Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold160
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: 5021213
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 92036 characters in sequence are not A, C, G, or T
File 19 of 30
Found at i:3032426 original size:21 final size:21
Alignment explanation
Indices: 3032385--3032428 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3032375 CTCCCCTTTA
* *
3032385 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
3032406 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
3032427 TC
1 TC
3032429 ATATCAAAAA
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:3038184 original size:21 final size:21
Alignment explanation
Indices: 3038155--3038199 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3038145 AAGTTTTCAT
*
3038155 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
3038175 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
3038197 TTT
1 TTT
3038200 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:3040435 original size:13 final size:13
Alignment explanation
Indices: 3040417--3040442 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3040407 CAATTTTTTA
3040417 TGTATCGATACAT
1 TGTATCGATACAT
3040430 TGTATCGATACAT
1 TGTATCGATACAT
3040443 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:3043063 original size:112 final size:112
Alignment explanation
Indices: 3042866--3043072 Score: 283
Period size: 112 Copynumber: 1.8 Consensus size: 112
3042856 AGAACATCAG
* * * * ** *
3042866 TTTGTCTGATTTTCAAAAGAATTCATGTTTTATACAGCCTGATCCATTTATGTCTAGGAAAATGG
1 TTTGTCTGATTTTCAAAAGAATTCATATTTTATACAACCTAATCCATTCATACCTAGGAAAATAG
*
3042931 GGCATGTATCCTATTAGTTTTGAAAATTTTGAGAGAACGACATCAAA
66 GGCATGCATCCTATTAGTTTTGAAAATTTTGAGAGAACGACATCAAA
* *
3042978 TTTGTTTGATTTTCAAAA-AATTTCATATTTTATACAACCTAATCCATTCGTACCTACGG-AAAT
1 TTTGTCTGATTTTCAAAAGAA-TTCATATTTTATACAACCTAATCCATTCATACCTA-GGAAAAT
*
3043041 AGGGCATGCATCCTATTAGTTTTGAAATTTTT
64 AGGGCATGCATCCTATTAGTTTTGAAAATTTT
3043073 TAGCCAACCA
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
111 2 0.02
112 78 0.95
113 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.39
Consensus pattern (112 bp):
TTTGTCTGATTTTCAAAAGAATTCATATTTTATACAACCTAATCCATTCATACCTAGGAAAATAG
GGCATGCATCCTATTAGTTTTGAAAATTTTGAGAGAACGACATCAAA
Found at i:3044205 original size:20 final size:22
Alignment explanation
Indices: 3044177--3044232 Score: 82
Period size: 20 Copynumber: 2.7 Consensus size: 22
3044167 CTATCGGGCT
3044177 AATTGTATCGATACAATTCTAG
1 AATTGTATCGATACAATTCTAG
*
3044199 -A-TGTATCGATAC-ATTCTGG
1 AATTGTATCGATACAATTCTAG
3044218 AATTGTATCGATACA
1 AATTGTATCGATACA
3044233 TTCCTATTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 6 0.20
20 12 0.40
21 12 0.40
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (22 bp):
AATTGTATCGATACAATTCTAG
Found at i:3044226 original size:21 final size:21
Alignment explanation
Indices: 3044177--3044235 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
3044167 CTATCGGGCT
3044177 AATTGTATCGATACAATTCTAG
1 AATTGTATCGATAC-ATTCTAG
*
3044199 -A-TGTATCGATACATTCTGG
1 AATTGTATCGATACATTCTAG
3044218 AATTGTATCGATACATTC
1 AATTGTATCGATACATTC
3044236 CTATTTGTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
19 6 0.18
20 12 0.35
21 16 0.47
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (21 bp):
AATTGTATCGATACATTCTAG
Found at i:3044502 original size:21 final size:22
Alignment explanation
Indices: 3044461--3044516 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
3044451 TGTATTTACT
* * *
3044461 TGAAAAACAATATTTCTTTGTG
1 TGAAAAACATTTTTTCTTTGTC
3044483 TGAAAAACATTTTTTC-TTGTC
1 TGAAAAACATTTTTTCTTTGTC
**
3044504 TCTAAAACATTTT
1 TGAAAAACATTTT
3044517 CAATACTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (22 bp):
TGAAAAACATTTTTTCTTTGTC
Found at i:3046346 original size:2 final size:2
Alignment explanation
Indices: 3046339--3046386 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
3046329 CGAGCAGTTG
* *
3046339 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT AT GT GT GT GT AT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
3046381 GT GT GT
1 GT GT GT
3046387 TTAGTGTCGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.04, C:0.00, G:0.46, T:0.50
Consensus pattern (2 bp):
GT
Found at i:3047446 original size:78 final size:78
Alignment explanation
Indices: 3047351--3047607 Score: 324
Period size: 78 Copynumber: 3.3 Consensus size: 78
3047341 TTTAGAGATA
* * * *
3047351 AAAAT-GGGGTTGGAGTATCCCCTTGGAATAACAGGGTTGGAGTATCCTCGATTATGAAAAATCG
1 AAAATCGGGGTTAGAGTATCCCCTAGAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCG
3047415 ATGTTTTGGAAAT
66 ATGTTTTGGAAAT
*
3047428 AAAA-CTGGGGTTAGAGTATCCCCTCAAAAATAAC-GGGATTGGAGTATCCCCGATTATGAAAAA
1 AAAATC-GGGGTTAGAGTATCCCCT-AGAAATAACAGGG-TTGGAGTATCCCCGATTATGAAAAA
*
3047491 TCGGTGTTTTGGAAA-
63 TCGATGTTTTGGAAAT
* * * ** *
3047506 AAAATCGGGGTTAGAGTATCCCCTCGAAAATAACAAGGTTAGAGTATCCCCGATGGTGAAAAATT
1 AAAATCGGGGTTAGAGTATCCCCTAG-AAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATC
*
3047571 GATGTTTTGAAAAT
65 GATGTTTTGGAAAT
*
3047585 AAAATCGGGGTTGGAGTATCCCC
1 AAAATCGGGGTTAGAGTATCCCC
3047608 GATGGTGAAA
Statistics
Matches: 156, Mismatches: 16, Indels: 14
0.84 0.09 0.08
Matches are distributed among these distances:
77 4 0.03
78 83 0.53
79 69 0.44
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (78 bp):
AAAATCGGGGTTAGAGTATCCCCTAGAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCG
ATGTTTTGGAAAT
Found at i:3047605 original size:51 final size:51
Alignment explanation
Indices: 3047541--3047654 Score: 183
Period size: 51 Copynumber: 2.2 Consensus size: 51
3047531 GAAAATAACA
*
3047541 AGGTTAGAGTATCCCCGATGGTGAAAAATTGATGTTTTGAAAATAAAATCG
1 AGGTTAGAGTATCCCCGATGGTGAAAAATTGATATTTTGAAAATAAAATCG
* * * *
3047592 GGGTTGGAGTATCCCCGATGGTGAAAATTTGATATTTTGGAAATAAAATCG
1 AGGTTAGAGTATCCCCGATGGTGAAAAATTGATATTTTGAAAATAAAATCG
3047643 AGGTTAGAGTAT
1 AGGTTAGAGTAT
3047655 TCCCTCAGAA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (51 bp):
AGGTTAGAGTATCCCCGATGGTGAAAAATTGATATTTTGAAAATAAAATCG
Found at i:3047676 original size:79 final size:77
Alignment explanation
Indices: 3047592--3047875 Score: 313
Period size: 79 Copynumber: 3.6 Consensus size: 77
3047582 AATAAAATCG
* * *
3047592 GGGTTGGAGTATCCCCGATGGT-GAAAATTTGATATTTTGGAAATAAAATCGAGGTTAGAGTATT
1 GGGTTGGAGTATCCCCGATGGTGGAAAA-TCGATATTTTGGAAATAAAA-CGGGGTTGGAGTATT
3047656 CCCTCAGAAATAAT
64 CCCTCAGAAATAAT
* * * *
3047670 AGGGTTGGAGTATCCTCGATGGTGGAAAATCGATGTTTTGGGAATAAAACTGGGGTTGGAGTATC
1 -GGGTTGGAGTATCCCCGATGGTGGAAAATCGATATTTTGGAAATAAAAC-GGGGTTGGAGTATT
3047735 CCCTCAGAAATAACT
64 CCCTCAGAAATAA-T
* * * * * *
3047750 GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGAAAACAAAAGCGGGGTTGGAGTA-TC
1 GGGTTGGAGTATCCCCGATGGTGGAAAATCGATATTTTGGAAATAAAA-CGGGGTTGGAGTATTC
* *
3047814 CTTC-GAAAATAAC
65 CCTCAG-AAATAAT
* * *
3047827 GAGGTTGGAGTATTCCCGATGGTGGAAAATCGGTATTTTAGAAATAAAA
1 G-GGTTGGAGTATCCCCGATGGTGGAAAATCGATATTTTGGAAATAAAA
3047876 ACATGAATGA
Statistics
Matches: 173, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
77 2 0.01
78 51 0.29
79 113 0.65
80 7 0.04
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (77 bp):
GGGTTGGAGTATCCCCGATGGTGGAAAATCGATATTTTGGAAATAAAACGGGGTTGGAGTATTCC
CTCAGAAATAAT
Found at i:3047699 original size:130 final size:128
Alignment explanation
Indices: 3047459--3047737 Score: 362
Period size: 130 Copynumber: 2.2 Consensus size: 128
3047449 CCTCAAAAAT
* * * * *
3047459 AACGGGATTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAAAAAATCGGGGTTAGAGTA
1 AACGGGGTTGGAGTATCCCCGATGATGAAAAATCGATATTTTGGAAAAAAATCGAGGTTAGAGTA
*
3047524 TCCCCTCGAAAATAACAAGGTTAGAGTATCCCCGATGGTGAAAAATTGATGTTTTGAAAATAA
66 TCCCCTCGAAAATAACAAGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTGAAAATAA
* * *
3047587 AATCGGGGTTGGAGTATCCCCGATGGTGAAAATTTGATATTTTGGAAATAAAATCGAGGTTAGAG
1 AA-CGGGGTTGGAGTATCCCCGATGATGAAAAATCGATATTTTGGAAA-AAAATCGAGGTTAGAG
* * * * * * **
3047652 TATTCCCTC-AGAAATAATAGGGTTGGAGTATCCTCGATGGTGGAAAATCGATGTTTTGGGAATA
64 TATCCCCTCGA-AAATAACAAGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTGAAAATA
3047716 A
128 A
3047717 AACTGGGGTTGGAGTATCCCC
1 AAC-GGGGTTGGAGTATCCCC
3047738 TCAGAAATAA
Statistics
Matches: 130, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
128 2 0.02
129 40 0.31
130 88 0.68
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.28
Consensus pattern (128 bp):
AACGGGGTTGGAGTATCCCCGATGATGAAAAATCGATATTTTGGAAAAAAATCGAGGTTAGAGTA
TCCCCTCGAAAATAACAAGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTGAAAATAA
Found at i:3047822 original size:287 final size:286
Alignment explanation
Indices: 3047329--3047856 Score: 765
Period size: 287 Copynumber: 1.8 Consensus size: 286
3047319 CCCTCGATGA
* * * * *
3047329 AAAATTTAATATTTTAGAGATAAAAATGGGGTTGGAGTATCCCCTTGGAATAACAGGGTTGGAGT
1 AAAATTTAATATTTTAGAAATAAAAATGAGGTTAGAGTATCCCCTAGAAATAACAGGGTTGGAGT
*
3047394 ATCCTCGATTATGAAAAATCGATGTTTTGGAAATAAAACTGGGGTTAGAGTATCCCCTCAAAAAT
66 ATCCTCGATGATGAAAAATCGATGTTTTGGAAATAAAACTGGGGTTAGAGTATCCCCTCAAAAAT
* * *
3047459 AACGGGATTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAAAAAATCGGGGTTAGAGTA
131 AACGGGATTGGAGTATCCCCGATTATGAAAAATCGGTATTTTGAAAAAAAAGCGGGGTTAGAGTA
3047524 TCCCCTCGAAAATAACAAGGTTAGAGTATCCCCGATGGTGAAAAATTGATGTTTTGAAAATAAAA
196 TCCCCTCGAAAATAACAAGGTTAGAGTATCCCCGATGGTGAAAAATTGATGTTTTGAAAATAAAA
3047589 TCGGGGTTGGAGTATCCCCGATGGTG
261 TCGGGGTTGGAGTATCCCCGATGGTG
* * * *
3047615 AAAATTTGATATTTTGGAAAT-AAAATCGAGGTTAGAGTATTCCCTCAGAAATAATAGGGTTGGA
1 AAAATTTAATATTTTAGAAATAAAAAT-GAGGTTAGAGTATCCCCT-AGAAATAACAGGGTTGGA
* * * * *
3047679 GTATCCTCGATGGTGGAAAATCGATGTTTTGGGAATAAAACTGGGGTTGGAGTATCCCCTCAGAA
64 GTATCCTCGATGATGAAAAATCGATGTTTTGGAAATAAAACTGGGGTTAGAGTATCCCCTCAAAA
* * *
3047744 ATAACTGGG-TTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGAAAACAAAAGCGGGGTTGG
129 ATAAC-GGGATTGGAGTATCCCCGATTATGAAAAATCGGTATTTTGAAAA-AAAAGCGGGGTTAG
* * * * *
3047808 AGTAT-CCTTCGAAAATAACGAGGTTGGAGTATTCCCGATGGTGGAAAAT
192 AGTATCCCCTCGAAAATAACAAGGTTAGAGTATCCCCGATGGTGAAAAAT
3047857 CGGTATTTTA
Statistics
Matches: 212, Mismatches: 26, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
285 5 0.02
286 33 0.16
287 154 0.73
288 20 0.09
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (286 bp):
AAAATTTAATATTTTAGAAATAAAAATGAGGTTAGAGTATCCCCTAGAAATAACAGGGTTGGAGT
ATCCTCGATGATGAAAAATCGATGTTTTGGAAATAAAACTGGGGTTAGAGTATCCCCTCAAAAAT
AACGGGATTGGAGTATCCCCGATTATGAAAAATCGGTATTTTGAAAAAAAAGCGGGGTTAGAGTA
TCCCCTCGAAAATAACAAGGTTAGAGTATCCCCGATGGTGAAAAATTGATGTTTTGAAAATAAAA
TCGGGGTTGGAGTATCCCCGATGGTG
Found at i:3050274 original size:35 final size:35
Alignment explanation
Indices: 3050233--3050320 Score: 158
Period size: 35 Copynumber: 2.5 Consensus size: 35
3050223 AAAAATGCCT
* *
3050233 AAATGTATCGATACATTTCATCTGGGTAAAACTCA
1 AAATGTATCGATACATTTCATCTGAGTAAAACCCA
3050268 AAATGTATCGATACATTTCATCTGAGTAAAACCCA
1 AAATGTATCGATACATTTCATCTGAGTAAAACCCA
3050303 AAATGTATCGATACATTT
1 AAATGTATCGATACATTT
3050321 GGGTAAAACC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (35 bp):
AAATGTATCGATACATTTCATCTGAGTAAAACCCA
Found at i:3050329 original size:30 final size:33
Alignment explanation
Indices: 3050233--3050347 Score: 137
Period size: 35 Copynumber: 3.5 Consensus size: 33
3050223 AAAAATGCCT
*
3050233 AAATGTATCGATACATTTCATCTGGGTAAAACTCA
1 AAATGTATCGATACA-TT-ATCTGGGTAAAACCCA
*
3050268 AAATGTATCGATACATTTCATCTGAGTAAAACCCA
1 AAATGTATCGATACA-TT-ATCTGGGTAAAACCCA
*
3050303 AAATGTATCGATACA-T-T-TGGGTAAAACCCT
1 AAATGTATCGATACATTATCTGGGTAAAACCCA
*
3050333 GAATGTATCGATACA
1 AAATGTATCGATACA
3050348 ATGAAGGATG
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
30 25 0.33
31 1 0.01
33 1 0.01
35 48 0.64
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (33 bp):
AAATGTATCGATACATTATCTGGGTAAAACCCA
Found at i:3051018 original size:41 final size:41
Alignment explanation
Indices: 3050930--3051280 Score: 338
Period size: 41 Copynumber: 8.4 Consensus size: 41
3050920 AGAAAGGGCG
**
3050930 TCCTGCTCTTTGAGGACAAA-GG-AAAAGAGAATGAAA-TGGG
1 TCCTGCTCTTTGAGGACAAAGGGAAAAAGA-AAT-AAAGTGCA
* *
3050970 TCATGCTCTTTGAGGACAAA-GGAAAAAGGAAATAAAATGCA
1 TCCTGCTCTTTGAGGACAAAGGGAAAAA-GAAATAAAGTGCA
* * **
3051011 TCCTGCTCTTTGAGGACAAAGGAAAAGAAGGAAATTAAGTGTG
1 TCCTGCTCTTTGAGGACAAAGGGAAA-AA-GAAATAAAGTGCA
** * ** * **
3051054 TAATGCTCTTTAAGGACAAAAAAGAAAAGGAAATAAAGTGTG
1 TCCTGCTCTTTGAGGAC-AAAGGGAAAAAGAAATAAAGTGCA
3051096 TCCTGCTCTTTGAGGACAAAGGGAAAAAGAAATAAAGTG-A
1 TCCTGCTCTTTGAGGACAAAGGGAAAAAGAAATAAAGTGCA
*
3051136 GTCCTGCTCTTTGAGGATAAAGGGAAAAAGAAATAAAGTG-A
1 -TCCTGCTCTTTGAGGACAAAGGGAAAAAGAAATAAAGTGCA
*
3051177 GTCCTGCTCTTTGAGGATAAAGGGAAAAAGAAATAAAGTGCA
1 -TCCTGCTCTTTGAGGACAAAGGGAAAAAGAAATAAAGTGCA
* * * *
3051219 TCCTACTTTTTAAGGACAAAAGGGAAAAGAATGAAAT-AAGATGCG
1 TCCTGCTCTTTGAGGAC-AAAGGG-AAA-AA-GAAATAAAG-TGCA
3051264 TCCTGCTCTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
3051281 TAAAAGGTGC
Statistics
Matches: 265, Mismatches: 33, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
40 24 0.09
41 139 0.52
42 39 0.15
43 30 0.11
44 11 0.04
45 22 0.08
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (41 bp):
TCCTGCTCTTTGAGGACAAAGGGAAAAAGAAATAAAGTGCA
Found at i:3051183 original size:82 final size:84
Alignment explanation
Indices: 3050929--3051280 Score: 375
Period size: 82 Copynumber: 4.2 Consensus size: 84
3050919 AAGAAAGGGC
* *
3050929 GTCCTGCTCTTTGAGGACAAA-GG-AAAAGAGAATGAAA-TGGGTCATGCTCTTTGAGGAC-AAA
1 GTCCTGCTCTTTGAGGACAAAGGGAAAAAGA-AAT-AAAGTGAGTCATGCTCTTTAAGGACAAAA
*
3050990 -GGAAAAAGGAAATAAAATGCA
64 GGGAAAAAGGAAATAAAGTG-A
* * * *
3051011 -TCCTGCTCTTTGAGGACAAAGGAAAAGAAGGAAATTAAGTGTGTAATGCTCTTTAAGGACAAAA
1 GTCCTGCTCTTTGAGGACAAAGGGAAA-AA-GAAATAAAGTGAGTCATGCTCTTTAAGGACAAAA
** *
3051075 AAG-AAAAGGAAATAAAGTGT
64 GGGAAAAAGGAAATAAAGTGA
* * *
3051095 GTCCTGCTCTTTGAGGACAAAGGGAAAAAGAAATAAAGTGAGTCCTGCTCTTTGAGGA-TAAAGG
1 GTCCTGCTCTTTGAGGACAAAGGGAAAAAGAAATAAAGTGAGTCATGCTCTTTAAGGACAAAAGG
3051159 GAAAAA-GAAATAAAGTGA
66 GAAAAAGGAAATAAAGTGA
* * * *
3051177 GTCCTGCTCTTTGAGGATAAAGGGAAAAAGAAATAAAGTGCA-TCCTACTTTTTAAGGACAAAAG
1 GTCCTGCTCTTTGAGGACAAAGGGAAAAAGAAATAAAGTG-AGTCATGCTCTTTAAGGACAAAAG
* *
3051241 GGAAAAGAATGAAAT-AAGATGC
65 GG-AAA-AAGGAAATAAAG-TGA
3051263 GTCCTGCTCTTTGAGGAC
1 GTCCTGCTCTTTGAGGAC
3051281 TAAAAGGTGC
Statistics
Matches: 230, Mismatches: 25, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
81 20 0.09
82 68 0.30
83 39 0.17
84 28 0.12
85 50 0.22
86 25 0.11
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (84 bp):
GTCCTGCTCTTTGAGGACAAAGGGAAAAAGAAATAAAGTGAGTCATGCTCTTTAAGGACAAAAGG
GAAAAAGGAAATAAAGTGA
Found at i:3051426 original size:61 final size:60
Alignment explanation
Indices: 3051263--3051717 Score: 581
Period size: 61 Copynumber: 7.4 Consensus size: 60
3051253 AATAAGATGC
*
3051263 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGAAAAAGGAAAG
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG----A--AAAG
3051328 T
60 T
* * *
3051329 GTCCTGCTCTTTGGGGACTAGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAATAAGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA-AAGT
* * * * *
3051390 GTCCTGCTTTTTGAGGACTGAAAGGTGCGACCAACTTGTGTAGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-GT
* * *
3051451 GTCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAG-
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGT
* * *
3051510 GTACCCTGCTTTTTGAGGACTAAAAGGTGCCACTAACTTATGTGGGCTTTAAAAGGAAAAGAT
1 GT--CCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG-T
* * *
3051573 ATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-GT
* *
3051634 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCGTTGAAAGG-AAAGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGT
* * *
3051693 GTCTTGCTCTTTGAAGACTGAAAGG
1 GTCCTGCTCTTTGAGGACTAAAAGG
3051718 ATAAAAGGTT
Statistics
Matches: 345, Mismatches: 37, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
59 25 0.07
60 7 0.02
61 260 0.75
62 2 0.01
63 1 0.00
66 50 0.14
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (60 bp):
GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGT
Found at i:3052738 original size:21 final size:21
Alignment explanation
Indices: 3052694--3052738 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3052684 GGTTCTTTTC
* ***
3052694 TTTTCTCTTTTTTTTTTCTTT
1 TTTTATCTTTTTTTTTTAAAT
3052715 TTTTATCTTTTTTTTTTAAAT
1 TTTTATCTTTTTTTTTTAAAT
3052736 TTT
1 TTT
3052739 GTTTTTGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTATCTTTTTTTTTTAAAT
Found at i:3057900 original size:33 final size:32
Alignment explanation
Indices: 3057863--3057930 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
3057853 CGTTACAAGC
**
3057863 CAATGTATCGATACATTTTATGATGTATCGATA
1 CAATGTATCGATACATACTATG-TGTATCGATA
3057896 CAATGTATCGATACATACTATGTGTATCGATA
1 CAATGTATCGATACATACTATGTGTATCGATA
3057928 CAA
1 CAA
3057931 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATACTATGTGTATCGATA
Found at i:3057903 original size:13 final size:13
Alignment explanation
Indices: 3057885--3057910 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3057875 ACATTTTATG
3057885 ATGTATCGATACA
1 ATGTATCGATACA
3057898 ATGTATCGATACA
1 ATGTATCGATACA
3057911 TACTATGTGT
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:3058012 original size:20 final size:21
Alignment explanation
Indices: 3057962--3058014 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
3057952 ACCAATGACT
**
3057962 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
* *
3057983 AGTATTGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
3058003 TGTATCGATACA
1 TGTATCGATACA
3058015 ATGTATCGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:3058020 original size:13 final size:13
Alignment explanation
Indices: 3058002--3058030 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3057992 ACATTTGGTC
3058002 ATGTATCGATACA
1 ATGTATCGATACA
3058015 ATGTATCGATACA
1 ATGTATCGATACA
3058028 ATG
1 ATG
3058031 CAATCTGTAT
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:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3058041 original size:20 final size:20
Alignment explanation
Indices: 3058016--3058066 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
3058006 ATCGATACAA
*
3058016 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
3058036 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
3058056 TGTATCGATAC
1 TGTATCGATAC
3058067 TTTTCAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:3058134 original size:151 final size:151
Alignment explanation
Indices: 3057954--3058259 Score: 578
Period size: 151 Copynumber: 2.0 Consensus size: 151
3057944 CTAGCACTAC
* *
3057954 CAATGACTTGTATCGATACATTCTTTTCAAGTATTGATACATTTGGTCATGTATCGATACAATGT
1 CAATGACTTGTATAGATACATTCTTTTCAAGTATCGATACATTTGGTCATGTATCGATACAATGT
3058019 ATCGATACAATGCAATCTGTATCGATACATTTAAATGTGTATCGATACTTTTCAGGGTTTTGACC
66 ATCGATACAATGCAATCTGTATCGATACATTTAAATGTGTATCGATACTTTTCAGGGTTTTGACC
3058084 TTTTTAGCCTAAGTCAACCTT
131 TTTTTAGCCTAAGTCAACCTT
3058105 CAATGACTTGTATAGATACATTCTTTTCAAGTATCGATACATTTGGTCATGTATCGATACAATGT
1 CAATGACTTGTATAGATACATTCTTTTCAAGTATCGATACATTTGGTCATGTATCGATACAATGT
*
3058170 ATCGATACAATGCAATCTGTATCGATACATTTAAATGTGTATCGATACTTTTTAGGGTTTTGACC
66 ATCGATACAATGCAATCTGTATCGATACATTTAAATGTGTATCGATACTTTTCAGGGTTTTGACC
3058235 TTTTTAGCCTAAGTCAACCTT
131 TTTTTAGCCTAAGTCAACCTT
3058256 -AATG
1 CAATG
3058260 TATCGATACA
Statistics
Matches: 152, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
150 4 0.03
151 148 0.97
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (151 bp):
CAATGACTTGTATAGATACATTCTTTTCAAGTATCGATACATTTGGTCATGTATCGATACAATGT
ATCGATACAATGCAATCTGTATCGATACATTTAAATGTGTATCGATACTTTTCAGGGTTTTGACC
TTTTTAGCCTAAGTCAACCTT
Found at i:3058171 original size:13 final size:13
Alignment explanation
Indices: 3058153--3058181 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3058143 ACATTTGGTC
3058153 ATGTATCGATACA
1 ATGTATCGATACA
3058166 ATGTATCGATACA
1 ATGTATCGATACA
3058179 ATG
1 ATG
3058182 CAATCTGTAT
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:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3058192 original size:20 final size:20
Alignment explanation
Indices: 3058167--3058217 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
3058157 ATCGATACAA
*
3058167 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
3058187 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
3058207 TGTATCGATAC
1 TGTATCGATAC
3058218 TTTTTAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:3066376 original size:33 final size:32
Alignment explanation
Indices: 3066339--3066406 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
3066329 CGTTACAAGC
**
3066339 CAATGTATCGATACATTTTATGATGTATCGATA
1 CAATGTATCGATACATACTATG-TGTATCGATA
*
3066372 CAATGTATCGATACATACTGTGTGTATCGATA
1 CAATGTATCGATACATACTATGTGTATCGATA
3066404 CAA
1 CAA
3066407 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATACTATGTGTATCGATA
Found at i:3066379 original size:13 final size:13
Alignment explanation
Indices: 3066361--3066386 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3066351 ACATTTTATG
3066361 ATGTATCGATACA
1 ATGTATCGATACA
3066374 ATGTATCGATACA
1 ATGTATCGATACA
3066387 TACTGTGTGT
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:3074803 original size:79 final size:77
Alignment explanation
Indices: 3074695--3075207 Score: 353
Period size: 79 Copynumber: 6.5 Consensus size: 77
3074685 AAAAATTGGA
* * * **
3074695 TTGGAGTGTACCCTCAAAAATAACAAGGTTGAAGTATCCCTAATTATAGAAAATCGATGTTTTGG
1 TTGGAGTATCCCCTCGAAAATAACAAGGTTGAAGTATCCC-AATGGT-GAAAATCGATGTTTTGG
*
3074760 AAATAAAACC-GAGT
64 AAATAAAACCAG-GG
** * * *
3074774 TTGGAGTATCCCCTCGAAAATAATGAGGTTGGAGTATTCCCGATGGTGAAAAATTAGA-GTTTTG
1 TTGGAGTATCCCCTCGAAAATAACAAGGTTGAAGTA-TCCCAATGGTG-AAAA-TCGATGTTTTG
*
3074838 AAAAT-AAACCTAGGG
63 GAAATAAAACC-AGGG
* * * * * * *
3074853 TTGGATTATCCTCTTGAAAATAACGAGGTTAAAATATCCCCAATGGTGGAAAAT-TAGTGTTTTG
1 TTGGAGTATCCCCTCGAAAATAACAAGGTTGAAGTAT-CCCAATGGT-GAAAATCGA-TGTTTTG
*
3074917 GAAAGAAAACCAGGG
63 GAAATAAAACCAGGG
* *
3074932 TTGGAGTATCCCCT-TAGAAATAAC-AGGATT-AGAGTATCACCAATGGTGAAAATCGGTGTTTT
1 TTGGAGTATCCCCTCGA-AAATAACAAGG-TTGA-AGTATC-CCAATGGTGAAAATCGATGTTTT
* *
3074994 GGAAATAAAATCGGGG
62 GGAAATAAAACCAGGG
* * *
3075010 TTAGAGTATTCCCTCAAAAATAACAAGGTT-AGAGTATCCCCAATGGTGGAAAATC-AGTGTTTT
1 TTGGAGTATCCCCTCGAAAATAACAAGGTTGA-AGTAT-CCCAATGGT-GAAAATCGA-TGTTTT
3075073 GGAAATAAAACCAGGG
62 GGAAATAAAACCAGGG
* * *** * ** ** * *
3075089 TTGGAGTATCCTCTAGGAAAA-AATGGGGTTGGAGTATCCTTGATTATAAAAAATCGATATTTTG
1 TTGGAGTATCCCCT-CGAAAATAACAAGGTTGAAGTATCC-CAATGGT-GAAAATCGATGTTTTG
* **
3075153 GAAACAAAATTAGGG
63 GAAATAAAACCAGGG
* * * *
3075168 TTGGAGTATCCCCTCGGAAATAATAAGGTTGGAGCATCCC
1 TTGGAGTATCCCCTCGAAAATAACAAGGTTGAAGTATCCC
3075208 CGATGGTAGA
Statistics
Matches: 345, Mismatches: 64, Indels: 51
0.75 0.14 0.11
Matches are distributed among these distances:
77 1 0.00
78 81 0.23
79 244 0.71
80 19 0.06
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.27
Consensus pattern (77 bp):
TTGGAGTATCCCCTCGAAAATAACAAGGTTGAAGTATCCCAATGGTGAAAATCGATGTTTTGGAA
ATAAAACCAGGG
Found at i:3075124 original size:157 final size:155
Alignment explanation
Indices: 3074705--3075127 Score: 451
Period size: 157 Copynumber: 2.7 Consensus size: 155
3074695 TTGGAGTGTA
* ** *
3074705 CCCTCAAAAATAACAAGGTT-GAAGTATCCCTAATTATAGAAAATC-GATGTTTTGGAAATAAAA
1 CCCTCAAAAATAACAAGGTTAG-AGTATCCCCAATGGTGGAAAATCAG-TGTTTTGGAAATAAAA
* * * * *
3074768 CC-GAGTTTGGAGTATCCCCTCGAAAATAATGAGGTTGGAGTATTCCCGATGGTGAAAAATTAGA
64 CCAG-GGTTGGAGTATCCCCTAGAAAA-AATGGGGTTGGAGTA-TCCCAATGGTGAAAAATCAGA
* *
3074832 GTTTTGAAAATAAACCTAGGGTTGGATTAT
126 GTTTTGAAAATAAACCTAGGGTTAGAGTAT
** * * * * *
3074862 CCTCTTGAAAATAACGAGGTTAAAATATCCCCAATGGTGGAAAATTAGTGTTTTGGAAAGAAAAC
1 CC-CTCAAAAATAACAAGGTTAGAGTATCCCCAATGGTGGAAAATCAGTGTTTTGGAAATAAAAC
* ** * * * *
3074927 CAGGGTTGGAGTATCCCCTTAGAAATAACAGGATTAGAGTATCACCAATGGTG-AAAATCGGTGT
65 CAGGGTTGGAGTATCCCC-TAGAAAAAATGGGGTTGGAGTATC-CCAATGGTGAAAAATCAGAGT
* * *
3074991 TTTGGAAATAAA-ATCGGGGTTAGAGTATT
128 TTTGAAAATAAACCT-AGGGTTAGAGTA-T
3075020 CCCTCAAAAATAACAAGGTTAGAGTATCCCCAATGGTGGAAAATCAGTGTTTTGGAAATAAAACC
1 CCCTCAAAAATAACAAGGTTAGAGTATCCCCAATGGTGGAAAATCAGTGTTTTGGAAATAAAACC
*
3075085 AGGGTTGGAGTATCCTCTAGGAAAAAATGGGGTTGGAGTATCC
66 AGGGTTGGAGTATCCCCTA-GAAAAAATGGGGTTGGAGTATCC
3075128 TTGATTATAA
Statistics
Matches: 216, Mismatches: 41, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
156 4 0.02
157 121 0.56
158 84 0.39
159 7 0.03
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (155 bp):
CCCTCAAAAATAACAAGGTTAGAGTATCCCCAATGGTGGAAAATCAGTGTTTTGGAAATAAAACC
AGGGTTGGAGTATCCCCTAGAAAAAATGGGGTTGGAGTATCCCAATGGTGAAAAATCAGAGTTTT
GAAAATAAACCTAGGGTTAGAGTAT
Found at i:3075156 original size:236 final size:236
Alignment explanation
Indices: 3074743--3075190 Score: 515
Period size: 236 Copynumber: 1.9 Consensus size: 236
3074733 CCTAATTATA
* * * ** *
3074743 GAAAATCGATGTTTTGGAAATAAAACCGAGTTTGGAGTATCCCCTCGAAAATAATGAGGTTGGAG
1 GAAAATCGATGTTTTGGAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAACAAGGTTAGAG
* * * * *
3074808 TATTCCCGATGGTGAAAAATTAGAGTTTTGAAAATAAACCTAGGGTTGGATTATCCTCTTGAAAA
66 TATCCCCAATGGTGAAAAATCAGAGTTTTGAAAATAAACCTAGGGTTGGAGTATCCTCTGGAAAA
* ** * * *
3074873 TAACGAGGTTAAAATATCCCCAATGGTGGAAAATTAGTGTTTTGGAAAGAAAACCAGGGTTGGAG
131 TAACGAGGTTAAAATATCCCCAATGATAAAAAATGAGTATTTTGGAAACAAAACCAGGGTTGGAG
*
3074938 TATCCCCTTAGAAATAACAGGATTAGAGTATCACCAATGGT
196 TATCCCCTCAGAAATAACAGGATTAGAGTATCACCAATGGT
* * * *
3074979 GAAAATCGGTGTTTTGGAAATAAAATCGGGGTTAGAGTATTCCCTCAAAAATAACAAGGTTAGAG
1 GAAAATCGATGTTTTGGAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAACAAGGTTAGAG
* * *
3075044 TATCCCCAATGGTGGAAAATCAGTGTTTTGGAAATAAAACC-AGGGTTGGAGTATCCTCTAGGAA
66 TATCCCCAATGGTGAAAAATCAGAGTTTTGAAAAT-AAACCTAGGGTTGGAGTATCCTCT-GGAA
* * ** * *** * **
3075108 AA-AATGGGGTTGGAGTATCCTTGATTATAAAAAATCGA-TATTTTGGAAACAAAATTAGGGTTG
129 AATAACGAGGTTAAAATATCCCCAATGATAAAAAAT-GAGTATTTTGGAAACAAAACCAGGGTTG
*
3075171 GAGTATCCCCTCGGAAATAA
193 GAGTATCCCCTCAGAAATAA
3075191 TAAGGTTGGA
Statistics
Matches: 172, Mismatches: 37, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
236 161 0.94
237 11 0.06
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (236 bp):
GAAAATCGATGTTTTGGAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAACAAGGTTAGAG
TATCCCCAATGGTGAAAAATCAGAGTTTTGAAAATAAACCTAGGGTTGGAGTATCCTCTGGAAAA
TAACGAGGTTAAAATATCCCCAATGATAAAAAATGAGTATTTTGGAAACAAAACCAGGGTTGGAG
TATCCCCTCAGAAATAACAGGATTAGAGTATCACCAATGGT
Found at i:3075229 original size:79 final size:78
Alignment explanation
Indices: 3074754--3075240 Score: 383
Period size: 79 Copynumber: 6.2 Consensus size: 78
3074744 AAAATCGATG
* * * *
3074754 TTTTGGAAATAAAACC-GAGTTTGGAGTATCCCCTCGAAAATAATGAGGTTGGAGTATTCCCGAT
1 TTTTGGAAATAAAACCAG-GGTTGGAGTATCCCCTCGAAAATAATGAGGTTAGAGTATCCCCAAT
3074818 GGTGAAAAATTAG-A
65 GGTG-AAAATTAGTA
* * * * * * *
3074832 GTTTTGAAAAT-AAACCTAGGGTTGGATTATCCTCTTGAAAATAACGAGGTTAAAATATCCCCAA
1 -TTTTGGAAATAAAACC-AGGGTTGGAGTATCCCCTCGAAAATAATGAGGTTAGAGTATCCCCAA
*
3074896 TGGTGGAAAATTAGTG
64 TGGT-GAAAATTAGTA
* * * *
3074912 TTTTGGAAAGAAAACCAGGGTTGGAGTATCCCCT-TAGAAATAA-CAGGATTAGAGTATCACCAA
1 TTTTGGAAATAAAACCAGGGTTGGAGTATCCCCTCGA-AAATAATGAGG-TTAGAGTATCCCCAA
** *
3074975 TGGTGAAAATCGGTG
64 TGGTGAAAATTAGTA
* * * * * **
3074990 TTTTGGAAATAAAATCGGGGTTAGAGTATTCCCTCAAAAATAACAAGGTTAGAGTATCCCCAATG
1 TTTTGGAAATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAATGAGGTTAGAGTATCCCCAATG
* *
3075055 GTGGAAAATCAGTG
66 GT-GAAAATTAGTA
* * * * ***
3075069 TTTTGGAAATAAAACCAGGGTTGGAGTATCCTCTAGGAAAA-AATGGGGTTGGAGTATCCTTGAT
1 TTTTGGAAATAAAACCAGGGTTGGAGTATCCCCT-CGAAAATAATGAGGTTAGAGTATCCCCAAT
** * * *
3075133 TATAAAAAATCGATA
65 GGTGAAAATTAG-TA
* ** * * * * *
3075148 TTTTGGAAACAAAATTAGGGTTGGAGTATCCCCTCGGAAATAATAAGGTTGGAGCATCCCCGATG
1 TTTTGGAAATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAATGAGGTTAGAGTATCCCCAATG
*
3075213 GTAGAATATTAGTA
66 GT-GAAAATTAGTA
*
3075227 TTTTAGAAATAAAA
1 TTTTGGAAATAAAA
3075241 ACATGAATGA
Statistics
Matches: 322, Mismatches: 72, Indels: 28
0.76 0.17 0.07
Matches are distributed among these distances:
78 80 0.25
79 226 0.70
80 16 0.05
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (78 bp):
TTTTGGAAATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAATGAGGTTAGAGTATCCCCAATG
GTGAAAATTAGTA
Found at i:3077677 original size:20 final size:20
Alignment explanation
Indices: 3077651--3077705 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
3077641 GTTTTACCCG
*
3077651 GATGTATCGATACAATGAA-
1 GATGTATCGATACAATAAAT
*
3077670 GAATGTATTGATACAATAAAT
1 G-ATGTATCGATACAATAAAT
3077691 GATGTATCGATACAA
1 GATGTATCGATACAA
3077706 ATTGTGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.29
Consensus pattern (20 bp):
GATGTATCGATACAATAAAT
Found at i:3078424 original size:15 final size:15
Alignment explanation
Indices: 3078404--3078433 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3078394 ACATTAAAAT
3078404 TGTATCAATACAATA
1 TGTATCAATACAATA
*
3078419 TGTATCGATACAATA
1 TGTATCAATACAATA
3078434 CATTCATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (15 bp):
TGTATCAATACAATA
Found at i:3080286 original size:19 final size:19
Alignment explanation
Indices: 3080262--3080302 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
3080252 GAATTGGCTT
3080262 TTGTCATCAG-TCATATGTC
1 TTGTCA-CAGATCATATGTC
*
3080281 TTGTCACCGATCATATGTC
1 TTGTCACAGATCATATGTC
3080300 TTG
1 TTG
3080303 AGCATCCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (19 bp):
TTGTCACAGATCATATGTC
Found at i:3083179 original size:21 final size:22
Alignment explanation
Indices: 3083136--3083194 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
3083126 AGTGTATTTA
3083136 CTTGAAAAACATTATTTCTTTGT
1 CTTGAAAAACATT-TTTCTTTGT
3083159 -TTGAAAAACATTTGTTC-TTGT
1 CTTGAAAAACATTT-TTCTTTGT
*
3083180 CTTTAAAAA-ATTTTT
1 CTTGAAAAACATTTTT
3083195 GATACTAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
20 2 0.06
21 9 0.27
22 22 0.67
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.49
Consensus pattern (22 bp):
CTTGAAAAACATTTTTCTTTGT
Found at i:3084322 original size:76 final size:74
Alignment explanation
Indices: 3084230--3084499 Score: 274
Period size: 76 Copynumber: 3.6 Consensus size: 74
3084220 CAGTTTAATT
*
3084230 TCAATTTGTTTTGGTTGTTGATAAAAATTATAAAAACAACATATTTCCCATTATGTTCTTCTTCT
1 TCAATTTGTTTTGGTTGTTGATAAAAATTTTAAAAAC-ACATATTTCCCATTATGTTCTTCTTCT
*
3084295 TCAAGCTGTTA
65 T-AAGCTATTA
* *
3084306 TCAATTTGTTTTGGTTGTTGATAAAAATTTTAGAAACA-ATATATTCCCTATCATGTTCTTCTTC
1 TCAATTTGTTTTGGTTGTTGATAAAAATTTTAAAAACACATAT-TTCCC-ATTATGTTCTTCTTC
* *
3084370 TTTAGGCCATTA
64 -TTAAGCTATTA
* * * * ** * * *
3084382 TCAACTTGTTTTGTTTGCTAATGGAAATTTTAGAAATCACATATTCCCCATTATGTTCCTT-TCC
1 TCAATTTGTTTTGGTTGTTGATAAAAATTTTA-AAAACACATATTTCCCATTATGTT-CTTCTTC
* *
3084446 TTTAGCCTATCA
64 TTAAG-CTATTA
* * *
3084458 TCATTTTATTTCGGTTGTTGATAAAAATTTTAAAAACACATA
1 TCAATTTGTTTTGGTTGTTGATAAAAATTTTAAAAACACATA
3084500 ATCCTTATTG
Statistics
Matches: 156, Mismatches: 31, Indels: 15
0.77 0.15 0.07
Matches are distributed among these distances:
74 4 0.03
75 18 0.12
76 117 0.75
77 13 0.08
78 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.44
Consensus pattern (74 bp):
TCAATTTGTTTTGGTTGTTGATAAAAATTTTAAAAACACATATTTCCCATTATGTTCTTCTTCTT
AAGCTATTA
Found at i:3084743 original size:92 final size:92
Alignment explanation
Indices: 3084638--3084842 Score: 331
Period size: 92 Copynumber: 2.2 Consensus size: 92
3084628 TAGACCACAC
* * *
3084638 ATTCCAAATCATATCCCTTTCATCCAATCACTAGATGGTATTGATGCATCATAAAGCCTGATTTC
1 ATTCCCAATCATATCCCTTTCATCCAATCACTAGATGGTATTGATACATCACAAAGCCTGATTTC
*
3084703 CTTGGGACAAGGATATCTCGACCACTT
66 CTTGGGACAAGGATATCCCGACCACTT
3084730 ATTCCCAATCATATCCAC-TTCATCCAATCACTAGATGGTATTGATACATCACAAAGCCTGATTT
1 ATTCCCAATCATATCC-CTTTCATCCAATCACTAGATGGTATTGATACATCACAAAGCCTGATTT
*
3084794 CCTTGGGGCAAGGATATCCCGACCACTT
65 CCTTGGGACAAGGATATCCCGACCACTT
* *
3084822 ATTTCCAACCATATCCCTTTC
1 ATTCCCAATCATATCCCTTTC
3084843 TTTTAGCCAC
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
91 1 0.01
92 102 0.98
93 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.31
Consensus pattern (92 bp):
ATTCCCAATCATATCCCTTTCATCCAATCACTAGATGGTATTGATACATCACAAAGCCTGATTTC
CTTGGGACAAGGATATCCCGACCACTT
Found at i:3084854 original size:92 final size:92
Alignment explanation
Indices: 3084638--3084874 Score: 298
Period size: 92 Copynumber: 2.6 Consensus size: 92
3084628 TAGACCACAC
* * * *
3084638 ATTCCAAATCATATCC-CTTTCATCCAATCACTAGATGGTATTGATGCATCATAAAGCCTGATTT
1 ATTCCCAACCATATCCAC-TTCATCCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATTT
*
3084702 CCTTGGGACAAGGATATCTCGACCACTT
65 CCTTGGGACAAGGATATCCCGACCACTT
* * *
3084730 ATTCCCAATCATATCCACTTCATCCAATCACTAGATGGTATTGATACATCACAAAGCCTGATTTC
1 ATTCCCAACCATATCCACTTCATCCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATTTC
*
3084795 CTTGGGGCAAGGATATCCCGACCACTT
66 CTTGGGACAAGGATATCCCGACCACTT
* * ** * * *
3084822 ATTTCCAACCATATCC-CTTTCTTTTAGCCACTATATGATATTGATGCATCACA
1 ATTCCCAACCATATCCAC-TTCATCCAACCACTAGATGGTATTGATGCATCACA
3084875 TGACCACAAA
Statistics
Matches: 128, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
91 1 0.01
92 126 0.98
93 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (92 bp):
ATTCCCAACCATATCCACTTCATCCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATTTC
CTTGGGACAAGGATATCCCGACCACTT
Found at i:3085037 original size:171 final size:172
Alignment explanation
Indices: 3084729--3085105 Score: 456
Period size: 171 Copynumber: 2.2 Consensus size: 172
3084719 CTCGACCACT
* * * * *
3084729 TATTCCCAATCATATCCA-CTTCATCCAATCACTAGATGGTATTGATACATCACAAAGCCTGATT
1 TATTCCCAATCATA-CCATTTTCCTTCACTCACTAAATGGTATTGATACATCACAAAGCCTGATT
** * *
3084793 TCCTTGGGGCAAGGATATCCCGACCACTTATTTCCAACCATATCCCTTTCTTTTAGCCACTATAT
65 TCCTTAAGGCAAGGATATCCCGACCACTCATTTCCAACCATATCCCTTTCTTTTAGCCACTAGAT
3084858 GATATTGATGCATCACATGACCACAA-AGGGAAACCACCT-ATA
130 GATATTGATGCATCACATGACCACAACAGGGAAACC-CCTCATA
* * * *
3084900 TATTCCCAATCATGCCATTTTCCTTCAGTCACTAAATGGTATTGATGCATTACAAAGCCTGATTT
1 TATTCCCAATCATACCATTTTCCTTCACTCACTAAATGGTATTGATACATCACAAAGCCTGATTT
* * * * * * *
3084965 CCTTAAGGCAAGGATGTCCGGACCACTCA-TTCCTAATCATATTCTTTTTTTTTAGTCACTAGAT
66 CCTTAAGGCAAGGATATCCCGACCACTCATTTCC-AACCATATCCCTTTCTTTTAGCCACTAGAT
* * * * *
3085029 GGTATTGATGTATCACCTGACCACAACAGGGGAACCGCTCATA
130 GATATTGATGCATCACATGACCACAACAGGGAAACCCCTCATA
* *
3085072 TATTCCTAATCATACCATTTTTCTTCACTCACTA
1 TATTCCCAATCATACCATTTTCCTTCACTCACTA
3085106 GATTCCAAAT
Statistics
Matches: 174, Mismatches: 28, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
170 7 0.04
171 126 0.72
172 41 0.24
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (172 bp):
TATTCCCAATCATACCATTTTCCTTCACTCACTAAATGGTATTGATACATCACAAAGCCTGATTT
CCTTAAGGCAAGGATATCCCGACCACTCATTTCCAACCATATCCCTTTCTTTTAGCCACTAGATG
ATATTGATGCATCACATGACCACAACAGGGAAACCCCTCATA
Found at i:3085530 original size:44 final size:43
Alignment explanation
Indices: 3085481--3086454 Score: 535
Period size: 44 Copynumber: 22.2 Consensus size: 43
3085471 TAGACCTACA
* *
3085481 TCAAACTTCCTTCA-TATTTATTTGACATGATGGTTCTGCCCTGG
1 TCAAAC-TCCTTCACT-TTTGTTTGACGTGATGGTTCTGCCCTGG
*
3085525 TCAAACTCCGTTCACTTTTGTTTAACGTGATGGTT-TAGCCCTGG
1 TCAAACTCC-TTCACTTTTGTTTGACGTGATGGTTCT-GCCCTGG
* * * * *
3085569 TC-AACTCTTTTCA-TCCTTGTTTGATGTGATGGTTCTACCTTGG
1 TCAAACTC-CTTCACT-TTTGTTTGACGTGATGGTTCTGCCCTGG
* * *
3085612 TCAAACTCCTTTCACTTTCGTTTGACGTGATGGTTGTGCCCTAG
1 TCAAACTCC-TTCACTTTTGTTTGACGTGATGGTTCTGCCCTGG
* *** * * *
3085656 TCAAAC-CTTTTTTTTCTTCCATTTAACATGATAGG-TCTGCCCTGG
1 TCAAACTCCTTCACTT-TT--GTTTGACGTGAT-GGTTCTGCCCTGG
* ** * *
3085701 TTAAACTCCTTTCACTTTCATTTGACTTGATGGTTCTACCCTGG
1 TCAAACTCC-TTCACTTTTGTTTGACGTGATGGTTCTGCCCTGG
* * * *
3085745 TCAAAC-CCTTTTCACTATTATTTGACGTGATGGGTCTGCCCTAG
1 TCAAACTCC--TTCACTTTTGTTTGACGTGATGGTTCTGCCCTGG
* * *
3085789 TCAAACTCCATTCACTTCTGTTCGATGTGATGGTT-TAGCCCTGG
1 TCAAACTCC-TTCACTTTTGTTTGACGTGATGGTTCT-GCCCTGG
* * ** * * *
3085833 TCAAACTCTTTTCA-TCCTCATTTGACATGATGGTTATGCCCTAG
1 TCAAACTC-CTTCACT-TTTGTTTGACGTGATGGTTCTGCCCTGG
* * * * *
3085877 TCAAACTTCGTTCATTTTTGTTTGATGTGATGGTT-TAACCTTGG
1 TCAAAC-TCCTTCACTTTTGTTTGACGTGATGGTTCT-GCCCTGG
** * * * * *
3085921 TTGAACTCTTTTCA-TCTTTGTTTAATGTGATGGTTTTTCCCTGG
1 TCAAACTC-CTTCACT-TTTGTTTGACGTGATGGTTCTGCCCTGG
* * * *
3085965 TCAAACTCCTTTCAATTTTGTTTGACATGATGGTTGTGCCCTAG
1 TCAAACTCC-TTCACTTTTGTTTGACGTGATGGTTCTGCCCTGG
* * * *
3086009 TCAAAC-CCTTTTCACTTTTGTTTGACATGATGGTTATGCCTTAG
1 TCAAACTCC--TTCACTTTTGTTTGACGTGATGGTTCTGCCCTGG
* * *
3086053 TCAAAC-CCTTTTCACTTTTGTTTAACGTGATGGTTCTACCTTGG
1 TCAAACTCC--TTCACTTTTGTTTGACGTGATGGTTCTGCCCTGG
* * * * * *
3086097 ACAAACTCTTTTCACTATTGCTTAACGTGATGGTTCTGCCCAGG
1 TCAAACTC-CTTCACTTTTGTTTGACGTGATGGTTCTGCCCTGG
* * * *
3086141 TCAAACTTCATTCACTTTCGTTTAACGTGATGGTT-TAGCCCTTG
1 TCAAAC-TCCTTCACTTTTGTTTGACGTGATGGTTCT-GCCCTGG
* ** * * * *
3086185 TTAAACTTTTTCA-TCCTTGTTTGACGTGATGATTTTACCCTGG
1 TCAAACTCCTTCACT-TTTGTTTGACGTGATGGTTCTGCCCTGG
* * * * *
3086228 TCAAACTCTTTTCACTATCGTTTGACGTGATGGTTCTACCTTGG
1 TCAAACTC-CTTCACTTTTGTTTGACGTGATGGTTCTGCCCTGG
* * * *
3086272 TTAAACTCCATTCACTTTTGTTTGACATGATAGTT-TAGCCTTGG
1 TCAAACTCC-TTCACTTTTGTTTGACGTGATGGTTCT-GCCCTGG
* * * * * * * *
3086316 TCAAACTCTTTTCA-TCCTCGGTTGACGTAATGGTTCTTCCTTGA
1 TCAAACTC-CTTCACT-TTTGTTTGACGTGATGGTTCTGCCCTGG
* * ** * *
3086360 TCAAACTCCTTTCAATATCATTTGACGTGATGGCTCTACCCTGG
1 TCAAACTCC-TTCACTTTTGTTTGACGTGATGGTTCTGCCCTGG
* * * *
3086404 TCAAACTCCGCTCACTTTCGTTTGACATGATGGTT-TAGCCCTAG
1 TCAAACTCC-TTCACTTTTGTTTGACGTGATGGTTCT-GCCCTGG
3086448 TCAAACT
1 TCAAACT
3086455 TTTTTCATCC
Statistics
Matches: 726, Mismatches: 157, Indels: 94
0.74 0.16 0.10
Matches are distributed among these distances:
42 6 0.01
43 85 0.12
44 589 0.81
45 38 0.05
46 4 0.01
47 4 0.01
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (43 bp):
TCAAACTCCTTCACTTTTGTTTGACGTGATGGTTCTGCCCTGG
Found at i:3086390 original size:219 final size:219
Alignment explanation
Indices: 3085982--3086392 Score: 477
Period size: 219 Copynumber: 1.9 Consensus size: 219
3085972 CCTTTCAATT
* * * * *
3085982 TTGTTTGACATGATGGTTGTGCCCTAGTCAAACCCTTTTCACTTTTGTTTGACATGATGGTTATG
1 TTGTTTGACATGATGATTGTACCCTAGTCAAACCCTTTTCACTATCGTTTGACATGATGGTTATA
* * *
3086047 CCTTAGTCAAACCCTTTTCACTTTTGTTTAACGTGATGGTTCTACCTTGGACAAACTCTTTTCAC
66 CCTTAGTCAAACCCTATTCACTTTTGTTTAACATGATAGTTCTACCTTGGACAAACTCTTTTCAC
* * * * * * *
3086112 TATTGCTTAACGTGATGGTTCTGCCCAGGTCAAACTTCATTCACTTTCGTTTAACGTGATGGTTT
131 TATCGCTTAACGTAATGGTTCTGCCCAGATCAAACTCCATTCAATATCATTTAACGTGATGGTTT
3086177 AGCCCTTGTTAAACTTTTTCATCC
196 AGCCCTTGTTAAACTTTTTCATCC
* * * * * *
3086201 TTGTTTGACGTGATGATTTTACCCTGGTCAAACTCTTTTCACTATCGTTTGACGTGATGGTTCTA
1 TTGTTTGACATGATGATTGTACCCTAGTCAAACCCTTTTCACTATCGTTTGACATGATGGTTATA
* * * *
3086266 CCTTGGTTAAACTCC-ATTCACTTTTGTTTGACATGATAGTT-TAGCCTTGGTCAAACTCTTTTC
66 CCTTAGTCAAAC-CCTATTCACTTTTGTTTAACATGATAGTTCTA-CCTTGGACAAACTCTTTTC
* * * * ** * *
3086329 A-TCCTCGGTTGACGTAATGGTTCTTCCTTGATCAAACTCCTTTCAATATCATTTGACGTGATGG
129 ACT-ATCGCTTAACGTAATGGTTCTGCCCAGATCAAACTCCATTCAATATCATTTAACGTGATGG
3086393 CTCTACCCTG
Statistics
Matches: 156, Mismatches: 33, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
218 3 0.02
219 151 0.97
220 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.41
Consensus pattern (219 bp):
TTGTTTGACATGATGATTGTACCCTAGTCAAACCCTTTTCACTATCGTTTGACATGATGGTTATA
CCTTAGTCAAACCCTATTCACTTTTGTTTAACATGATAGTTCTACCTTGGACAAACTCTTTTCAC
TATCGCTTAACGTAATGGTTCTGCCCAGATCAAACTCCATTCAATATCATTTAACGTGATGGTTT
AGCCCTTGTTAAACTTTTTCATCC
Found at i:3086454 original size:88 final size:89
Alignment explanation
Indices: 3085498--3086498 Score: 754
Period size: 88 Copynumber: 11.4 Consensus size: 89
3085488 TCCTTCATAT
* * *
3085498 TTATTTGACATGATGGTTCTGCCCTGGTCAAACTCCGTTCACTTTTGTTTAACGTGATGGTT-TA
1 TTATTTGACATGATGGTTCTGCCCTGGTCAAACTCCTTTCACTTTCGTTTGACGTGATGGTTCTA
3085562 GCCCTGGTC-AACTCTTTTCATCC
66 GCCCTGGTCAAACTCTTTTCATCC
* ** * * *
3085585 TTGTTTGATGTGATGGTTCTACCTTGGTCAAACTCCTTTCACTTTCGTTTGACGTGATGGTTGT-
1 TTATTTGACATGATGGTTCTGCCCTGGTCAAACTCCTTTCACTTTCGTTTGACGTGATGGTTCTA
* ** *
3085649 GCCCTAGTCAAAC-CTTTTTTTTC
66 GCCCTGGTCAAACTCTTTTCATCC
* * * *
3085672 TTCCATTTAACATGATAGG-TCTGCCCTGGTTAAACTCCTTTCACTTTCATTTGACTTGATGGTT
1 TT--ATTTGACATGAT-GGTTCTGCCCTGGTCAAACTCCTTTCACTTTCGTTTGACGTGATGGTT
* *
3085736 CTA-CCCTGGTCAAACCCTTTTCA-CTA
63 CTAGCCCTGGTCAAACTCTTTTCATC-C
* * * * * *
3085762 TTATTTGACGTGATGGGTCTGCCCTAGTCAAACTCCATTCAC-TTCTGTTCGATGTGATGGTT-T
1 TTATTTGACATGATGGTTCTGCCCTGGTCAAACTCCTTTCACTTTC-GTTTGACGTGATGGTTCT
3085825 AGCCCTGGTCAAACTCTTTTCATCC
65 AGCCCTGGTCAAACTCTTTTCATCC
* * * * * * * *
3085850 TCATTTGACATGATGGTTATGCCCTAGTCAAACTTCGTTCATTTTTGTTTGATGTGATGGTT-TA
1 TTATTTGACATGATGGTTCTGCCCTGGTCAAACTCCTTTCACTTTCGTTTGACGTGATGGTTCTA
* * ** *
3085914 ACCTTGGTTGAACTCTTTTCATCT
66 GCCCTGGTCAAACTCTTTTCATCC
* * ** * * * * * *
3085938 TTGTTTAATGTGATGGTTTTTCCCTGGTCAAACTCCTTTCAATTTTGTTTGACATGATGGTTGT-
1 TTATTTGACATGATGGTTCTGCCCTGGTCAAACTCCTTTCACTTTCGTTTGACGTGATGGTTCTA
* * *
3086002 GCCCTAGTCAAACCCTTTTCA-CTT
66 GCCCTGGTCAAACTCTTTTCATC-C
* * * * * *
3086026 TTGTTTGACATGATGGTTATGCCTTAGTCAAAC-CCTTTTCACTTTTGTTTAACGTGATGGTTCT
1 TTATTTGACATGATGGTTCTGCCCTGGTCAAACTCC-TTTCACTTTCGTTTGACGTGATGGTTCT
* * *
3086090 A-CCTTGGACAAACTCTTTTCA-CTA
65 AGCCCTGGTCAAACTCTTTTCATC-C
** * * * * * *
3086114 TTGCTTAACGTGATGGTTCTGCCCAGGTCAAACTTCATTCACTTTCGTTTAACGTGATGGTT-TA
1 TTATTTGACATGATGGTTCTGCCCTGGTCAAACTCCTTTCACTTTCGTTTGACGTGATGGTTCTA
* *
3086178 GCCCTTGTTAAACT-TTTTCATCC
66 GCCCTGGTCAAACTCTTTTCATCC
* * * * * * *
3086201 TTGTTTGACGTGATGATTTTACCCTGGTCAAACTCTTTTCACTATCGTTTGACGTGATGGTTCTA
1 TTATTTGACATGATGGTTCTGCCCTGGTCAAACTCCTTTCACTTTCGTTTGACGTGATGGTTCTA
* * ** *
3086266 -CCTTGGTTAAACTCCATTCA-CTT
66 GCCCTGGTCAAACTCTTTTCATC-C
* * * * * * *
3086289 TTGTTTGACATGATAGTT-TAGCCTTGGTCAAACTCTTTTCA-TCCTCGGTTGACGTAATGGTTC
1 TTATTTGACATGATGGTTCT-GCCCTGGTCAAACTCCTTTCACT-TTCGTTTGACGTGATGGTTC
* * * * *
3086352 T-TCCTTGATCAAACTCCTTTCAAT-A
64 TAGCCCTGGTCAAACTCTTTTC-ATCC
* * * * ** *
3086377 TCATTTGACGTGATGGCTCTACCCTGGTCAAACTCCGCTCACTTTCGTTTGACATGATGGTT-TA
1 TTATTTGACATGATGGTTCTGCCCTGGTCAAACTCCTTTCACTTTCGTTTGACGTGATGGTTCTA
* *
3086441 GCCCTAGTCAAACTTTTTTCATCC
66 GCCCTGGTCAAACTCTTTTCATCC
* * ** *
3086465 TCATTCGACATGATGGTTCAACCTTGGTCAAACT
1 TTATTTGACATGATGGTTCTGCCCTGGTCAAACT
3086499 TGTTATGTTT
Statistics
Matches: 726, Mismatches: 156, Indels: 63
0.77 0.17 0.07
Matches are distributed among these distances:
87 157 0.22
88 492 0.68
89 68 0.09
90 9 0.01
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (89 bp):
TTATTTGACATGATGGTTCTGCCCTGGTCAAACTCCTTTCACTTTCGTTTGACGTGATGGTTCTA
GCCCTGGTCAAACTCTTTTCATCC
Found at i:3086466 original size:132 final size:132
Alignment explanation
Indices: 3085501--3086463 Score: 715
Period size: 132 Copynumber: 7.3 Consensus size: 132
3085491 TTCATATTTA
* * ** * *
3085501 TTTGACATGATGGTTCT-GCCCTGGTCAAACTCCGTTCA-CTTTTGTTTAACGTGATGGTT-TAG
1 TTTGACGTGATGGTT-TAGCCCTAGTCAAACTCTTTTCATC-TTCGTTTAACGTGATGGTTCT-T
* * ** * *
3085563 CCCTGGTC-AACTCTTTTC-ATCCTTGTTTGATGTGATGGTTCTACCTTGGTCAAACTCCTTTCA
63 CCCTGGTCAAACTCCTTTCAAT-ATCATTTGACGTGATGGTTCTACCCTGGTCAAACTCCTTTCA
3085626 CTTTCG
127 CTTTCG
** * *
3085632 TTTGACGTGATGGTTGT-GCCCTAGTCAAAC-CTTTTTTTTCTTCCATTTAACATGATAGG-TCT
1 TTTGACGTGATGGTT-TAGCCCTAGTCAAACTC-TTTTCATCTT-CGTTTAACGTGAT-GGTTCT
* * * * *
3085694 GCCCTGGTTAAACTCCTTTCACTTTCATTTGACTTGATGGTTCTACCCTGGTCAAAC-CCTTTTC
62 TCCCTGGTCAAACTCCTTTCAATATCATTTGACGTGATGGTTCTACCCTGGTCAAACTCC-TTTC
*
3085758 ACTATT-A
126 ACT-TTCG
* ** ** * *
3085765 TTTGACGTGATGGGTCT-GCCCTAGTCAAACTCCATTCA-CTTCTGTTCGATGTGATGGTT-TAG
1 TTTGACGTGAT-GGTTTAGCCCTAGTCAAACTCTTTTCATCTTC-GTTTAACGTGATGGTTCT-T
* * * * * * * *
3085827 CCCTGGTCAAACTCTTTTC-ATCCTCATTTGACATGATGGTTATGCCCTAGTCAAACTTCGTTCA
63 CCCTGGTCAAACTCCTTTCAAT-ATCATTTGACGTGATGGTTCTACCCTGGTCAAACTCCTTTCA
* *
3085891 TTTTTG
127 CTTTCG
* * * * ** * * *
3085897 TTTGATGTGATGGTTTAACCTTGGTTGAACTCTTTTCATCTTTGTTTAATGTGATGGTTTTTCCC
1 TTTGACGTGATGGTTTAGCCCTAGTCAAACTCTTTTCATCTTCGTTTAACGTGATGGTTCTTCCC
* ** * * * *
3085962 TGGTCAAACTCCTTTCAATTTTGTTTGACATGATGGTTGTGCCCTAGTCAAAC-CCTTTTCACTT
66 TGGTCAAACTCCTTTCAATATCATTTGACGTGATGGTTCTACCCTGGTCAAACTCC-TTTCACTT
*
3086026 TTG
130 TCG
* * * * *
3086029 TTTGACATGATGG-TTATGCCTTAGTCAAACCCTTTTCA-CTTTTGTTTAACGTGATGGTTCTAC
1 TTTGACGTGATGGTTTA-GCCCTAGTCAAACTCTTTTCATC-TTCGTTTAACGTGATGGTTCTTC
* * * * *** * * * * *
3086092 CTTGGACAAACTCTTTTCACTATTGCTTAACGTGATGGTTCTGCCCAGGTCAAACTTCATTCACT
64 CCTGGTCAAACTCCTTTCAATATCATTTGACGTGATGGTTCTACCCTGGTCAAACTCCTTTCACT
3086157 TTCG
129 TTCG
* * * * *
3086161 TTTAACGTGATGGTTTAGCCCTTGTTAAACT-TTTTCATCCTT-GTTTGACGTGATGATT-TTAC
1 TTTGACGTGATGGTTTAGCCCTAGTCAAACTCTTTTCAT-CTTCGTTTAACGTGATGGTTCTT-C
* * * * * *
3086223 CCTGGTCAAACTCTTTTCACTATCGTTTGACGTGATGGTTCTACCTTGGTTAAACTCCATTCACT
64 CCTGGTCAAACTCCTTTCAATATCATTTGACGTGATGGTTCTACCCTGGTCAAACTCCTTTCACT
*
3086288 TTTG
129 TTCG
* * * * * * * * *
3086292 TTTGACATGATAGTTTAGCCTTGGTCAAACTCTTTTCATCCTCGGTTGACGTAATGGTTCTTCCT
1 TTTGACGTGATGGTTTAGCCCTAGTCAAACTCTTTTCATCTTCGTTTAACGTGATGGTTCTTCCC
* * **
3086357 TGATCAAACTCCTTTCAATATCATTTGACGTGATGGCTCTACCCTGGTCAAACTCCGCTCACTTT
66 TGGTCAAACTCCTTTCAATATCATTTGACGTGATGGTTCTACCCTGGTCAAACTCCTTTCACTTT
3086422 CG
131 CG
* *
3086424 TTTGACATGATGGTTTAGCCCTAGTCAAACTTTTTTCATC
1 TTTGACGTGATGGTTTAGCCCTAGTCAAACTCTTTTCATC
3086464 CTCATTCGAC
Statistics
Matches: 668, Mismatches: 132, Indels: 63
0.77 0.15 0.07
Matches are distributed among these distances:
130 2 0.00
131 153 0.23
132 418 0.63
133 88 0.13
134 7 0.01
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (132 bp):
TTTGACGTGATGGTTTAGCCCTAGTCAAACTCTTTTCATCTTCGTTTAACGTGATGGTTCTTCCC
TGGTCAAACTCCTTTCAATATCATTTGACGTGATGGTTCTACCCTGGTCAAACTCCTTTCACTTT
CG
Found at i:3091236 original size:63 final size:63
Alignment explanation
Indices: 3091158--3091282 Score: 175
Period size: 63 Copynumber: 2.0 Consensus size: 63
3091148 AGCAAAATTA
*
3091158 GGTTTTTACTGATGCT-AAGAAAAATAA-AAGTTGC-AGCTACCAAAGAAAAAAAATTAGGTTTT
1 GGTTTTTACTGATGCTAAAG-AAAATAAGAA-TTGCGA-CTACCAAAGAAAAAAAATTAGATTTT
3091220 G
63 G
**
3091221 GGTTTTTACTGATGCTAAAGAAAATAAGAATTGCGACTACCAAAGGTAAAAAATTAGATTTT
1 GGTTTTTACTGATGCTAAAGAAAATAAGAATTGCGACTACCAAAGAAAAAAAATTAGATTTT
3091283 CAGTTTTAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
63 50 0.89
64 6 0.11
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (63 bp):
GGTTTTTACTGATGCTAAAGAAAATAAGAATTGCGACTACCAAAGAAAAAAAATTAGATTTTG
Found at i:3091591 original size:18 final size:17
Alignment explanation
Indices: 3091568--3091624 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 17
3091558 AATTATTTAA
3091568 AAATTAATTTTATTAAAT
1 AAATTAATTTTA-TAAAT
*
3091586 AAATTAATTTTATATAT
1 AAATTAATTTTATAAAT
3091603 AAATATAGATTTTAATAAAT
1 AAAT-TA-ATTTT-ATAAAT
3091623 AA
1 AA
3091625 GTATGTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.24
18 14 0.41
19 5 0.15
20 7 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
AAATTAATTTTATAAAT
Found at i:3091823 original size:16 final size:16
Alignment explanation
Indices: 3091787--3091835 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
3091777 TGAACTCGAA
*
3091787 CCCAAACTCGAAAAAG
1 CCCAAACTCGAAAAGG
*
3091803 TCCAAACTCGAAAAGG
1 CCCAAACTCGAAAAGG
* *
3091819 CCCAAACCCAAAAAGG
1 CCCAAACTCGAAAAGG
3091835 C
1 C
3091836 TCGAACCTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.47, C:0.33, G:0.14, T:0.06
Consensus pattern (16 bp):
CCCAAACTCGAAAAGG
Found at i:3092204 original size:25 final size:25
Alignment explanation
Indices: 3092176--3092254 Score: 58
Period size: 25 Copynumber: 3.2 Consensus size: 25
3092166 TAATTTAATG
3092176 TTATTTAACATTTAGAATCTTAAAA
1 TTATTTAACATTTAGAATCTTAAAA
* * * *
3092201 TTATAT-GCA-ATAGATAT-TTAAAG
1 TTATTTAACATTTAGA-ATCTTAAAA
* *
3092224 TTATTTAACGTTTAAAATCTTGAAAA
1 TTATTTAACATTTAGAATCTT-AAAA
3092250 -TATTT
1 TTATTT
3092255 TCATGTATAT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
23 14 0.36
24 7 0.18
25 15 0.38
26 3 0.08
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (25 bp):
TTATTTAACATTTAGAATCTTAAAA
Found at i:3092269 original size:48 final size:47
Alignment explanation
Indices: 3092159--3092266 Score: 121
Period size: 48 Copynumber: 2.3 Consensus size: 47
3092149 GAAACATGTG
* *
3092159 TCATGTATAATTTAATGTTATTTAACATTTAGAATCTTAAAATTATAT
1 TCATGTAT-ATTTAAAGTTATTTAACATTTAAAATCTTAAAATTATAT
* * *
3092207 GCAATAG-ATATTTAAAGTTATTTAACGTTTAAAATCTTGAAAA-TATTT
1 TC-AT-GTATATTTAAAGTTATTTAACATTTAAAATCTT-AAAATTATAT
3092255 TCATGTATATTT
1 TCATGTATATTT
3092267 TAATATTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
46 1 0.02
47 8 0.16
48 32 0.64
49 8 0.16
50 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.46
Consensus pattern (47 bp):
TCATGTATATTTAAAGTTATTTAACATTTAAAATCTTAAAATTATAT
Found at i:3092574 original size:3 final size:3
Alignment explanation
Indices: 3092566--3092608 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
3092556 ATCTTTCTTT
3092566 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
3092609 AATAATTTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3093348 original size:19 final size:19
Alignment explanation
Indices: 3093325--3093393 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
3093315 AAATAATTTA
3093325 AAAAATATAAAAATCAAAAT
1 AAAAAT-TAAAAATCAAAAT
* *
3093345 AAAAATTAAAAATTAAAAG
1 AAAAATTAAAAATCAAAAT
*
3093364 AATAAA--AGAAAAT-AAAAA
1 AA-AAATTA-AAAATCAAAAT
3093382 AAAAATTAAAAA
1 AAAAATTAAAAA
3093394 AAAACCTGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
17 3 0.07
18 11 0.26
19 19 0.45
20 9 0.21
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAAATTAAAAATCAAAAT
Found at i:3093391 original size:12 final size:12
Alignment explanation
Indices: 3093333--3093397 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 12
3093323 TAAAAAATAT
* *
3093333 AAAAATCAAAAT
1 AAAAATTAAAAA
3093345 AAAAATTAAAAA
1 AAAAATTAAAAA
*
3093357 TTAAAAGAAT-AAAA
1 --AAAA-ATTAAAAA
*
3093371 GAAAA-TAAAAA
1 AAAAATTAAAAA
3093382 AAAAATTAAAAA
1 AAAAATTAAAAA
3093394 AAAA
1 AAAA
3093398 CCTGCAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
10 1 0.02
11 9 0.21
12 23 0.53
14 8 0.19
15 2 0.05
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.15
Consensus pattern (12 bp):
AAAAATTAAAAA
Found at i:3094818 original size:18 final size:18
Alignment explanation
Indices: 3094795--3094831 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
3094785 TTAAAACAAT
3094795 AATAAATT-TGTTTTTGTA
1 AATAAATTAT-TTTTTGTA
3094813 AATAAATTATTTTTTGTA
1 AATAAATTATTTTTTGTA
3094831 A
1 A
3094832 TAAGGATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (18 bp):
AATAAATTATTTTTTGTA
Found at i:3095852 original size:2 final size:2
Alignment explanation
Indices: 3095847--3095885 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3095837 TCTCTCTCTC
3095847 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3095886 CGGTATTTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3098150 original size:36 final size:35
Alignment explanation
Indices: 3098096--3098172 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 35
3098086 TAATAAATTT
*
3098096 ATTTAAAAATTAATATATAATTATATTAAAAT-TAA
1 ATTTAAAAATTAATATATAATTAAATTAAAATAT-A
* *
3098131 ATTTAAATATTTAATATATATTTAAATTAAAATATA
1 ATTTAAA-AATTAATATATAATTAAATTAAAATATA
3098167 ATTTAA
1 ATTTAA
3098173 TAATAATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 7 0.19
36 29 0.78
37 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (35 bp):
ATTTAAAAATTAATATATAATTAAATTAAAATATA
Found at i:3101698 original size:15 final size:15
Alignment explanation
Indices: 3101678--3101709 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3101668 ATGTTGATGA
3101678 TGGTGGTGGTGCTGC
1 TGGTGGTGGTGCTGC
*
3101693 TGGTGGTGTTGCTGC
1 TGGTGGTGGTGCTGC
3101708 TG
1 TG
3101710 CTGTTGCTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.50, T:0.38
Consensus pattern (15 bp):
TGGTGGTGGTGCTGC
Found at i:3109605 original size:18 final size:16
Alignment explanation
Indices: 3109584--3109623 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
3109574 TTTCAACTCT
3109584 TTTTTTGTTGTTTTATAG
1 TTTTTTGTT-TTTT-TAG
*
3109602 TTTTTAGTTTTTTTAG
1 TTTTTTGTTTTTTTAG
3109618 TTTTTT
1 TTTTTT
3109624 TAAGTATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 8 0.40
17 4 0.20
18 8 0.40
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.78
Consensus pattern (16 bp):
TTTTTTGTTTTTTTAG
Found at i:3114648 original size:155 final size:156
Alignment explanation
Indices: 3114409--3114866 Score: 532
Period size: 166 Copynumber: 2.9 Consensus size: 156
3114399 ATCTAAATTC
* * * * ** *
3114409 CTCTTATTTTCAAATTACGAGATTTTTCTACTCCGTGAA-TGTTTTCGGGAGGATTTTTCTTAAT
1 CTCTT-TTTTCAAAATACGA-TTTTTTCTACTCCGTAAATTTTTTTAAGG-GGATTTTTCTTAGT
*
3114473 TTT-AATTTTTAAAATTCATCAAATATCATTATTTATTTCATATTAATTC-GTCTTAAAAAATTC
63 TTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTCAGT-TTAAAAAATTC
3114536 ATTCATTTTTT-ATTTTTTCCTTGAAACTT
127 ATTCATTTTTTGATTTTTTCCTTGAAACTT
3114565 CTCTTTTTTCAAAATACGATTTTTTCTACTCCGTAAATTTTTTTAAGGGGATTTTTCTTAGTTTT
1 CTCTTTTTTCAAAATACGATTTTTTCTACTCCGTAAATTTTTTTAAGGGGATTTTTCTTAGTTTT
*
3114630 CAATTTTTAAAATTCATCAAACATTATTATTTATTTCATATTAATTCCAGTTTCAAAAATTCATT
66 CAATTTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATT-CAGTTT-AAAAA---ATT
3114695 CATTTTCAGTCATTTTTGATTTTTTCCTTGAAACTT
126 CA--TTCA-T--TTTTTGATTTTTTCCTTGAAACTT
* * * * * * * * *
3114731 CCCTTTTTCCTAAATACGGTGTTTTCTACTTCATAAATTTTTTTGAGCGGATTTTTC-TATGTTT
1 CTCTTTTTTCAAAATACGATTTTTTCTACTCCGTAAATTTTTTTAAGGGGATTTTTCTTA-GTTT
* * *
3114795 TCAATTTTTAGAATTCATCAAACATCATCATTTGA-TTCATATTAATTCAGTTTTCAAAAATTCA
65 TCAATTTTTAAAATTCATCAAACATCATTATTT-ATTTCATATTAATTCAG-TTTAAAAAATTCA
3114859 TTCATTTT
128 TTCATTTT
3114867 CATGAGTTTT
Statistics
Matches: 263, Mismatches: 22, Indels: 33
0.83 0.07 0.10
Matches are distributed among these distances:
154 32 0.12
155 63 0.24
156 8 0.03
157 10 0.04
159 1 0.00
160 9 0.03
162 9 0.03
163 1 0.00
165 14 0.05
166 115 0.44
167 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.50
Consensus pattern (156 bp):
CTCTTTTTTCAAAATACGATTTTTTCTACTCCGTAAATTTTTTTAAGGGGATTTTTCTTAGTTTT
CAATTTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTCAGTTTAAAAAATTCATTC
ATTTTTTGATTTTTTCCTTGAAACTT
Found at i:3114812 original size:166 final size:165
Alignment explanation
Indices: 3114533--3114906 Score: 506
Period size: 166 Copynumber: 2.2 Consensus size: 165
3114523 TCTTAAAAAA
* * * * *
3114533 TTCATTCATTTTTTATTTTTTCCTTGAAACTTCTCTTTTTTCAAAATACGATTTTTTCTACTCCG
1 TTCA-TCATTTTTGATTTTTTCCTTGAAACTTCCCTTTTTCCAAAATACGATGTTTTCTACTCCA
* * *
3114598 TAAATTTTTTTAAGGGGATTTTTCTTAGTTTTCAATTTTTAAAATTCATCAAACATTATTATTT-
65 TAAATTTTTTTAAGCGGATTTTTCTTAGTTTTCAATTTTTAAAATTCATCAAACATCATCATTTG
3114662 ATTTCATATTAATTCCAG-TTTCAAAAATTCATTCATT
130 A-TTCATATTAATT-CAGTTTTCAAAAATTCATTCATT
* * *
3114699 TTCAGTCATTTTTGATTTTTTCCTTGAAACTTCCCTTTTTCCTAAATACGGTGTTTTCTACTTCA
1 TTCA-TCATTTTTGATTTTTTCCTTGAAACTTCCCTTTTTCCAAAATACGATGTTTTCTACTCCA
* *
3114764 TAAATTTTTTTGAGCGGATTTTTC-TATGTTTTCAATTTTTAGAATTCATCAAACATCATCATTT
65 TAAATTTTTTTAAGCGGATTTTTCTTA-GTTTTCAATTTTTAAAATTCATCAAACATCATCATTT
3114828 GATTCATATTAATTCAGTTTTCAAAAATTCATTCATT
129 GATTCATATTAATTCAGTTTTCAAAAATTCATTCATT
* *
3114865 TTCATGAGTTTTTGAATTTTTTCTTTGAAA--TCCCTATTTTCC
1 TTCATCA-TTTTTG-ATTTTTTCCTTGAAACTTCCCT-TTTTCC
3114907 CGAAAACCGA
Statistics
Matches: 186, Mismatches: 16, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
165 12 0.06
166 159 0.85
167 15 0.08
ACGTcount: A:0.26, C:0.16, G:0.07, T:0.51
Consensus pattern (165 bp):
TTCATCATTTTTGATTTTTTCCTTGAAACTTCCCTTTTTCCAAAATACGATGTTTTCTACTCCAT
AAATTTTTTTAAGCGGATTTTTCTTAGTTTTCAATTTTTAAAATTCATCAAACATCATCATTTGA
TTCATATTAATTCAGTTTTCAAAAATTCATTCATT
Found at i:3114950 original size:166 final size:165
Alignment explanation
Indices: 3114533--3114951 Score: 435
Period size: 166 Copynumber: 2.5 Consensus size: 165
3114523 TCTTAAAAAA
* * * * * * * *
3114533 TTCATTCATTTTTTATTTTTTCCTTGAAACTTCTCTTTTTTCAAAATA-CGATTTTTTCTACTCC
1 TTCAGTCATTTTTGATTTTTTCCTTGAAAC-TCCCTTTTTCCGAAATACCGA-GTTTTCCACTTC
* * * * * *
3114597 GTAAATTTTTTTA-AGGGGATTTTTCTTAGTTTTCAATTTTTAAAATTCATCAAACATTATTATT
64 ATAAA-TTTGTCAGAGCGGATTTTTCTTAGTTTTCAATTTTTAAAATTCATCAAACATCATCATT
3114661 TATTTCATATTAATTCCAGTTTCAAAAATTCATTCATT
128 TATTTCATATTAATTCCAGTTTCAAAAATTCATTCATT
* * * *
3114699 TTCAGTCATTTTTGATTTTTTCCTTGAAACTTCCCTTTTTCCTAAATACGGTGTTTTCTACTTCA
1 TTCAGTCATTTTTGATTTTTTCCTTGAAAC-TCCCTTTTTCCGAAATACCGAGTTTTCCACTTCA
* ** *
3114764 TAAATTTTTTTGAGCGGATTTTTC-TATGTTTTCAATTTTTAGAATTCATCAAACATCATCATTT
65 TAAATTTGTCAGAGCGGATTTTTCTTA-GTTTTCAATTTTTAAAATTCATCAAACATCATCATTT
3114828 GA-TTCATATTAATT-CAGTTTTCAAAAATTCATTCATT
129 -ATTTCATATTAATTCCAG-TTTCAAAAATTCATTCATT
* *
3114865 TTCA-TGAGTTTTTGAATTTTTTCTTTGAAA-TCCCTATTTTCCCGAAA-ACCGAGTTTTCCA-T
1 TTCAGTCA-TTTTTG-ATTTTTTCCTTGAAACTCCCT-TTTT-CCGAAATACCGAGTTTTCCACT
3114926 TCCATAAATATTGTCAGA-CGGATTTT
62 T-CATAAAT-TTGTCAGAGCGGATTTT
3114952 CTTTGGTCTA
Statistics
Matches: 218, Mismatches: 24, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
165 20 0.09
166 172 0.79
167 26 0.12
ACGTcount: A:0.26, C:0.16, G:0.08, T:0.49
Consensus pattern (165 bp):
TTCAGTCATTTTTGATTTTTTCCTTGAAACTCCCTTTTTCCGAAATACCGAGTTTTCCACTTCAT
AAATTTGTCAGAGCGGATTTTTCTTAGTTTTCAATTTTTAAAATTCATCAAACATCATCATTTAT
TTCATATTAATTCCAGTTTCAAAAATTCATTCATT
Found at i:3115725 original size:22 final size:22
Alignment explanation
Indices: 3115698--3115747 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
3115688 AAAACTTAGA
3115698 AAAAAAAGGGAGAAAAAAAGAAAG
1 AAAAAAA--GAGAAAAAAAGAAAG
3115722 AAAAAAAGAGAAAAAAA-ACAAG
1 AAAAAAAGAGAAAAAAAGA-AAG
3115744 AAAA
1 AAAA
3115748 TAGTGAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 1 0.04
22 17 0.68
24 7 0.28
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (22 bp):
AAAAAAAGAGAAAAAAAGAAAG
Found at i:3115739 original size:12 final size:12
Alignment explanation
Indices: 3115697--3115739 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
3115687 AAAAACTTAG
*
3115697 AAAAAAAAGGGA
1 AAAAAAAAGAGA
*
3115709 GAAAAAAAGA-A
1 AAAAAAAAGAGA
3115720 AGAAAAAAAGAGA
1 A-AAAAAAAGAGA
3115733 AAAAAAA
1 AAAAAAA
3115740 CAAGAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 1 0.04
12 23 0.88
13 2 0.08
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAGA
Found at i:3116795 original size:13 final size:13
Alignment explanation
Indices: 3116769--3116802 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
3116759 GAAATTTTCA
3116769 AAAATAATAATAAT
1 AAAATAA-AATAAT
3116783 AAAATAAAATAAT
1 AAAATAAAATAAT
3116796 -AAATAAA
1 AAAATAAA
3116803 TTCTTTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.35
13 6 0.30
14 7 0.35
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:3117682 original size:155 final size:155
Alignment explanation
Indices: 3117203--3118334 Score: 1092
Period size: 155 Copynumber: 7.3 Consensus size: 155
3117193 GGTATCGGGA
* * * * * *
3117203 TACTTTCACGTCGAAGGTATTCCC-TAGGGGTATTTTCGTAATTTTTTAGAATCAAGTCCTATGT
1 TACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCATAA-TTTTTAGAATCGAGTCCTAGGT
* * * *
3117267 TATCTCCGGGTCCGCTTTTATG-CGAAGGTGGGTATTAAGGATAGGTTCACCT-TTTTCTAGTAT
65 TATCACCGGGTCCGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCTCTTTTCTAGTCT
* *** *
3117330 TTTTAAGTCCTTTAGGGTTGTTAGGG
130 TTTTAAGTCCTTTAGAGTTACCAAGG
* * * *
3117356 TACTTTTATGTCGAAGGTATGCCTATAGGGGCATTTTCATAATTTCTTAG-ATACGAGTCCTAAG
1 TACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCATAATTT-TTAGAAT-CGAGTCCTAGG
* ** * * * * * *
3117420 TTGTCATTGGGTCTGTTTTTATG-CAGAAGGTGGGCATTTAGGATAGCTTTATCCTTTTTTCTAG
64 TTATCACCGGGTCCGCTTTTATGTC-GAAGGTGGGTATTTAGGATAGGTTCAT-CTCTTTTCTAG
* * * * * *
3117484 CCTTTTTAGGTCGTTTAGGGTTACTAGGG
127 TCTTTTTAAGTCCTTTAGAGTTACCAAGG
* ** *
3117513 TACTTTTACATCGAAGGTATACCCATAGGGGCATTTTCATAATTTTT-GAAATTAAGTCCTAGCT
1 TACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCATAATTTTTAG-AATCGAGTCCTAGGT
* * * * * **
3117577 TGTCACCGGTTGCGCTTTTACGTCGAAGGTGGGCATTTAAAATAGGTTCATCTCTTTTCTAGTCT
65 TATCACCGGGTCCGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCTCTTTTCTAGTCT
* *
3117642 TTTTAGGTCCTTTAGAGTTGCCAAGG
130 TTTTAAGTCCTTTAGAGTTACCAAGG
* * * *
3117668 TACTTTTACGTCGAAAGTATACCCATAGGGGTATTTTCAAAATTTTTAGAATCGAGTCTTAGGTT
1 TACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCATAATTTTTAGAATCGAGTCCTAGGTT
* * * * * *
3117733 ATCACTGGGTTCGTTTTTATGTCGACGGTAGGTATTTAAGATAGGTTCATC-CTTTTTCTAGTCT
66 ATCACCGGGTCCGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCTC-TTTTCTAGTCT
* *
3117797 TTTTAGGTCCTTTAGAGTTGCCGAA-G
130 TTTTAAGTCCTTTAGAGTTACC-AAGG
* *
3117823 TACTTTTACGTCGAAGGAATACCCATAGGGGCATTTTCCTAATTTTTAGAATCGAGTCCTAGGTT
1 TACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCATAATTTTTAGAATCGAGTCCTAGGTT
** *
3117888 ATCACCGGGTCCATTTTTGTGTCGAAGGTGGGTATTTAGGATAGGTTCATC-CTTTTCTAGTCTT
66 ATCACCGGGTCCGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCTCTTTTCTAGTCTT
* *
3117952 TTTAAGTCCTTTAGGGTTACC-GGG
131 TTTAAGTCCTTTAGAGTTACCAAGG
* * * * *
3117976 ATACTTTTACTTTGATA-GTATACCTATAGGGGCATTTTCCTAATTTCTTAGAACCGAGTCCTAG
1 -TACTTTTACGTCGA-AGGTATACCCATAGGGGCATTTTCATAATTT-TTAGAATCGAGTCCTAG
* ** * * * *
3118040 GTTGTCACAAGGTCCGCTTTTATGCCGAAGGTGGATATTTAGGATAGGTTCATCACCATTTCTAG
63 GTTATCACCGGGTCCGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATC-TCTTTTCTAG
**
3118105 TCTTTTTAAGTCCTTTAG-GGAACC-AGG
127 TCTTTTTAAGTCCTTTAGAGTTACCAAGG
* * * * * * * * *
3118132 ATACTTTCACGTTGAAGGTGT-CCCTTAAGGGTATTTTCGTAATTTTTTAGAACCGAGTCTTAGG
1 -TACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCATAA-TTTTTAGAATCGAGTCCTAGG
* * * * * * *
3118196 TTAACACTGGGTCCACTTTTGTGCCGAAGGTGGGTATTTAGGATAGGTTCA-CCCTTTTTATAGT
64 TTATCACCGGGTCCGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCTC-TTTTCTAGT
* *
3118260 CCTTTTTAAGTCCTTTA-AGGGTACCAAGA
128 -CTTTTTAAGTCCTTTAGA-GTTACCAAGG
* *
3118289 TACTTTCACGTCGAAGGTAT-CCCCTAGGGGCATTTTCATAATTTTT
1 TACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCATAATTTTT
3118335 CTTAAACTTA
Statistics
Matches: 825, Mismatches: 129, Indels: 48
0.82 0.13 0.05
Matches are distributed among these distances:
153 28 0.03
154 124 0.15
155 452 0.55
156 118 0.14
157 103 0.12
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (155 bp):
TACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCATAATTTTTAGAATCGAGTCCTAGGTT
ATCACCGGGTCCGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCTCTTTTCTAGTCTT
TTTAAGTCCTTTAGAGTTACCAAGG
Found at i:3130098 original size:11 final size:11
Alignment explanation
Indices: 3130067--3130135 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
3130057 GCTAAAGTAC
3130067 AAAATACGAAAA
1 AAAATAC-AAAA
3130079 AAAA-ACAAAA
1 AAAATACAAAA
*
3130089 AAAATGCAAAA
1 AAAATACAAAA
3130100 CAAAATA-AAAA
1 -AAAATACAAAA
** *
3130111 AGGA-ACAACA
1 AAAATACAAAA
*
3130121 AAAATCCAAAA
1 AAAATACAAAA
3130132 AAAA
1 AAAA
3130136 GGACATGAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
9 1 0.02
10 15 0.34
11 19 0.43
12 9 0.20
ACGTcount: A:0.77, C:0.12, G:0.06, T:0.06
Consensus pattern (11 bp):
AAAATACAAAA
Found at i:3130111 original size:32 final size:33
Alignment explanation
Indices: 3130065--3130135 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 33
3130055 AAGCTAAAGT
*
3130065 ACAAAATACGAAAAAAAAACAAAAAAAATGCAAA
1 ACAAAATAC-AAAAAAAAACAAAAAAAATCCAAA
** *
3130099 ACAAAATA-AAAAAGGAACAACAAAAATCCAAA
1 ACAAAATACAAAAAAAAACAAAAAAAATCCAAA
3130131 A-AAAA
1 ACAAAA
3130136 GGACATGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 4 0.12
32 21 0.64
34 8 0.24
ACGTcount: A:0.76, C:0.13, G:0.06, T:0.06
Consensus pattern (33 bp):
ACAAAATACAAAAAAAAACAAAAAAAATCCAAA
Found at i:3131421 original size:27 final size:27
Alignment explanation
Indices: 3131374--3131534 Score: 180
Period size: 27 Copynumber: 5.9 Consensus size: 27
3131364 ACGATTTAGG
*
3131374 GGCACTCCTCTTAAGTCCACAACTCCAT
1 GGCAC-CCTTTTAAGTCCACAACTCCAT
*
3131402 GGCACCCTTTTAAGTCCACAACTCTAT
1 GGCACCCTTTTAAGTCCACAACTCCAT
* *
3131429 GGCACCCTTTTGAGTCCAAAACTCCAT
1 GGCACCCTTTTAAGTCCACAACTCCAT
* * *
3131456 GGAACCATTTTAAGTCCACAACTCCGT
1 GGCACCCTTTTAAGTCCACAACTCCAT
* * * *
3131483 GGCATCCTCTAAAGTCCACAACTCCGT
1 GGCACCCTTTTAAGTCCACAACTCCAT
*
3131510 GGCA-TCTGTTTCAAGTCCACAACTC
1 GGCACCCT-TTT-AAGTCCACAACTC
3131535 TGTAGCATCC
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.02
27 93 0.82
28 18 0.16
ACGTcount: A:0.26, C:0.34, G:0.14, T:0.26
Consensus pattern (27 bp):
GGCACCCTTTTAAGTCCACAACTCCAT
Found at i:3132136 original size:296 final size:294
Alignment explanation
Indices: 3131584--3132541 Score: 1223
Period size: 296 Copynumber: 3.3 Consensus size: 294
3131574 TTTTAAACCG
* * * * * * *
3131584 ACAAGTCAGTGGCACCCTTTTCAAAGTCTACAAGTCTGTGGCATCCCTTT-TAAGCCCATAAGTC
1 ACAAGTCAGTGGCA-TCATTTCAAAGCCCACAAGTCAGTGGCAT-CCTTTCAAAGCCCACAAGTC
* * *
3131648 AGTGGCATCATTTCAAAGCCCACGCAAGTCAGTGGCAACTCTTTTGAAAGCCCACACAAGTTGGT
64 AGTGGCATCCTTTCAAA-ACCACGCAAGTCAGTGGCAACTCATTTGAAAGCCCACACAAGTTGGT
3131713 GGCAACCTATTTCAAAGCCCACACAAGTCAGTGGCAACCCATTTCAAAGCCCACAAGTCAGT-GT
128 GGCAACCTATTTCAAAGCCCACACAAGTCAGTGG-AACCCATTTCAAAGCCCACAAGTCAGTGGT
* *
3131777 CATCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTCTCAAAGCCCATAAGTTAGTGGCATCCTTT
192 -ATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTTT
* *
3131842 TCAATGCCCACACAAATTAGTGGCATCTTTTCAAAGCCC
256 TCAAAGCCCACACAAATCAGTGGCATCTTTTCAAAGCCC
* *
3131881 ACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAATGTCATCCTTTCAAAGCCCACAAGTCAG
1 ACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
** *
3131946 TGATATCCTTTTCAAAACCACACAAGTCAGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGG
66 TGGCATCC-TTTCAAAACCACGCAAGTCAGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGG
*
3132011 CAACCTATTTCAAAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCCCACAAGTCAGTGGTAT
130 CAACCTATTTCAAAGCCCACACAAGTCAGTGG-AACCCATTTCAAAGCCCACAAGTCAGTGGTAT
3132076 CCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTTTTCA
194 CCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTTTTCA
3132141 AAGCCCACACAAATCAGTGGCATCATTTTCAAAGCCC
259 AAGCCCACACAAATCAGTGGCATC-TTTTCAAAGCCC
* * *
3132178 ACAAGTCAGTGGCATCTTTTCAAACCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAG
1 ACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * ** **
3132243 TGGCATCCTTT-AAAAGCC-CGCAAGTTAGTGGC-AC-CCTTTCAAAG--CTTACAAGTCAGTGG
66 TGGCATCCTTTCAAAA-CCACGCAAGTCAGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGG
* * * * *
3132302 TATCC--TTTCAAAG-CC-CACAAGTCAGTGGCATCC-TTCTCAAAGCCCACAAGTCAGTGGCAT
130 CAACCTATTTCAAAGCCCACACAAGTCAGTGGAACCCATT-TCAAAGCCCACAAGTCAGTGGTAT
* * * *
3132362 CCTTCTCAAAGCCTACACAAATCAGTGGCAT-CTTTTCAAAGCCCACAAGTCAGTGGTATCC-TT
194 CCTT-TCAAAGCC--CACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTTT
* * * *
3132425 TCAAAG-CC-CACAAGTCAGTGGTATCCTTTCAAAGGCC
256 TCAAAGCCCACACAAATCAGTGGCATCTTTTCAAAGCCC
* * * * *
3132462 ACAAGTCAGTGGTAT-ACTTTCAAAGGCCACAAGTCAGTGGTACCCTTTCAAAGCCCACAAGTTA
1 ACAAGTCAGTGGCATCA-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
*
3132526 GTGGCATTCTTTCAAA
65 GTGGCATCCTTTCAAA
3132542 GCCCATAACT
Statistics
Matches: 591, Mismatches: 59, Indels: 34
0.86 0.09 0.05
Matches are distributed among these distances:
284 76 0.13
285 20 0.03
286 32 0.05
287 28 0.05
288 29 0.05
289 23 0.04
291 14 0.02
293 8 0.01
294 2 0.00
295 21 0.04
296 237 0.40
297 101 0.17
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (294 bp):
ACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
TGGCATCCTTTCAAAACCACGCAAGTCAGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGGC
AACCTATTTCAAAGCCCACACAAGTCAGTGGAACCCATTTCAAAGCCCACAAGTCAGTGGTATCC
TTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTTTTCAAA
GCCCACACAAATCAGTGGCATCTTTTCAAAGCCC
Found at i:3132719 original size:28 final size:28
Alignment explanation
Indices: 3131539--3132748 Score: 1015
Period size: 28 Copynumber: 41.7 Consensus size: 28
3131529 CAACTCTGTA
** * * *
3131539 GCATCCTTTTTAACCCCACAACTTCGTG
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
* * * *
3131567 CCATCCTTTTTAAA-CCGACAAGTCAGTG
1 GCATCC-TTTCAAAGCCCACAAGTTAGTG
* * *
3131595 GCACCCTTTTCAAAGTCTACAAGTCT-GTG
1 GCATCC-TTTCAAAGCCCACAAGT-TAGTG
* * *
3131624 GCATCCCTTT-TAAGCCCATAAGTCAGTG
1 GCAT-CCTTTCAAAGCCCACAAGTTAGTG
* *
3131652 GCATCATTTCAAAGCCCACGCAAGTCAGTG
1 GCATCCTTTCAAAGCCCA--CAAGTTAGTG
* * *
3131682 GCAACTCTTTTGAAAGCCCACACAAGTTGGTG
1 GC-A-TCCTTTCAAAG-CC-CACAAGTTAGTG
* *
3131714 GCAACCTATTTCAAAGCCCACACAAGTCAGTG
1 GCATCC--TTTCAAAG-CC-CACAAGTTAGTG
* *
3131746 GCAACCCATTTCAAAGCCCACAAGTCAGTG
1 GC-ATCC-TTTCAAAGCCCACAAGTTAGTG
*
3131776 TCATCCTTTCAAAGCCCACAAGTTAGTG
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
*
3131804 GCATCCTTCTCAAAGCCCATAAGTTAGTG
1 GCATCCTT-TCAAAGCCCACAAGTTAGTG
* *
3131833 GCATCCTTTTCAATGCCCACACAAATTAGTG
1 GCATCC-TTTCAAAG-CC-CACAAGTTAGTG
* *
3131864 GCATCTTTTCAAAGCCCACAAGTCAGTG
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
* * *
3131892 GCATCATTTCAAAGCCCACAAGTCAATG
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
* *
3131920 TCATCCTTTCAAAGCCCACAAGTCAGTG
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
** * *
3131948 ATATCCTTTTCAAAACCACACAAGTCAGTG
1 GCATCC-TTTCAAAGCC-CACAAGTTAGTG
* * *
3131978 GCAACTCATTTGAAAGCCCACACAAGTTGGTG
1 GC-A-TCCTTTCAAAG-CC-CACAAGTTAGTG
* **
3132010 GCAACCTATTTCAAAGCCCACACAAGTCGGTG
1 GCATCC--TTTCAAAG-CC-CACAAGTTAGTG
* * *
3132042 GTAACCCATTTCAAAGCCCACAAGTCAGTG
1 G-CATCC-TTTCAAAGCCCACAAGTTAGTG
* *
3132072 GTATCCTTTCAAAGCCCACAAGTCAGTG
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
3132100 GCATCCTTCTCAAAGCCCACAAGTTAGTG
1 GCATCCTT-TCAAAGCCCACAAGTTAGTG
* *
3132129 GCATCCTTTTCAAAGCCCACACAAATCAGTG
1 GCATCC-TTTCAAAG-CC-CACAAGTTAGTG
* *
3132160 GCATCATTTTCAAAGCCCACAAGTCAGTG
1 GCATC-CTTTCAAAGCCCACAAGTTAGTG
* * *
3132189 GCATCTTTTCAAACCCCACAAGTCAGTG
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
* *
3132217 GCATCTTTTCAAAGCCCACAAGTCAGTG
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
* *
3132245 GCATCCTTTAAAAGCCCGCAAGTTAGTG
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
* ** *
3132273 GCACCCTTTCAAAGCTTACAAGTCAGTG
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
* *
3132301 GTATCCTTTCAAAGCCCACAAGTCAGTG
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
*
3132329 GCATCCTTCTCAAAGCCCACAAGTCAGTG
1 GCATCCTT-TCAAAGCCCACAAGTTAGTG
* *
3132358 GCATCCTTCTCAAAGCCTACACAAATCAGTG
1 GCATCCTT-TCAAAGCC--CACAAGTTAGTG
* *
3132389 GCATCTTTTCAAAGCCCACAAGTCAGTG
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
* *
3132417 GTATCCTTTCAAAGCCCACAAGTCAGTG
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
* * *
3132445 GTATCCTTTCAAAGGCCACAAGTCAGTG
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
* * * *
3132473 GTATACTTTCAAAGGCCACAAGTCAGTG
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
* *
3132501 GTACCCTTTCAAAGCCCACAAGTTAGTG
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
* * * *
3132529 GCATTCTTTCAAAGCCCATAACTTAATG
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
*
3132557 GCACCCTTTCAAAGCCCACAAGTTAGTG
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
* * *
3132585 GCATCATTTCAATGTCCACAAGTTAGTG
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
*
3132613 GCATCTTTTCAAAAGCCCACAAGTTAGTG
1 GCATCCTTTC-AAAGCCCACAAGTTAGTG
* * * *
3132642 GCACCCTTTTCAAAGTCTACAAGTCAGTG
1 GCATCC-TTTCAAAGCCCACAAGTTAGTG
* * * * * *
3132671 GCATCTCTTT-TAAGTCGACAACTTTGGG
1 GCATC-CTTTCAAAGCCCACAAGTTAGTG
* * *
3132699 GCATCCTTTTAAAGCCCACAAGTCAGTA
1 GCATCCTTTCAAAGCCCACAAGTTAGTG
* *
3132727 GCACCCTTCTCTAAAACCCACA
1 GCATCCTT-TC-AAAGCCCACA
3132749 CAAGTTGGTG
Statistics
Matches: 999, Mismatches: 142, Indels: 80
0.82 0.12 0.07
Matches are distributed among these distances:
27 8 0.01
28 524 0.52
29 196 0.20
30 91 0.09
31 70 0.07
32 100 0.10
33 8 0.01
34 2 0.00
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (28 bp):
GCATCCTTTCAAAGCCCACAAGTTAGTG
Found at i:3132780 original size:32 final size:32
Alignment explanation
Indices: 3132743--3132818 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
3132733 TTCTCTAAAA
* * *
3132743 CCCACACAAGTTGGTGGTAA-CCTTTTCCAAAG
1 CCCACACAAGTTGATGGCAACCCTCTT-CAAAG
* *
3132775 TCCACACAAGTCGATGGCAACCCTCTTCAAAG
1 CCCACACAAGTTGATGGCAACCCTCTTCAAAG
3132807 CCCACACAAGTT
1 CCCACACAAGTT
3132819 TGTAGTATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 31 0.86
33 5 0.14
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.21
Consensus pattern (32 bp):
CCCACACAAGTTGATGGCAACCCTCTTCAAAG
Found at i:3136658 original size:33 final size:33
Alignment explanation
Indices: 3136621--3136687 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3136611 TTCAACGATC
3136621 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
3136654 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
3136687 T
1 T
3136688 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:3136659 original size:13 final size:13
Alignment explanation
Indices: 3136641--3136665 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3136631 CATAAAATGT
3136641 TGTATCGATACAA
1 TGTATCGATACAA
3136654 TGTATCGATACA
1 TGTATCGATACA
3136666 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3136749 original size:13 final size:13
Alignment explanation
Indices: 3136731--3136755 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3136721 ATTACTCACA
3136731 TGTATCGATACAT
1 TGTATCGATACAT
3136744 TGTATCGATACA
1 TGTATCGATACA
3136756 CTGATCTTTG
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:3141590 original size:20 final size:21
Alignment explanation
Indices: 3141562--3141600 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3141552 AGATGTTTGG
3141562 CATACT-AAAAATGCATGAAA
1 CATACTAAAAAATGCATGAAA
*
3141582 CATAGTAAAAAATGCATGA
1 CATACTAAAAAATGCATGA
3141601 TTAAGGGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.54, C:0.13, G:0.13, T:0.21
Consensus pattern (21 bp):
CATACTAAAAAATGCATGAAA
Found at i:3142570 original size:20 final size:20
Alignment explanation
Indices: 3142497--3142576 Score: 81
Period size: 20 Copynumber: 3.9 Consensus size: 20
3142487 TAAAAACCCA
* * *
3142497 AAATGTATTGATACAATGAG
1 AAATGTATCGATACATTTAG
3142517 AAATGTATCGATACAATTATA-
1 AAATGTATCGATAC-ATT-TAG
*
3142538 AACATGTACCGATACATTTAG
1 AA-ATGTATCGATACATTTAG
*
3142559 TAATGTATCGATACATTT
1 AAATGTATCGATACATTT
3142577 TCTTGGCAGT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
20 30 0.60
21 8 0.16
22 12 0.24
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (20 bp):
AAATGTATCGATACATTTAG
Found at i:3143859 original size:90 final size:88
Alignment explanation
Indices: 3143420--3143852 Score: 478
Period size: 89 Copynumber: 4.9 Consensus size: 88
3143410 TATGTTGTAT
* * *
3143420 CATTAGTGAAATATTTTCTATTGTGTTAGAAAGAATCTGATACCCCATGCATCTGTCATATCTTT
1 CATTAGTCAAATATTTTCTATCGTGTTAGAAGGAATCTGATACCCCATGCATCTGTCATATCTTT
* *
3143485 CAGGTTCCAAGAAATTTATTAGG
66 CGGGTTCTAAGAAATTTATTAGG
* * * * * *
3143508 CATTAGTCAAATATTTTTTGTCATGTCAGAAGAAATCTGATACTCACATGCATCTGTCATATCTT
1 CATTAGTCAAATATTTTCTATCGTGTTAGAAGGAATCTGATAC-CCCATGCATCTGTCATATCTT
* *
3143573 TCGAGTTCTAAAAAATTTATTAGG
65 TCGGGTTCTAAGAAATTTATTAGG
* * * *
3143597 CATTAGTCAAATATTTTCTGTCATGTCAGAAGGAATCTGATACCCACATGCATCTGCCATATCTT
1 CATTAGTCAAATATTTTCTATCGTGTTAGAAGGAATCTGATACCC-CATGCATCTGTCATATCTT
* *
3143662 TCGAGTT-TCAA-AACATTTATTAAG
65 TCGGGTTCT-AAGAA-ATTTATTAGG
* * * * * *
3143686 CATTAGTGAAATATTTTGTATCGTGTCT-GAAAGAATCTGATACCCTATTCATTTGTCATATCTT
1 CATTAGTCAAATATTTTCTATCGTGT-TAGAAGGAATCTGATACCCCATGCATCTGTCATATCTT
** *
3143750 TTAGGTT-TCAAGATTAATTTAGTAGG
65 TCGGGTTCT-AAGA--AATTTATTAGG
* * * *
3143776 CATTAGTTAAATATTTTCTATCGTGTTAGTAGGAATCTGATACCCCATGCATTTGTCACATCTTT
1 CATTAGTCAAATATTTTCTATCGTGTTAGAAGGAATCTGATACCCCATGCATCTGTCATATCTTT
3143841 CGGGTTCTAAGA
66 CGGGTTCTAAGA
3143853 TTAATTTTAT
Statistics
Matches: 293, Mismatches: 42, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
88 62 0.21
89 157 0.54
90 72 0.25
91 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (88 bp):
CATTAGTCAAATATTTTCTATCGTGTTAGAAGGAATCTGATACCCCATGCATCTGTCATATCTTT
CGGGTTCTAAGAAATTTATTAGG
Found at i:3144209 original size:14 final size:15
Alignment explanation
Indices: 3144179--3144212 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
3144169 TTTCTGAATA
*
3144179 GCTTCTTCTTAAGTG
1 GCTTCTTCCTAAGTG
3144194 GCTTCTTCCT-AGTG
1 GCTTCTTCCTAAGTG
3144208 GCTTC
1 GCTTC
3144213 ATTTGTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.09, C:0.26, G:0.21, T:0.44
Consensus pattern (15 bp):
GCTTCTTCCTAAGTG
Found at i:3146268 original size:21 final size:21
Alignment explanation
Indices: 3146244--3146303 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
3146234 ACAACATAAA
* *
3146244 TAAATTTCATCATACTAAAAT
1 TAAATTTAATCATAATAAAAT
* * *
3146265 TAAACTTAATTACAATAAAAT
1 TAAATTTAATCATAATAAAAT
3146286 TAAATTTAATCATAATAA
1 TAAATTTAATCATAATAA
3146304 TAAACTACAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAATTTAATCATAATAAAAT
Found at i:3147858 original size:156 final size:155
Alignment explanation
Indices: 3147632--3148078 Score: 447
Period size: 156 Copynumber: 2.9 Consensus size: 155
3147622 CCCCTAAGGG
* * * * **
3147632 ATACCTTCAACGTAGAAGTA--CCGATACCCCTAAAGGACTTATAAAAGATTATAGATATGATGA
1 ATACCTTCGACGTAAAAGTATCCCGACAACCCTAAAGGACTTA-AAAAGATTA-AGATGGGATGA
* * *
3147695 ACCTATCTTAAATACCCACCTTCGGCATAAAAGCAGACTCGGTGACAACTTAGGACTTGGTTCCA
64 ACCTATCTTAAATACCCACCTTCGGCATAAAAGCAGACTCGGTGACAACCTAGGACTCGATTCCA
* * *
3147760 GAAAATTATGAAAATGTCCCAATGAGT
129 AAAAATTATAAAAATGCCCCAATGAGT
* * * * *
3147787 ATACCTTCGACGTAAAAGTA-CGTCGGCAACTCTAAAGGACTCAAAAAGACTAGAGATGGGATGA
1 ATACCTTCGACGTAAAAGTATC-CCGACAACCCTAAAGGACTTAAAAAGATTA-AGATGGGATGA
* * *
3147851 ACCTATCTTAAATGCCCACCTTCGGCATAAAAACAGAC-CTGGTGACAACCTAGGACTCGATTCT
64 ACCTATCTTAAATACCCACCTTCGGCATAAAAGCAGACTC-GGTGACAACCTAGGACTCGATTCC
* *
3147915 AAAAAATTATAAAAATGCCCCTATGGGT
128 AAAAAATTATAAAAATGCCCCAATGAGT
** * * *
3147943 ATATTTTTGACGTAAAAGTATCCCGACAACCCTAAAGGATTTTAAAAA-ATTTAA-TTGGGATGA
1 ATACCTTCGACGTAAAAGTATCCCGACAACCCTAAAGGA-CTTAAAAAGA-TTAAGATGGGATGA
* * * * * ** * * * *
3148006 ACCTACCCTAAATATCAACCTTTGGCATAAAAGCAGACTCGGTGATGACCCATGACTCGGTTCTA
64 ACCTATCTTAAATACCCACCTTCGGCATAAAAGCAGACTCGGTGACAACCTAGGACTCGATTCCA
3148071 AAAAATTA
129 AAAAATTA
3148079 CCAAAATACC
Statistics
Matches: 240, Mismatches: 45, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
155 86 0.36
156 130 0.54
157 24 0.10
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (155 bp):
ATACCTTCGACGTAAAAGTATCCCGACAACCCTAAAGGACTTAAAAAGATTAAGATGGGATGAAC
CTATCTTAAATACCCACCTTCGGCATAAAAGCAGACTCGGTGACAACCTAGGACTCGATTCCAAA
AAATTATAAAAATGCCCCAATGAGT
Found at i:3149863 original size:18 final size:18
Alignment explanation
Indices: 3149840--3149886 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 18
3149830 TTTCACTTTA
3149840 TTTTCTCTTAT-TTTTTCT
1 TTTTCTCTT-TGTTTTTCT
3149858 TTTTCTTCTTTGTTTTTCT
1 TTTTC-TCTTTGTTTTTCT
3149877 TTTCTCTCTT
1 TTT-TCTCTT
3149887 CTTTCAGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 6 0.23
19 18 0.69
20 2 0.08
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTTCTCTTTGTTTTTCT
Found at i:3150618 original size:165 final size:161
Alignment explanation
Indices: 3150409--3150929 Score: 523
Period size: 165 Copynumber: 3.2 Consensus size: 161
3150399 GAGTTCAATG
* * * * *** *
3150409 ATAATATTGGATGCATTTTAAAAATTTTAGAACAA-AGAAAATCCCCCCCAAATATTTATGAAAT
1 ATAATATTTGATGAATTTTAAAAA-TTAAAAACAAGA-AAAATCCCCTAAAAAAATTTATGAAAT
* *
3150473 AGAAAACTCGGTTTTTCGAAGAAAGGGAAATTTCAAGGAAAAAATTTAAAATTCATGGAAATGAA
64 AGAAAACTC-GTTTTTCGAAAAAAGGGAAATTTCAAGGAAAAAATTCAAAATT-ATGGAAATGAA
*
3150538 TGAATTCTTGAAAACTGAATTAATATGAAATAAATA
127 TGAATT-TTAAAAACTGAATTAATATGAAATAAATA
* ** * *
3150574 ATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCCTTGAAAAAATTTGCGGATT
1 ATAATATTTGATGAATTTTAAAAATTAAAAAC-AAGAAAAATCCCC-TAAAAAAATTTATGAAAT
* * *
3150639 AGAAAACTCCGTATTTCAAAAAAAGGAAAATTTCAAGG-AAAAATTCAAAATTTATGGAAATGAA
64 AGAAAACT-CGTTTTTCGAAAAAAGGGAAATTTCAAGGAAAAAATTCAAAA-TTATGGAAATGAA
* *
3150703 TGAATTTTTAAAAACTGAATTAATGTGCAATAAATA
127 TGAA-TTTTAAAAACTGAATTAATATGAAATAAATA
** **
3150739 ATAATATTTGATGAATTTTAAAAATT-AAAA-AA-AATTA-CCCCTAAAAAAATTTATGATGTAG
1 ATAATATTTGATGAATTTTAAAAATTAAAAACAAGAAAAATCCCCTAAAAAAATTTATGAAATAG
* ** *
3150800 AAAACTCCTTATTTCGAAAAAAAAGAAATTTCAAGGAAAAAATTCGAAAATGTATGAAAATGAAT
66 AAAACTCGTT-TTTCGAAAAAAGGGAAATTTCAAGGAAAAAATTC-AAAAT-TATGGAAATGAAT
* * * * * * *
3150865 AAATTTTTAAGAACTGATTTAACAGGAATTAAATG
128 GAA-TTTTAAAAACTGAATTAATATGAAATAAATA
* * *
3150900 ATAATATTTGAGGAATTTTAATATTTAAAA
1 ATAATATTTGATGAATTTTAAAAATTAAAA
3150930 CTCGAGAAAA
Statistics
Matches: 298, Mismatches: 47, Indels: 25
0.81 0.13 0.07
Matches are distributed among these distances:
158 2 0.01
159 41 0.14
160 13 0.04
161 68 0.23
162 5 0.02
164 10 0.03
165 111 0.37
166 47 0.16
167 1 0.00
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.31
Consensus pattern (161 bp):
ATAATATTTGATGAATTTTAAAAATTAAAAACAAGAAAAATCCCCTAAAAAAATTTATGAAATAG
AAAACTCGTTTTTCGAAAAAAGGGAAATTTCAAGGAAAAAATTCAAAATTATGGAAATGAATGAA
TTTTAAAAACTGAATTAATATGAAATAAATA
Found at i:3151878 original size:43 final size:43
Alignment explanation
Indices: 3151810--3151923 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 43
3151800 TTTACTCGGG
* * *
3151810 ACTAAGCTGATGGGTAAACATGGGGATGAA-AGGTTGACCAGGA
1 ACTAAGCTGATAGGTAAACAAGGGGAT-AAGAGGTTCACCAGGA
* * * *
3151853 ACTAAGCTGATAGGTCATCAAGGGGATAAGAGGTTCACCGGGG
1 ACTAAGCTGATAGGTAAACAAGGGGATAAGAGGTTCACCAGGA
* * *
3151896 ATTAAGCCGATAGGTAAATAA-GGGATAA
1 ACTAAGCTGATAGGTAAACAAGGGGATAA
3151924 AGGGTTACTT
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
42 9 0.16
43 49 0.84
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.19
Consensus pattern (43 bp):
ACTAAGCTGATAGGTAAACAAGGGGATAAGAGGTTCACCAGGA
Found at i:3152179 original size:44 final size:44
Alignment explanation
Indices: 3152131--3152985 Score: 635
Period size: 44 Copynumber: 19.6 Consensus size: 44
3152121 AAAGCATATT
* * * *
3152131 TGACTAGGGTAGTAACCATATGTCAAATGAGAATGAAAAGAATC
1 TGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATC
* * * *
3152175 TGACTAGGGTGGTAACCATACGTCAGA-CAGAAAGGAAAAGATTC
1 TGACCAGGGTGGTAACCATACGTCAAATCAG-AATGAAAAGAATC
* * * * *
3152219 -GACCAGGGTGGTAATCATACGTTAAATTAAAATGGAAAGAATC
1 TGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATC
* * * * * * *
3152262 TAACTAGGGTGGTAACGATACATCAGA-CAGAAAGGAAAAGATTC
1 TGACCAGGGTGGTAACCATACGTCAAATCAG-AATGAAAAGAATC
* * * * *
3152306 -GACAAGGGTAGG-AACCATACGTCAAATCAAAATGAGAAGAGTT
1 TGACCAGGGT-GGTAACCATACGTCAAATCAGAATGAAAAGAATC
* *
3152349 TGACCAGGGTGGTAACCATATGTCAAA-CATGAATAAAAAGAA-C
1 TGACCAGGGTGGTAACCATACGTCAAATCA-GAATGAAAAGAATC
* *
3152392 TTGATCAGGGTGGTAACCATACGTC-AAGCATG-ATGAAAAGAATC
1 -TGACCAGGGTGGTAACCATACGTCAAATCA-GAATGAAAAGAATC
* * * * * *
3152436 TGACCAGGGTGGTAACCATACGTTAGATCAAAATGAGAAGAGTT
1 TGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATC
*
3152480 TGACCAGGGTGGCAACCATACGTCAAAT-ATGAATGAAAAGAA-C
1 TGACCAGGGTGGTAACCATACGTCAAATCA-GAATGAAAAGAATC
* * * * *
3152523 TTGACCACGGTGGTAACCATATGTCAAGT-AGGATGAAAAAAATC
1 -TGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATC
* * ** * * *
3152567 TGACCAGGATGTTAACCATACGTC-AGCCCGAAAT-AAGAAGAGTT
1 TGACCAGGGTGGTAACCATACGTCAAATCAG-AATGAA-AAGAATC
* *
3152611 TGGCCAGGGTGGTAACCATACGTCAAATCAAAAT-AGAAAGAATC
1 TGACCAGGGTGGTAACCATACGTCAAATCAGAATGA-AAAGAATC
* * * *
3152655 TGACTAGGGTGGTAACCATACGTCAAA-CAAAAAGGAAAAGATTC
1 TGACCAGGGTGGTAACCATACGTCAAATC-AGAATGAAAAGAATC
* * * * *
3152699 -GACCAGGGTAGG-AACTATACATCAAATCAAAAT-AAGAAGAGTT
1 TGACCAGGGT-GGTAACCATACGTCAAATCAGAATGAA-AAGAATC
* * *
3152742 TGACCAGGGGTGGCAAGCATACGTCAAA-CATGAATGAAAA-AAAC
1 TGACCA-GGGTGGTAACCATACGTCAAATCA-GAATGAAAAGAATC
* * *
3152786 TTGACCAGGGTGGTAACCATACGTTAAGT-AGGATGAAAAGAATC
1 -TGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATC
* * * * * * * * *
3152830 TGACCATGGTGATAGCCATACATCAGATCAAAATGAGAAGAGTT
1 TGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATC
* *
3152874 TGACTAGGGTAGTAACCATACGTCAAA-CATGAATGAAAAGAA-C
1 TGACCAGGGTGGTAACCATACGTCAAATCA-GAATGAAAAGAATC
* * *
3152917 TTGACCAGGGTGGTAACCATACATCAAGT-AGGATGAAAAGAATC
1 -TGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATC
* *
3152961 TGACCAGGGTGTTAACCATATGTCA
1 TGACCAGGGTGGTAACCATACGTCA
3152986 GACCAAAATA
Statistics
Matches: 630, Mismatches: 141, Indels: 81
0.74 0.17 0.10
Matches are distributed among these distances:
42 4 0.01
43 227 0.36
44 367 0.58
45 30 0.05
46 2 0.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (44 bp):
TGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATC
Found at i:3152354 original size:131 final size:130
Alignment explanation
Indices: 3152130--3153012 Score: 831
Period size: 131 Copynumber: 6.7 Consensus size: 130
3152120 GAAAGCATAT
* * * *
3152130 TTGACTAGGGTAGTAACCATATGTCAAATG-AGAATGAAAAGAATCTGACTAGGGTGGTAACCAT
1 TTGACTAGGGTGGTAACCATACGTC-AA-GCAGAAGGAAAAGAATCTGACCAGGGTGG-AACCAT
* * * * * * **
3152194 ACGTCAGA-CAGAAAGGAAAAGA-TTCGACCAGGGTGGTAATCATACGTTAAA-TTAAAATGGAA
63 ACGTCAGATCA-AAATGAGAAGAGTTTGACCAGGGTGGTAACCATACGTCAAACAT-AAATAAAA
3152256 AGAA-
126 AGAAC
* * * * *
3152260 TCTAACTAGGGTGGTAACGATACATC-AGACAGAAAGGAAAAGATTC-GACAAGGGTAGGAACCA
1 T-TGACTAGGGTGGTAACCATACGTCAAG-CAG-AAGGAAAAGAATCTGACCAGGGT-GGAACCA
* * *
3152323 TACGTCAAATCAAAATGAGAAGAGTTTGACCAGGGTGGTAACCATATGTCAAACATGAATAAAAA
62 TACGTCAGATCAAAATGAGAAGAGTTTGACCAGGGTGGTAACCATACGTCAAACATAAATAAAAA
3152388 GAAC
127 GAAC
*
3152392 TTGA-TCAGGGTGGTAACCATACGTCAAGCATG-ATGAAAAGAATCTGACCAGGGTGGTAACCAT
1 TTGACT-AGGGTGGTAACCATACGTCAAGCA-GAAGGAAAAGAATCTGACCAGGGTGG-AACCAT
* * * * *
3152455 ACGTTAGATCAAAATGAGAAGAGTTTGACCAGGGTGGCAACCATACGTCAAATATGAATGAAAAG
63 ACGTCAGATCAAAATGAGAAGAGTTTGACCAGGGTGGTAACCATACGTCAAACATAAATAAAAAG
3152520 AAC
128 AAC
* * * * * * * * *
3152523 TTGACCACGGTGGTAACCATATGTCAAGTAGGATGAAAAAAATCTGACCAGGATGTTAACCATAC
1 TTGACTAGGGTGGTAACCATACGTCAAGCAGAAGGAAAAGAATCTGACCAGGGTG-GAACCATAC
** * * * *
3152588 GTCAGCCCGAAATAAGAAGAGTTTGGCCAGGGTGGTAACCATACGTCAAATCA-AAATAGAAAGA
65 GTCAGATCAAAATGAGAAGAGTTTGACCAGGGTGGTAACCATACGTCAAA-CATAAATAAAAAGA
3152652 A-
129 AC
* * * *
3152653 TCTGACTAGGGTGGTAACCATACGTCAAACAAAAAGGAAAAGATTC-GACCAGGGTAGGAACTAT
1 T-TGACTAGGGTGGTAACCATACGTCAAGC-AGAAGGAAAAGAATCTGACCAGGGT-GGAACCAT
* * * * * *
3152717 ACATCAAATCAAAATAAGAAGAGTTTGACCAGGGGTGGCAAGCATACGTCAAACATGAATGAAAA
63 ACGTCAGATCAAAATGAGAAGAGTTTGACCA-GGGTGGTAACCATACGTCAAACATAAAT-AAAA
3152782 A-AAC
126 AGAAC
* * * * * *
3152786 TTGACCAGGGTGGTAACCATACGTTAAGTAGGATGAAAAGAATCTGACCATGGT-GATAGCCATA
1 TTGACTAGGGTGGTAACCATACGTCAAGCAGAAGGAAAAGAATCTGACCAGGGTGGA-A-CCATA
* * * * *
3152850 CATCAGATCAAAATGAGAAGAGTTTGACTAGGGTAGTAACCATACGTCAAACATGAATGAAAAGA
64 CGTCAGATCAAAATGAGAAGAGTTTGACCAGGGTGGTAACCATACGTCAAACATAAATAAAAAGA
3152915 AC
129 AC
* * * * * * *
3152917 TTGACCAGGGTGGTAACCATACATCAAGTAGGATGAAAAGAATCTGACCAGGGTGTTAACCATAT
1 TTGACTAGGGTGGTAACCATACGTCAAGCAGAAGGAAAAGAATCTGACCAGGGTG-GAACCATAC
* *
3152982 GTCAGACCAAAATAAGAAGAGTTTGACCAGG
65 GTCAGATCAAAATGAGAAGAGTTTGACCAGG
3153013 TCTTAACACT
Statistics
Matches: 624, Mismatches: 98, Indels: 61
0.80 0.13 0.08
Matches are distributed among these distances:
128 1 0.00
129 1 0.00
130 54 0.09
131 457 0.73
132 105 0.17
133 6 0.01
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.20
Consensus pattern (130 bp):
TTGACTAGGGTGGTAACCATACGTCAAGCAGAAGGAAAAGAATCTGACCAGGGTGGAACCATACG
TCAGATCAAAATGAGAAGAGTTTGACCAGGGTGGTAACCATACGTCAAACATAAATAAAAAGAAC
Found at i:3153008 original size:87 final size:85
Alignment explanation
Indices: 3152128--3153012 Score: 583
Period size: 87 Copynumber: 10.1 Consensus size: 85
3152118 CAGAAAGCAT
* * * *
3152128 ATTTGACTAGGGTAGTAACCATATGTCAAATGAGAATGAAAAGAATCTGACTAGGGTGGTAACCA
1 ATTTGACCAGGGTGGTAACCATACGTCAAAT-AGAATGAAAAGAATCTGACCAGGGTGGTAACCA
*
3152193 TACGTCAGA-CAGAAAGGAAAAG-
65 TACGTCA-ATCA-AAA-TAAAAGA
* * * * * * * *
3152215 ATTCGACCAGGGTGGTAATCATACGTTAAATTAAAATGGAAAGAATCTAACTAGGGTGGTAACGA
1 ATTTGACCAGGGTGGTAACCATACGTCAAA-TAGAATGAAAAGAATCTGACCAGGGTGGTAACCA
* *
3152280 TACATCAGA-CAGAAAGGAAAAG-
65 TACGTCA-ATCA-AAA-TAAAAGA
* * * * * *
3152302 ATTCGACAAGGGTAGG-AACCATACGTCAAATCAAAATGAGAAGAGTTTGACCAGGGTGGTAACC
1 ATTTGACCAGGGT-GGTAACCATACGTCAAAT-AGAATGAAAAGAATCTGACCAGGGTGGTAACC
* * *
3152366 ATATGTCAAACATGAATAAAAAGA
64 ATACGTCAATCA-AAAT-AAAAGA
* *
3152390 ACTTGATCAGGGTGGTAACCATACGTCAAGCAT-G-ATGAAAAGAATCTGACCAGGGTGGTAACC
1 ATTTGACCAGGGTGGTAACCATACGTCAA--ATAGAATGAAAAGAATCTGACCAGGGTGGTAACC
* *
3152453 ATACGTTAGATCAAAATGAGAAGA
64 ATACGTCA-ATCAAAAT-AAAAGA
* * *
3152477 GTTTGACCAGGGTGGCAACCATACGTCAAATATGAATGAAAAGAA-CTTGACCACGGTGGTAACC
1 ATTTGACCAGGGTGGTAACCATACGTCAAATA-GAATGAAAAGAATC-TGACCAGGGTGGTAACC
* ** *
3152541 ATATGTCAAGT-AGGATGAAAAAA
64 ATACGTCAA-TCAAAAT-AAAAGA
* * * **** * * *
3152564 ATCTGACCAGGATGTTAACCATACGTCAGCCCGAAAT-AAGAAGAGTTTGGCCAGGGTGGTAACC
1 ATTTGACCAGGGTGGTAACCATACGTCAAATAG-AATGAA-AAGAATCTGACCAGGGTGGTAACC
3152628 ATACGTCAAATCAAAATAGAAAGA
64 ATACGTC-AATCAAAATA-AAAGA
* * * * * * *
3152652 ATCTGACTAGGGTGGTAACCATACGTCAAACAAAAAGGAAAAGATTC-GACCAGGGTAGG-AACT
1 ATTTGACCAGGGTGGTAACCATACGTCAAA-TAGAATGAAAAGAATCTGACCAGGGT-GGTAACC
*
3152715 ATACATCAAATCAAAATAAGAAGA
64 ATACGTC-AATCAAAATAA-AAGA
* * * * *
3152739 GTTTGACCAGGGGTGGCAAGCATACGTCAAACATGAATGAAAA-AAACTTGACCAGGGTGGTAAC
1 ATTTGACCA-GGGTGGTAACCATACGTCAAATA-GAATGAAAAGAATC-TGACCAGGGTGGTAAC
* **
3152803 CATACGTTAAGT-AGGATGAAAAGA
63 CATACGTCAA-TCAAAAT-AAAAGA
* * * * * * * * * * * *
3152827 ATCTGACCATGGTGATAGCCATACATCAGATCAAAATGAGAAGAGTTTGACTAGGGTAGTAACCA
1 ATTTGACCAGGGTGGTAACCATACGTCAAAT-AGAATGAAAAGAATCTGACCAGGGTGGTAACCA
* *
3152892 TACGTCAAACATGAATGAAAAGA
65 TACGTCAATCA-AAAT-AAAAGA
* * * * *
3152915 ACTTGACCAGGGTGGTAACCATACATCAAGTAGGATGAAAAGAATCTGACCAGGGTGTTAACCAT
1 ATTTGACCAGGGTGGTAACCATACGTCAAATAGAATGAAAAGAATCTGACCAGGGTGGTAACCAT
* *
3152980 ATGTCAGACCAAAATAAGAAGA
66 ACGTCA-ATCAAAATAA-AAGA
*
3153002 GTTTGACCAGG
1 ATTTGACCAGG
3153013 TCTTAACACT
Statistics
Matches: 623, Mismatches: 137, Indels: 76
0.75 0.16 0.09
Matches are distributed among these distances:
85 2 0.00
86 8 0.01
87 402 0.65
88 187 0.30
89 22 0.04
90 2 0.00
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.20
Consensus pattern (85 bp):
ATTTGACCAGGGTGGTAACCATACGTCAAATAGAATGAAAAGAATCTGACCAGGGTGGTAACCAT
ACGTCAATCAAAATAAAAGA
Found at i:3153053 original size:48 final size:48
Alignment explanation
Indices: 3152998--3153131 Score: 214
Period size: 48 Copynumber: 2.8 Consensus size: 48
3152988 CCAAAATAAG
* * * *
3152998 AAGAGTTTGACCAGGTCTTAACACTAATACAGTTAAACGAGGGATGAA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTTAAACGAGGGATGAA
*
3153046 AAGAGTTTGACTAGGCCCTAACACCAATACAGTTAAATGAGGGATGAA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTTAAACGAGGGATGAA
*
3153094 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAAC
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTTAAAC
3153132 AAGGAAGGTC
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (48 bp):
AAGAGTTTGACTAGGCCCTAACACCAATACAGTTAAACGAGGGATGAA
Found at i:3153214 original size:60 final size:60
Alignment explanation
Indices: 3153121--3153428 Score: 259
Period size: 60 Copynumber: 5.1 Consensus size: 60
3153111 CTAACACCAA
* * * *
3153121 TACAGTCAAACAAGGAAGGTCTTGACCGAATACAGTCAAAAAGGGTAAGATTTGATTGAG
1 TACAGTCAAATAAGGAAAGTCTTGACTGAATACAGTCAAAAAGGGTAAGATTTGACTGAG
* * * ** *
3153181 TACAGTCAAATAAGGAAAGACTTGACTAAATACAGTTAAGCGAGGGTGAA-ATTTGA-TCGAA
1 TACAGTCAAATAAGGAAAGTCTTGACTGAATACAGTCAA-AAAGGGT-AAGATTTGACT-GAG
* * * *
3153242 TAAAGTCAAATAAGGATAA-TCTTGACTGAATATAGTCAAGAAGGGTGAGATTTGACTGAG
1 TACAGTCAAATAAGGA-AAGTCTTGACTGAATACAGTCAAAAAGGGTAAGATTTGACTGAG
* * * * *
3153302 TATAGTCAAATAAGGATAGTCTTGA-TCGAATACAATCAAGATA-GGTGAGATTTGACTGAG
1 TACAGTCAAATAAGGAAAGTCTTGACT-GAATACAGTCAA-AAAGGGTAAGATTTGACTGAG
* * * ** * * * *
3153362 TATAGTCAAATAAAGAAA-TACTTTACAAAATATAGTCAAGAGGGGTAAGATTTGACTAAG
1 TACAGTCAAATAAGGAAAGT-CTTGACTGAATACAGTCAAAAAGGGTAAGATTTGACTGAG
3153422 TACAGTC
1 TACAGTC
3153429 GAATGATGAT
Statistics
Matches: 199, Mismatches: 37, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
59 4 0.02
60 145 0.73
61 46 0.23
62 4 0.02
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (60 bp):
TACAGTCAAATAAGGAAAGTCTTGACTGAATACAGTCAAAAAGGGTAAGATTTGACTGAG
Found at i:3153215 original size:30 final size:29
Alignment explanation
Indices: 3153119--3153216 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 29
3153109 CCCTAACACC
* * *
3153119 AATACAGTCAAACAAGGAAGGTCTTGACCG
1 AATACAGTCAAA-AAGGAAAGACTTGACTG
* * *
3153149 AATACAGTCAAAAAGGGTAAGATTTGATTG
1 AATACAGTCAAAAA-GGAAAGACTTGACTG
* *
3153179 AGTACAGTCAAATAAGGAAAGACTTGACTA
1 AATACAGTCAAA-AAGGAAAGACTTGACTG
3153209 AATACAGT
1 AATACAGT
3153217 TAAGCGAGGG
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
29 2 0.04
30 50 0.93
31 2 0.04
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.21
Consensus pattern (29 bp):
AATACAGTCAAAAAGGAAAGACTTGACTG
Found at i:3153279 original size:30 final size:30
Alignment explanation
Indices: 3153239--3153400 Score: 104
Period size: 30 Copynumber: 5.4 Consensus size: 30
3153229 AAATTTGATC
*
3153239 GAATAAAGTCAAATAAGGATAATCTTGACT
1 GAATATAGTCAAATAAGGATAATCTTGACT
* *
3153269 GAATATAGTC-AAGAAGGGTGAGAT-TTGACT
1 GAATATAGTCAAATAAGGAT-A-ATCTTGACT
* *
3153299 GAGTATAGTCAAATAAGGATAGTCTTGA-T
1 GAATATAGTCAAATAAGGATAATCTTGACT
* *
3153328 CGAATACAATCAAGAT-AGG-TGAGAT-TTGACT
1 -GAATATAGTCAA-ATAAGGAT-A-ATCTTGACT
* * * *
3153359 GAGTATAGTCAAATAAAGA-AATACTTTACA
1 GAATATAGTCAAATAAGGATAAT-CTTGACT
*
3153389 AAATATAGTCAA
1 GAATATAGTCAA
3153401 GAGGGGTAAG
Statistics
Matches: 100, Mismatches: 19, Indels: 26
0.69 0.13 0.18
Matches are distributed among these distances:
28 2 0.02
29 13 0.13
30 72 0.72
31 13 0.13
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.27
Consensus pattern (30 bp):
GAATATAGTCAAATAAGGATAATCTTGACT
Found at i:3153461 original size:35 final size:35
Alignment explanation
Indices: 3153422--3153591 Score: 241
Period size: 35 Copynumber: 4.9 Consensus size: 35
3153412 TTTGACTAAG
*
3153422 TACAGTCGAATGATGATGGAAAGAGTTTGACCAGA
1 TACAGTCAAATGATGATGGAAAGAGTTTGACCAGA
* ***
3153457 TACAGTCAAACGATGATGGAAAGAGTTTGAATGGA
1 TACAGTCAAATGATGATGGAAAGAGTTTGACCAGA
* *
3153492 TACAATCAAATGATGATGGAAAGTGTTTGACCAGA
1 TACAGTCAAATGATGATGGAAAGAGTTTGACCAGA
* *
3153527 AACAGTCAAATGATGATGGAAAGAGTTTGTCCAGA
1 TACAGTCAAATGATGATGGAAAGAGTTTGACCAGA
* *
3153562 TACAGTCAAACGATGATGGAAAGAGCTTGA
1 TACAGTCAAATGATGATGGAAAGAGTTTGA
3153592 AAGAAAATTT
Statistics
Matches: 116, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 116 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.23
Consensus pattern (35 bp):
TACAGTCAAATGATGATGGAAAGAGTTTGACCAGA
Found at i:3153960 original size:91 final size:90
Alignment explanation
Indices: 3153827--3154064 Score: 293
Period size: 91 Copynumber: 2.6 Consensus size: 90
3153817 ATGGTCGGGA
* *
3153827 TATCCTT-ACCCC-AGGAAAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGGATAAAG
1 TATCCTTGCCCCCAAGG-AAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTTAGATAAAG
* * *
3153890 AAGATATAATTGGGGAATGTGTGGGC
65 AAGATATAATTCGAGAATGTGTAGGC
* *
3153916 TGCAT-CTTGCCCCCAAGGAAATCAAGCTTTGTGATGCATCAATACCATCTAGTGGTTAGATGAA
1 T--ATCCTTGCCCCCAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTTAGATAAA
* *
3153980 GGAGATATGATTCGAGAATGTGTAGGC
64 GAAGATATAATTCGAGAATGTGTAGGC
* * * * *
3154007 TATGCCTTGCTCTCAAGGAAATTAGGCTTTGTGATGCATTAATTCCATCTAGTGGTTA
1 TAT-CCTTGCCCCCAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTTA
3154065 TGTATACACC
Statistics
Matches: 128, Mismatches: 15, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
89 3 0.02
90 3 0.02
91 119 0.93
92 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (90 bp):
TATCCTTGCCCCCAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTTAGATAAAGA
AGATATAATTCGAGAATGTGTAGGC
Found at i:3154474 original size:20 final size:20
Alignment explanation
Indices: 3154449--3154507 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
3154439 ACTGCCAAGA
3154449 AAATGTATTGATACATTAGT
1 AAATGTATTGATACATTAGT
* ***
3154469 AAATGTATCGATACATGCTT
1 AAATGTATTGATACATTAGT
3154489 ACAATTGTATTGATACATT
1 A-AA-TGTATTGATACATT
3154508 TCTCATTGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 17 0.55
21 2 0.06
22 12 0.39
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (20 bp):
AAATGTATTGATACATTAGT
Found at i:3159896 original size:20 final size:20
Alignment explanation
Indices: 3159873--3159911 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
3159863 TTTCATTTCC
3159873 TCATCTTTTTTC-TTTTTTTT
1 TCATC-TTTTTCATTTTTTTT
3159893 TCATCTTTTTCATTTTTTT
1 TCATCTTTTTCATTTTTTT
3159912 GCACTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (20 bp):
TCATCTTTTTCATTTTTTTT
Found at i:3160308 original size:6 final size:6
Alignment explanation
Indices: 3160297--3160333 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
3160287 AGCACTTTAA
3160297 TTTTCT TTTTCT TTTTC- TTTT-T TTTTCT TTTT-T TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
3160334 AATGATCCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 13 0.45
6 16 0.55
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (6 bp):
TTTTCT
Found at i:3160314 original size:12 final size:11
Alignment explanation
Indices: 3160297--3160333 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
3160287 AGCACTTTAA
3160297 TTTTCTTTTTCT
1 TTTTCTTTTT-T
3160309 TTTTC-TTTTT
1 TTTTCTTTTTT
3160319 TTTTCTTTTTT
1 TTTTCTTTTTT
3160330 TTTT
1 TTTT
3160334 AATGATCCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 6 0.25
11 13 0.54
12 5 0.21
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:3160316 original size:22 final size:21
Alignment explanation
Indices: 3160291--3160333 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
3160281 CTTAAAAGCA
3160291 CTTTAATTTTCTTTTTCTTTTT
1 CTTTAATTTTCTTTTT-TTTTT
**
3160313 CTTTTTTTTTCTTTTTTTTTT
1 CTTTAATTTTCTTTTTTTTTT
3160334 AATGATCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.84
Consensus pattern (21 bp):
CTTTAATTTTCTTTTTTTTTT
Found at i:3160327 original size:9 final size:10
Alignment explanation
Indices: 3160297--3160332 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 10
3160287 AGCACTTTAA
3160297 TTTTCTTTTTCT
1 TTTTC-TTTT-T
3160309 TTTTCTTTTT
1 TTTTCTTTTT
3160319 TTTTCTTTTT
1 TTTTCTTTTT
3160329 TTTT
1 TTTT
3160333 TAATGATCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 15 0.62
11 4 0.17
12 5 0.21
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:3163695 original size:13 final size:13
Alignment explanation
Indices: 3163677--3163704 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3163667 TACAAAAGAT
3163677 CAATGTATCGATA
1 CAATGTATCGATA
3163690 CAATGTATCGATA
1 CAATGTATCGATA
3163703 CA
1 CA
3163705 TTTCCTTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:3163746 original size:13 final size:13
Alignment explanation
Indices: 3163728--3163779 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
3163718 AGCTTCGTAG
3163728 CGATACATTGTAT
1 CGATACATTGTAT
3163741 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
3163760 CGATACATTGTAT
1 CGATACATTGTAT
3163773 CGATACA
1 CGATACA
3163780 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:3163760 original size:19 final size:18
Alignment explanation
Indices: 3163736--3163798 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
3163726 AGCGATACAT
3163736 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
3163755 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
3163768 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
3163787 TGTATCGATACA
1 TGTATCGATACA
3163799 GTTACGATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:3163769 original size:32 final size:32
Alignment explanation
Indices: 3163728--3163798 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
3163718 AGCTTCGTAG
3163728 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
3163760 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
3163792 CGATACA
1 CGATACA
3163799 GTTACGATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:3166848 original size:79 final size:79
Alignment explanation
Indices: 3166744--3166935 Score: 215
Period size: 79 Copynumber: 2.4 Consensus size: 79
3166734 TTGAAGTGTT
* * * * * *
3166744 CCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAGAAAAAAAAAT
1 CCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTAGAAAAAAAAAC
3166808 CGGGATTGGAGTATC
65 CGGGATTGGAGTATC
** * * ** * *
3166823 CTTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCC
1 CCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGAAAAAAAAACC
*
3166888 GGGGTTGGAGTATC
66 GGGATTGGAGTATC
* *
3166902 CCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 CCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
3166936 GAAATAACGA
Statistics
Matches: 92, Mismatches: 20, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
78 1 0.01
79 91 0.99
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (79 bp):
CCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGAAAAAAAAACC
GGGATTGGAGTATC
Found at i:3166927 original size:28 final size:28
Alignment explanation
Indices: 3166887--3166958 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
3166877 GGAATAAAGC
** *
3166887 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
3166915 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
3166943 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
3166959 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:3171019 original size:156 final size:156
Alignment explanation
Indices: 3170799--3171129 Score: 367
Period size: 156 Copynumber: 2.1 Consensus size: 156
3170789 ACCGATACCT
* * *
3170799 CTAAAGGACTTAAAAAGGACTATAGATGGGACGAACCTATCCTAAATGCCCACCTTCGACATAAA
1 CTAAAGGACTTAAAAA-GACTAGAGATGGGACAAACCTATCCTAAATGCCCAACTTCGACATAAA
* * * *
3170864 AGCAGACTCAGTGACAACTTAAGACTTAG-TTCCAAAAAATTATGAAAATACCCTTAAGGGCATA
65 AACAGACCCAGTGACAACCTAAGAC-TAGATTCCAAAAAATTATGAAAATACCCCTAAGGGCATA
3170928 CTTTCGACGTAAAAGTATCCCAGCAACC
129 CTTTCGACGTAAAAGTATCCCAGCAACC
* * * **
3170956 CTAAAGGACTTAAAAAGACTAGATATGGGATAAACCTATCCTAAATGCCCAAGTTCGGTATAAAA
1 CTAAAGGACTTAAAAAGACTAGAGATGGGACAAACCTATCCTAAATGCCCAACTTCGACATAAAA
* * * * * * ** * ** * *
3171021 ATAGACCCGGTGATAACCTAGGACTCGATTCTAGGAAATTATGAAAATGCCCCTATTGGTATATT
66 ACAGACCCAGTGACAACCTAAGACTAGATTCCAAAAAATTATGAAAATACCCCTAAGGGCATACT
* * **
3171086 TTTGACGTAAAAGTATTCTGGCAACC
131 TTCGACGTAAAAGTATCCCAGCAACC
*
3171112 CTAAAAGACTTAAAAAGA
1 CTAAAGGACTTAAAAAGA
3171130 ATTTTAATTG
Statistics
Matches: 143, Mismatches: 30, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
155 2 0.01
156 125 0.87
157 16 0.11
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (156 bp):
CTAAAGGACTTAAAAAGACTAGAGATGGGACAAACCTATCCTAAATGCCCAACTTCGACATAAAA
ACAGACCCAGTGACAACCTAAGACTAGATTCCAAAAAATTATGAAAATACCCCTAAGGGCATACT
TTCGACGTAAAAGTATCCCAGCAACC
Found at i:3173844 original size:165 final size:164
Alignment explanation
Indices: 3173643--3174132 Score: 653
Period size: 163 Copynumber: 3.0 Consensus size: 164
3173633 GAAAAAAAAA
* * *
3173643 GAAATTTCAAGGAAAAAATTCAAAATTCATGGAAATGAATGCATTTTTGAAAACCAAATTAATAT
1 GAAATTTCAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTAAATTAATAT
* * *
3173708 GAAATAAATAATAATACTTGATGAATTTTAAAAATTAAAAACCAAGAAAAAT-TCCCGAAAAAAA
66 AAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAA-CAAGAAAAATCCCCCG-AAAAAA
*
3173772 TTTGCGGAGTAGAAAACTCTGTATTTTGGAAAAAGG
129 TTTACGGAGTAGAAAACTCTGTATTTTGGAAAAAGG
* * * * * *
3173808 GAAATTTTAAGGAAAAAATTAAAAATTTATGGAAATGAATGAATTTTTAAAAACTGAATCAATGT
1 GAAATTTCAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTAAATTAATAT
* ** *
3173873 AAAATAAATAATAATATTTGAT-AAATTTAGGAA-TAAAAAAAAGAAAAATGCCCCCGAAAAAAT
66 AAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACAAGAAAAAT-CCCCCGAAAAAAT
* * **
3173936 TTACGGAGTAGAAAACTCCGTATGTCAGAAAAAGG
130 TTACGGAGTAGAAAACTCTGTATTTTGGAAAAAGG
* * *
3173971 AAAATTTCAAAGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAATTAAATTAATAT
1 GAAATTTCAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTAAATTAATAT
* * *
3174036 TAAATAAATAATAATATTTGGTGAATTTTAAAAATCAAAAAACAAGAAAAATCCCCTCGAAAAAA
66 AAAATAAATAATAATATTTGATGAATTTTAAAAAT-TAAAAACAAGAAAAATCCCC-CGAAAAAA
* *
3174101 TTTACGAAGTAGAAAACTTTGTATTTTGGAAA
129 TTTACGGAGTAGAAAACTCTGTATTTTGGAAA
3174133 TAGAAAAAAT
Statistics
Matches: 276, Mismatches: 43, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
162 9 0.03
163 119 0.43
164 20 0.07
165 80 0.29
166 48 0.17
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (164 bp):
GAAATTTCAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTAAATTAATAT
AAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACAAGAAAAATCCCCCGAAAAAATT
TACGGAGTAGAAAACTCTGTATTTTGGAAAAAGG
Found at i:3175208 original size:13 final size:14
Alignment explanation
Indices: 3175190--3175222 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3175180 TCATTACTTT
3175190 AAAAAAA-ACATGA
1 AAAAAAAGACATGA
*
3175203 AAAAAAAGTCATGA
1 AAAAAAAGACATGA
3175217 AAAAAA
1 AAAAAA
3175223 TTTAACAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.76, C:0.06, G:0.09, T:0.09
Consensus pattern (14 bp):
AAAAAAAGACATGA
Found at i:3175790 original size:16 final size:16
Alignment explanation
Indices: 3175779--3175823 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
3175769 TTAAAAAATT
3175779 AAAAAAAAAAAAACTA
1 AAAAAAAAAAAAACTA
**
3175795 AAAACTAAAAAAACTA
1 AAAAAAAAAAAAACTA
3175811 AAAAATAAAAAAA
1 AAAAA-AAAAAAA
3175824 GTTGAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.84, C:0.07, G:0.00, T:0.09
Consensus pattern (16 bp):
AAAAAAAAAAAAACTA
Found at i:3197387 original size:1 final size:1
Alignment explanation
Indices: 3197381--3197461 Score: 63
Period size: 1 Copynumber: 81.0 Consensus size: 1
3197371 ATCCTCCGCC
* * * * * * * * *
3197381 AAAAAAAAACAAAAAAAATAAAAAAAACAAAAAAAACAAAAAACAAAAACAAACAAACAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
3197446 AAAAACAACAAAAAAA
1 AAAAAAAAAAAAAAAA
3197462 GGTTCGGATG
Statistics
Matches: 58, Mismatches: 22, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:3197396 original size:9 final size:9
Alignment explanation
Indices: 3197382--3197460 Score: 101
Period size: 9 Copynumber: 8.9 Consensus size: 9
3197372 TCCTCCGCCA
3197382 AAAAAAAAC
1 AAAAAAAAC
*
3197391 AAAAAAAAT
1 AAAAAAAAC
3197400 AAAAAAAAC
1 AAAAAAAAC
3197409 AAAAAAAAC
1 AAAAAAAAC
3197418 --AAAAAAC
1 AAAAAAAAC
3197425 AAAAACAAAC
1 AAAAA-AAAC
*
3197435 -AAACAAAC
1 AAAAAAAAC
3197443 AAAAAAAAC
1 AAAAAAAAC
3197452 AACAAAAAA
1 AA-AAAAAA
3197461 AGGTTCGGAT
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
7 7 0.11
8 4 0.07
9 40 0.66
10 10 0.16
ACGTcount: A:0.86, C:0.13, G:0.00, T:0.01
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:3197427 original size:34 final size:34
Alignment explanation
Indices: 3197384--3197458 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
3197374 CTCCGCCAAA
3197384 AAAAAACAAAAA-AAATAAAAAAAACAAAAAAAAC
1 AAAAAACAAAAACAAA-AAAAAAAACAAAAAAAAC
* *
3197418 AAAAAACAAAAACAAACAAACAAACAAAAAAAAC
1 AAAAAACAAAAACAAAAAAAAAAACAAAAAAAAC
3197452 AACAAAA
1 AA-AAAA
3197459 AAAGGTTCGG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 30 0.81
35 7 0.19
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.01
Consensus pattern (34 bp):
AAAAAACAAAAACAAAAAAAAAAACAAAAAAAAC
Found at i:3202116 original size:52 final size:52
Alignment explanation
Indices: 3201967--3202096 Score: 242
Period size: 52 Copynumber: 2.5 Consensus size: 52
3201957 TCGAAATATA
3201967 AAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGG
1 AAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGG
* *
3202019 CAAATTTGCCTGCATGTATTGATACATTTCATAGTGTATCGATACATCTGGG
1 AAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGG
3202071 AAAATTTGCCTGCATGTATCGATACA
1 AAAATTTGCCTGCATGTATCGATACA
3202097 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
AAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGG
Found at i:3202123 original size:13 final size:13
Alignment explanation
Indices: 3202105--3202129 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3202095 CAAAGATCAG
3202105 TGTATCGATACAA
1 TGTATCGATACAA
3202118 TGTATCGATACA
1 TGTATCGATACA
3202130 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3202192 original size:13 final size:13
Alignment explanation
Indices: 3202174--3202257 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
3202164 AGCTTCGTAG
3202174 CGATACATTGTAT
1 CGATACATTGTAT
3202187 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
3202206 CGATACATTGTAT
1 CGATACATTGTAT
3202219 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
3202238 CGATACATTGTAT
1 CGATACATTGTAT
3202251 CGATACA
1 CGATACA
3202258 ACACTTATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 26 0.44
14 1 0.02
15 2 0.03
16 8 0.14
17 2 0.03
18 1 0.02
19 19 0.32
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:3202206 original size:19 final size:18
Alignment explanation
Indices: 3202182--3202278 Score: 97
Period size: 19 Copynumber: 5.8 Consensus size: 18
3202172 AGCGATACAT
3202182 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
3202201 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
3202214 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
3202233 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
3202246 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
3202265 TGTATCGATACAAA
1 TGTATCGATACAAA
3202279 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 25
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 3 0.05
19 35 0.53
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:3202215 original size:32 final size:32
Alignment explanation
Indices: 3202174--3202276 Score: 197
Period size: 32 Copynumber: 3.2 Consensus size: 32
3202164 AGCTTCGTAG
*
3202174 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
3202206 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
3202238 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
3202270 CGATACA
1 CGATACA
3202277 AATCGTTGAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:3202885 original size:20 final size:20
Alignment explanation
Indices: 3202860--3202915 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
3202850 AATTGTAAGC
3202860 ATGTATCGATACATTTGCTT
1 ATGTATCGATACATTTGCTT
*
3202880 ATGTATCCATACATTTGCTT
1 ATGTATCGATACATTTGCTT
3202900 ATGTATCGATACATTT
1 ATGTATCGATACATTT
3202916 CCTTTTCAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTTGCTT
Found at i:3202982 original size:20 final size:21
Alignment explanation
Indices: 3202940--3202992 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
3202930 AAGGTGGTTT
* *
3202940 TGTATCGATACATTTCAGGCA
1 TGTATTGATACATTTCACGCA
*
3202961 TGTATTGATACA-TTCACTCA
1 TGTATTGATACATTTCACGCA
3202981 TGTATTGATACA
1 TGTATTGATACA
3202993 AATACTTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATTGATACATTTCACGCA
Found at i:3203010 original size:20 final size:21
Alignment explanation
Indices: 3202980--3203034 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
3202970 ACATTCACTC
*
3202980 ATGTATTGATACAAATACT-T
1 ATGTATCGATACAAATACTGT
* **
3203000 ATGTATCGATATATTTACTGT
1 ATGTATCGATACAAATACTGT
*
3203021 TTGTATCGATACAA
1 ATGTATCGATACAA
3203035 TTTGTAGAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACAAATACTGT
Found at i:3203724 original size:31 final size:31
Alignment explanation
Indices: 3203689--3203810 Score: 104
Period size: 31 Copynumber: 3.9 Consensus size: 31
3203679 ACTCGAACTT
* *
3203689 AGGTGCCACCAGCTTGTGTGGGCTTTGACTC
1 AGGTGCCACCAACTTGTGCGGGCTTTGACTC
* * *
3203720 AGGTGCCACTAACTTGTGCAGGCTTAGACTC
1 AGGTGCCACCAACTTGTGCGGGCTTTGACTC
** * *
3203751 -GAGTGCCTTCAGCTTGTGCGGGCTTTGAGT-
1 AG-GTGCCACCAACTTGTGCGGGCTTTGACTC
* * *
3203781 AGGGTGCCACCAACTCGCGTGGGCTTTGAC
1 A-GGTGCCACCAACTTGTGCGGGCTTTGAC
3203811 ATTTTAAGGC
Statistics
Matches: 69, Mismatches: 19, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
30 1 0.01
31 67 0.97
32 1 0.01
ACGTcount: A:0.16, C:0.25, G:0.32, T:0.27
Consensus pattern (31 bp):
AGGTGCCACCAACTTGTGCGGGCTTTGACTC
Done.