 AGAAAAA
3692170 CTAGGAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (21 bp):
AGAAAAAAAGAGAAATAAAAA
Found at i:3692153 original size:20 final size:21
Alignment explanation
Indices: 3692124--3692170 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
3692114 TTGACTAGAA
* *
3692124 AAAAAGAGAGAAA-AAGAAAG
1 AAAAACAGAGAAATAAAAAAG
3692144 AAAAACAGAGAAATAAAAAAG
1 AAAAACAGAGAAATAAAAAAG
3692165 AAAAAC
1 AAAAAC
3692171 TAGGAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.02
Consensus pattern (21 bp):
AAAAACAGAGAAATAAAAAAG
Found at i:3698449 original size:15 final size:15
Alignment explanation
Indices: 3698409--3698451 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
3698399 CAAAAATATT
3698409 CAAAAAGAAA-AAACA
1 CAAAAA-AAAGAAACA
*
3698424 CAAAAATAAGAAACA
1 CAAAAAAAAGAAACA
3698439 CAAAAAAAAGAAA
1 CAAAAAAAAGAAA
3698452 AAAAAAGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.79, C:0.12, G:0.07, T:0.02
Consensus pattern (15 bp):
CAAAAAAAAGAAACA
Done.