Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 42 of 203
Found at i:13933500 original size:3 final size:3
Alignment explanation
Indices: 13933488--13933516 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
13933478 AATTATATTT
13933488 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13933517 AGATTTAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:13935223 original size:25 final size:24
Alignment explanation
Indices: 13935184--13935242 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
13935174 TTATTTTATT
* * *
13935184 AAATAAA-AAATTTTAAAATATAA
1 AAATAAATATATTTAAAAACATAA
13935207 TAAATTAAATATATTTAAAAACATAA
1 -AAA-TAAATATATTTAAAAACATAA
13935233 AAATAAATAT
1 AAATAAATAT
13935243 TAAAACAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.33
25 7 0.23
26 13 0.43
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:13935247 original size:21 final size:22
Alignment explanation
Indices: 13935213--13935268 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
13935203 ATAATAAATT
* *
13935213 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
13935233 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
13935255 AAAT-AATACTAAAA
1 AAATAAATATTAAAA
13935269 TAATTCTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 15 0.48
22 9 0.29
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:13935357 original size:17 final size:19
Alignment explanation
Indices: 13935316--13935357 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
13935306 AAAAATAGTT
*
13935316 ATATTAAAAATTTAAAATA
1 ATATTAAAAATATAAAATA
13935335 AT-TTAAAAA-ATAAAA-A
1 ATATTAAAAATATAAAATA
13935351 ATATTAA
1 ATATTAA
13935358 TATTAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 3 0.14
17 9 0.43
18 7 0.33
19 2 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATATTAAAAATATAAAATA
Found at i:13935758 original size:18 final size:20
Alignment explanation
Indices: 13935737--13935773 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
13935727 ATTTAGTTAC
13935737 TTTTAAAAA-AACT-GAAAT
1 TTTTAAAAATAACTAGAAAT
13935755 TTTTAAAAATAACTAGAAA
1 TTTTAAAAATAACTAGAAA
13935774 AAGTTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 4 0.24
20 4 0.24
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (20 bp):
TTTTAAAAATAACTAGAAAT
Found at i:13938793 original size:179 final size:179
Alignment explanation
Indices: 13938474--13938801 Score: 392
Period size: 179 Copynumber: 1.8 Consensus size: 179
13938464 TTTCTTACTA
* *
13938474 GAAATCACCTATTCTAAACATATGCATGGCAAGCAACTTCACTTTAGCTGAAAAGCCGGGATATT
1 GAAATCACCTATTCTAAACATATGCATGGCAAGCAACTTCACTTTAGCTAAAAAGCCGGGAGATT
* * * * ** **
13938539 CCAACAAAAATGAGATGAGATCAACTCCGGGGTTTCATGAAATCACCTATTCTAGACGTATGCAG
66 CCAACAAAAATGAGATCAGATCAACTCCGGGATTTCACGAAATCACCTATTCTAAACACAACCAG
* *
13938604 TGGGAAGCAACTATCATCTTGGTTGAAATGTTTGACTCCGGGATTTCAT
131 TAGAAAGCAACTATCATCTTGGTTGAAATGTTTGACTCCGGGATTTCAT
* * * *
13938653 GAAATCATCTATTCTAAACATATTCAATGGGAAGCAACTATCA-TCTTAGCTAAAAAGCTGGGAG
1 GAAATCACCTATTCTAAACATATGC-ATGGCAAGCAACT-TCACT-TTAGCTAAAAAGCCGGGAG
** * * * * *
13938717 ATTCTGACAAAAATGA-ATCA-TTCGATTCCTGGATTTCACGAAATTACCTATTCTAAACACAAC
63 ATTCCAACAAAAATGAGATCAGATCAACTCCGGGATTTCACGAAATCACCTATTCTAAACACAAC
*
13938780 CTGTAGAAAGCAACTATCATCT
128 CAGTAGAAAGCAACTATCATCT
13938802 AAAAAGCTGG
Statistics
Matches: 122, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
179 73 0.60
180 16 0.13
181 33 0.27
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (179 bp):
GAAATCACCTATTCTAAACATATGCATGGCAAGCAACTTCACTTTAGCTAAAAAGCCGGGAGATT
CCAACAAAAATGAGATCAGATCAACTCCGGGATTTCACGAAATCACCTATTCTAAACACAACCAG
TAGAAAGCAACTATCATCTTGGTTGAAATGTTTGACTCCGGGATTTCAT
Found at i:13939926 original size:182 final size:183
Alignment explanation
Indices: 13939467--13939994 Score: 624
Period size: 182 Copynumber: 2.9 Consensus size: 183
13939457 CATACAAAAT
* * * *
13939467 GATCCTCCAAATAGATAGAGAAAACTTTCAAAAAATAAAGCATACTAG-TATTGGACACGTACCC
1 GATCTTCCAAATAGATAGAAAAAACTTTCAAAAAATAAAGCATACTCGCT-TTGGACATGTACCC
* * * *** * * * * * * *
13939531 ATATCCAGTACTTACCCAAGTCGGAGTAATATATTAATT-AGT-TATAATTAGACCCTAAAATGA
65 GTAGCCGGTACTTACATGAGTCCGAGTAACATGTCAATTAATTATATAATTAGACCCTAAAAAGG
* * * * * * *
13939594 CGGTCTCTTCATAAACATACAAATTAAAGGCACATATATATAGATAGATATAGATAC
130 CAGTCTCTTCATAAACATACAAATTAAAGGCAC--ACACACACATAGAGATA-ACAC
* * *
13939651 GATCCTT-CAAATAGATAGAAAAACCTTT-GAAAAATAAAGCATACTCACTTTGGACATGTACCC
1 GAT-CTTCCAAATAGATAGAAAAAACTTTCAAAAAATAAAGCATACTCGCTTTGGACATGTACCC
* * *
13939714 GTAGCCGGTCCTTATATGAGTCCAAGTAACATGTCAATTAATTATATAATTAGACCCTAAAAAGG
65 GTAGCCGGTACTTACATGAGTCCGAGTAACATGTCAATTAATTATATAATTAGACCCTAAAAAGG
13939779 CAGTCTCTTCATAAACATACAAATTAAAGGCACACACACACATACG-GAT-ACAC
130 CAGTCTCTTCATAAACATACAAATTAAAGGCACACACACACATA-GAGATAACAC
* *
13939832 GATCTTCCAAATAGATAAAAAAAACTTTCAAAAAATAAAGCATACTCGCTTTGGACATGTGCCCG
1 GATCTTCCAAATAGATAGAAAAAACTTTCAAAAAATAAAGCATACTCGCTTTGGACATGTACCCG
13939897 TAGCCGGTACTTACATGAGTCCGAGTAACATG-CTAATTAATTATATAATTAGACCCT-AAAAGG
66 TAGCCGGTACTTACATGAGTCCGAGTAACATGTC-AATTAATTATATAATTAGACCCTAAAAAGG
*
13939960 ACAGTCTCTTCATAAACAGACAAATTAAAGGCACA
130 -CAGTCTCTTCATAAACATACAAATTAAAGGCACA
13939995 TATATATACC
Statistics
Matches: 296, Mismatches: 39, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
180 3 0.01
181 32 0.11
182 118 0.40
183 64 0.22
184 26 0.09
185 53 0.18
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.26
Consensus pattern (183 bp):
GATCTTCCAAATAGATAGAAAAAACTTTCAAAAAATAAAGCATACTCGCTTTGGACATGTACCCG
TAGCCGGTACTTACATGAGTCCGAGTAACATGTCAATTAATTATATAATTAGACCCTAAAAAGGC
AGTCTCTTCATAAACATACAAATTAAAGGCACACACACACATAGAGATAACAC
Found at i:13948397 original size:21 final size:21
Alignment explanation
Indices: 13948371--13948423 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
13948361 CGCTATTTCT
*
13948371 AATCTCACCGCTACAATATCC
1 AATCTCACCGCTACAATAACC
* *
13948392 AATCTCATCGCTACAATAACT
1 AATCTCACCGCTACAATAACC
13948413 AATCTCACCGC
1 AATCTCACCGC
13948424 CGCCGCCACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.36, G:0.06, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:13955246 original size:31 final size:30
Alignment explanation
Indices: 13955210--13955271 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
13955200 AAAATTATAC
13955210 TTTATCTCC-TCATAAATAATAAAAAAATAAT
1 TTTATC-CCTTCA-AAATAATAAAAAAATAAT
* * *
13955241 TTTATCCCTTGAAAATTATAAAAATATAAT
1 TTTATCCCTTCAAAATAATAAAAAAATAAT
13955271 T
1 T
13955272 ATTAAAACGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (30 bp):
TTTATCCCTTCAAAATAATAAAAAAATAAT
Found at i:13955278 original size:23 final size:23
Alignment explanation
Indices: 13955252--13955313 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 23
13955242 TTATCCCTTG
*
13955252 AAAATTATAAAAATATAATTATT
1 AAAATCATAAAAATATAATTATT
* *
13955275 AAAA-CGATAAAATTAT-ATTTTT
1 AAAATC-ATAAAAATATAATTATT
**
13955297 ACTATCATAAAAATATA
1 AAAATCATAAAAATATA
13955314 TAATTTAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
22 16 0.53
23 14 0.47
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (23 bp):
AAAATCATAAAAATATAATTATT
Found at i:13960366 original size:9 final size:10
Alignment explanation
Indices: 13960354--13960399 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
13960344 TAAAAATATT
13960354 AAAAATTAGA
1 AAAAATTAGA
*
13960364 AAAAAATAGA
1 AAAAATTAGA
*
13960374 AAAAATTA-T
1 AAAAATTAGA
13960383 AAAAA-TAGTA
1 AAAAATTAG-A
13960393 AAAAATT
1 AAAAATT
13960400 TATAAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
8 2 0.07
9 5 0.17
10 21 0.72
11 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (10 bp):
AAAAATTAGA
Found at i:13960370 original size:20 final size:20
Alignment explanation
Indices: 13960354--13960399 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
13960344 TAAAAATATT
13960354 AAAAATTAGAAAAAAATAGA
1 AAAAATTAGAAAAAAATAGA
*
13960374 AAAAATT--ATAAAAATAGTA
1 AAAAATTAGAAAAAAATAG-A
13960393 AAAAATT
1 AAAAATT
13960400 TATAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 9 0.38
19 8 0.33
20 7 0.29
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (20 bp):
AAAAATTAGAAAAAAATAGA
Found at i:13960402 original size:20 final size:20
Alignment explanation
Indices: 13960343--13960408 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
13960333 TTATGTTTTA
* *
13960343 ATAAAAATA-TTAAAAATTAG
1 ATAAAAATAGTAAAAAATT-T
*
13960363 AAAAAAATAG-AAAAAA-TT
1 ATAAAAATAGTAAAAAATTT
13960381 ATAAAAATAGTAAAAAATTT
1 ATAAAAATAGTAAAAAATTT
13960401 ATAAAAAT
1 ATAAAAAT
13960409 TATCATACCA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 9 0.23
19 7 0.18
20 23 0.59
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (20 bp):
ATAAAAATAGTAAAAAATTT
Found at i:13960701 original size:28 final size:29
Alignment explanation
Indices: 13960669--13960725 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
13960659 AATTTTAATA
* **
13960669 AAAATTTAAT-ATTTTTATATTTTTTATT
1 AAAATTTAATAACTTTTATAACTTTTATT
13960697 AAAATTTAATAACTTTTATAACTTTTATT
1 AAAATTTAATAACTTTTATAACTTTTATT
13960726 GATTTCTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (29 bp):
AAAATTTAATAACTTTTATAACTTTTATT
Found at i:13964770 original size:83 final size:84
Alignment explanation
Indices: 13964647--13964806 Score: 250
Period size: 83 Copynumber: 1.9 Consensus size: 84
13964637 TAAAAAAAAA
13964647 TTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCATTTGATTTTCA-TTTATATGGCGGATCAT
1 TTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCATTTGATTTTCATTTTATATGGCGGATCAT
13964711 CAATTTTTTCTTTCTTAAT
66 CAATTTTTTCTTTCTTAAT
* * *
13964730 TTTCATTTCGAATTCTTAGTTGAGCTTATCGTAGCATTTGATTTTCATTTCTTTATATGTCGGAT
1 TTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCATTTGATTTTCA--T-TTTATATGGCGGAT
*
13964795 CTTCAATTTTTT
63 CATCAATTTTTT
13964807 TTATTTCTCT
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
83 45 0.65
87 24 0.35
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.51
Consensus pattern (84 bp):
TTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCATTTGATTTTCATTTTATATGGCGGATCAT
CAATTTTTTCTTTCTTAAT
Found at i:13964864 original size:108 final size:100
Alignment explanation
Indices: 13964752--13965187 Score: 388
Period size: 97 Copynumber: 4.3 Consensus size: 100
13964742 TTCTTAGTTG
*
13964752 AGCTTATCGTAGCATTTGATTTTCATTTCTTTATATGTCGGATCTTCAATTTTTTTTATTTCTCT
1 AGCTTATCGTAGCATTTGATTTTCATTTCTTTATATGGCGGATCTTCAA-TTTTTTTATTTCTCT
*
13964817 CTTTCTTTTTT-TTTTTGAAATTCTCACTTCGAACACTTACTTA
65 CTTTCTTTTTTCATTTT--AA-T-T---TT-GAACACTTACTTA
* * * * * *
13964860 AGCTTATCGAAGCATTTAATTTTCATTTCTTAATATGGCGGATCTTCAA-ATTTTTGTTTCTCTG
1 AGCTTATCGTAGCATTTGATTTTCATTTCTTTATATGGCGGATCTTCAATTTTTTTATTTCTCTC
* * * *
13964924 TTTGTTTTTTCATTTTCATTTTGAACTCTTAGTTA
66 TTTCTTTTTTCATTTTAATTTTGAACACTTACTTA
* * * * * *
13964959 AGCTTATCGTAGCAGTTGA-TTTCATTTCTTTACATGGCGCATCTTCAA-ATTTTTGTTTCTCTG
1 AGCTTATCGTAGCATTTGATTTTCATTTCTTTATATGGCGGATCTTCAATTTTTTTATTTCTCTC
* * *
13965022 TTT-TTTTTTCATTTTCATTTTGAACTCTTAGTTA
66 TTTCTTTTTTCATTTTAATTTTGAACACTTACTTA
* * ** * * *
13965056 AGCTTATCGTAGCAGTTGA-TTTCATTTCTTTACATGGCACATCTTCAA-ATTTTTGTTTCTCTG
1 AGCTTATCGTAGCATTTGATTTTCATTTCTTTATATGGCGGATCTTCAATTTTTTTATTTCTCTC
* * * *
13965119 TTAT-TTTTTTCCATTTCGAAGTTCGAACTA-TCT-GTTA
66 TT-TCTTTTTT-CATTT-TAATTTTGAAC-ACT-TACTTA
13965156 AGCTTATCGTAGCATTTGATTTTCATTTCTTT
1 AGCTTATCGTAGCATTTGATTTTCATTTCTTT
13965188 GTTTTTTTAA
Statistics
Matches: 296, Mismatches: 25, Indels: 21
0.87 0.07 0.06
Matches are distributed among these distances:
97 95 0.32
98 51 0.17
99 32 0.11
100 32 0.11
101 13 0.04
103 1 0.00
104 1 0.00
105 1 0.00
106 21 0.07
107 4 0.01
108 45 0.15
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.52
Consensus pattern (100 bp):
AGCTTATCGTAGCATTTGATTTTCATTTCTTTATATGGCGGATCTTCAATTTTTTTATTTCTCTC
TTTCTTTTTTCATTTTAATTTTGAACACTTACTTA
Found at i:13965072 original size:97 final size:98
Alignment explanation
Indices: 13964847--13965187 Score: 483
Period size: 97 Copynumber: 3.5 Consensus size: 98
13964837 TTCTCACTTC
* * * * * * * *
13964847 GAACACTTACTTAAGCTTATCGAAGCATTTAATTTTCATTTCTTAATATGGCGGATCTTCAAATT
1 GAACTCTTAGTTAAGCTTATCGTAGCAGTTGATTTTCATTTCTTTACATGGCGCATCTTCAAATT
13964912 TTTGTTTCTCTGTTTGTTTTTTCATTTTCATTTT
66 TTTGTTTCTCTGTTT-TTTTTTCATTTTCATTTT
13964946 GAACTCTTAGTTAAGCTTATCGTAGCAGTTGA-TTTCATTTCTTTACATGGCGCATCTTCAAATT
1 GAACTCTTAGTTAAGCTTATCGTAGCAGTTGATTTTCATTTCTTTACATGGCGCATCTTCAAATT
13965010 TTTGTTTCTCTGTTTTTTTTTCATTTTCATTTT
66 TTTGTTTCTCTGTTTTTTTTTCATTTTCATTTT
*
13965043 GAACTCTTAGTTAAGCTTATCGTAGCAGTTGA-TTTCATTTCTTTACATGGCACATCTTCAAATT
1 GAACTCTTAGTTAAGCTTATCGTAGCAGTTGATTTTCATTTCTTTACATGGCGCATCTTCAAATT
* *
13965107 TTTGTTTCTCTGTTATTTTTTTCCA-TTTCGAAGTTC
66 TTTGTTTCTCTGTT-TTTTTTT-CATTTTC--ATTTT
* *
13965143 GAACTATCT-GTTAAGCTTATCGTAGCATTTGATTTTCATTTCTTT
1 GAACTCT-TAGTTAAGCTTATCGTAGCAGTTGATTTTCATTTCTTT
13965188 GTTTTTTTAA
Statistics
Matches: 223, Mismatches: 13, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
97 95 0.43
98 55 0.25
99 29 0.13
100 31 0.14
101 13 0.06
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.50
Consensus pattern (98 bp):
GAACTCTTAGTTAAGCTTATCGTAGCAGTTGATTTTCATTTCTTTACATGGCGCATCTTCAAATT
TTTGTTTCTCTGTTTTTTTTTCATTTTCATTTT
Found at i:13976413 original size:44 final size:44
Alignment explanation
Indices: 13976363--13976494 Score: 201
Period size: 44 Copynumber: 3.0 Consensus size: 44
13976353 TACAAAAAAC
13976363 TAAATCCACAAGGATTAATAGCAGAATTTGACCATTTTTAGCAT
1 TAAATCCACAAGGATTAATAGCAGAATTTGACCATTTTTAGCAT
* *
13976407 TAAATCCACAAGAATTAGTAGCAGAATTTGACCATTTTTAGCAT
1 TAAATCCACAAGGATTAATAGCAGAATTTGACCATTTTTAGCAT
* * * * *
13976451 TAAATTCACAAGGACTAATATCAGAACTTGACCATTTTAAGCAT
1 TAAATCCACAAGGATTAATAGCAGAATTTGACCATTTTTAGCAT
13976495 AGAAAGAGAA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 79 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (44 bp):
TAAATCCACAAGGATTAATAGCAGAATTTGACCATTTTTAGCAT
Found at i:13978105 original size:16 final size:15
Alignment explanation
Indices: 13978086--13978122 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
13978076 TAAAATTTTA
13978086 AAATTAAAAAATATAG
1 AAATTAAAAAATAT-G
13978102 AAATT-AAAAATATG
1 AAATTAAAAAATATG
13978116 AAATTAA
1 AAATTAA
13978123 CTTAGAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 6 0.30
15 9 0.45
16 5 0.25
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (15 bp):
AAATTAAAAAATATG
Found at i:13978110 original size:14 final size:14
Alignment explanation
Indices: 13978086--13978122 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 14
13978076 TAAAATTTTA
13978086 AAATTAAAAAATATAG
1 AAATT-AAAAATAT-G
13978102 AAATTAAAAATATG
1 AAATTAAAAATATG
13978116 AAATTAA
1 AAATTAA
13978123 CTTAGAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.38
15 8 0.38
16 5 0.24
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (14 bp):
AAATTAAAAATATG
Found at i:13985944 original size:3 final size:3
Alignment explanation
Indices: 13985936--13985967 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
13985926 AACTTGAATT
*
13985936 CAA CAA CAA CAA CAA CAA CAA CAA CAA AAA CA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CA
13985968 GGGTTTACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:13994269 original size:190 final size:189
Alignment explanation
Indices: 13993883--13994297 Score: 444
Period size: 190 Copynumber: 2.2 Consensus size: 189
13993873 TTGTTGGGTC
* ** * * *
13993883 AAATTATGATTTTGGTCCTTTTACTATGCTCAAATTTGGATATATAGTAAGAAAAACGAGTTAAT
1 AAATTATGATTTTGGTCCCTCAACTATGCTC--A-TTGGATATATAATAAGAAAAACAAGTTAAA
* * * * *
13993948 ACTAAAGAAATTAAACAAGGTTTTTTGGTTAAATTTTGATTTTAGTCCGTCTATTATGGTCTAAT
63 ACTAAAGAAACTAAACAAGGTTTTTTGGTTAAATTATGATTTTAGTCCGTCTACTATGCTCAAAT
* **
13994013 TTGGAGGTAAAATAAATAAAAAAAACGAGTTAAAAGTGATGAAATGAAACAAATTTTTTGGTT
128 TTGGA-GTAAAATAAATAAAAAAAACGAGTTAAAAGTGATAAAACAAAACAAATTTTTTGGTT
* *
13994076 AAATTATGATTTTGGTCCCTCAACTATGCTC-TTGGATGTATAATAAGAAAAACAAGTTAAAAGT
1 AAATTATGATTTTGGTCCCTCAACTATGCTCATTGGATATATAATAAGAAAAACAAGTTAAAACT
* * * * * *
13994140 GATG-AACTAAACAAGTTTTTTTTGTGTTAAATTATGGTTTTGGTCCTTCTACTATGCTCAAATT
66 AAAGAAACTAAACAAG-GTTTTTTG-GTTAAATTATGATTTTAGTCCGTCTACTATGCTCAAATT
** * *
13994204 TGGA-T-TTAT-AATAAGAAAAACGAGTTAAAAGTGATAAAACAAAAGAAAGTTTTTCTTTGGTT
129 TGGAGTAAAATAAATAAAAAAAACGAGTTAAAAGTGATAAAACAAAACAAA---TTT-TTTGGTT
* * *
13994266 AAATTCTGATTTTGGTCCCACAACTATTCTCA
1 AAATTATGATTTTGGTCCCTCAACTATGCTCA
13994298 AGTTTGGAAT
Statistics
Matches: 186, Mismatches: 29, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
186 34 0.18
187 2 0.01
188 11 0.06
189 40 0.22
190 71 0.38
193 28 0.15
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (189 bp):
AAATTATGATTTTGGTCCCTCAACTATGCTCATTGGATATATAATAAGAAAAACAAGTTAAAACT
AAAGAAACTAAACAAGGTTTTTTGGTTAAATTATGATTTTAGTCCGTCTACTATGCTCAAATTTG
GAGTAAAATAAATAAAAAAAACGAGTTAAAAGTGATAAAACAAAACAAATTTTTTGGTT
Found at i:13994304 original size:98 final size:94
Alignment explanation
Indices: 13993883--13994310 Score: 348
Period size: 98 Copynumber: 4.5 Consensus size: 94
13993873 TTGTTGGGTC
* ** * * *
13993883 AAATTATGATTTTGGTCCTTTTACTATGCTCAAATTTGGATATATAGTAAGAAAAACGAGTTAAT
1 AAATTATGATTTTGGTCCCTCAACTATGCTC-AATTTGGATTTATAATAAGAAAAACGAGTTAAA
* * * ** * *
13993948 ACTAAAGAAATTAAACAAG-GTTTTTTGGTT
65 AGT-GATAAACAAAAAAAGTTTTTTTTGGTT
* * * * * * ** *
13993978 AAATTTTGATTTTAGTCCGTCTATTATGGTCTAATTTGGAGGTAAAATAAATAAAAAAAACGAGT
1 AAATTATGATTTTGGTCCCTCAACTATGCTC-AATTTGGA--T-TTAT-AATAAGAAAAACGAGT
* *
13994043 TAAAAGTGATGAAATGAAACAAA---TTTTTTGGTT
61 TAAAAGTGAT-AAA-CAAAAAAAGTTTTTTTTGGTT
* *
13994076 AAATTATGATTTTGGTCCCTCAACTATGCTC---TTGGATGTATAATAAGAAAAACAAGTTAAAA
1 AAATTATGATTTTGGTCCCTCAACTATGCTCAATTTGGATTTATAATAAGAAAAACGAGTTAAAA
* * *
13994138 GTGATGAACTAAACAAGTTTTTTTTGTGTT
66 GTGATAAACAAAAAAAGTTTTTTTTG-GTT
* * *
13994168 AAATTATGGTTTTGGTCCTTCTACTATGCTCAAATTTGGATTTATAATAAGAAAAACGAGTTAAA
1 AAATTATGATTTTGGTCCCTCAACTATGCTC-AATTTGGATTTATAATAAGAAAAACGAGTTAAA
13994233 AGTGATAAAACAAAAGAAAGTTTTTCTTTGGTT
65 AGTGAT-AAACAAAA-AAAGTTTTT-TTTGGTT
* * *
13994266 AAATTCTGATTTTGGTCCCACAACTATTCTCAAGTTTGGAATTTA
1 AAATTATGATTTTGGTCCCTCAACTATGCTCAA-TTTGG-ATTTA
13994311 ACATCTGTAT
Statistics
Matches: 267, Mismatches: 47, Indels: 34
0.77 0.14 0.10
Matches are distributed among these distances:
88 4 0.01
89 2 0.01
90 24 0.09
91 9 0.03
92 32 0.12
94 5 0.02
95 33 0.12
96 34 0.13
97 9 0.03
98 80 0.30
99 31 0.12
100 4 0.01
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (94 bp):
AAATTATGATTTTGGTCCCTCAACTATGCTCAATTTGGATTTATAATAAGAAAAACGAGTTAAAA
GTGATAAACAAAAAAAGTTTTTTTTGGTT
Found at i:13996598 original size:20 final size:20
Alignment explanation
Indices: 13996575--13996617 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
13996565 AGTCCTTGAT
13996575 ATTTCTTTGAAAACCTTAAA
1 ATTTCTTTGAAAACCTTAAA
13996595 ATTTCTTTGAAAACCTTAAA
1 ATTTCTTTGAAAACCTTAAA
13996615 ATT
1 ATT
13996618 CAGGTTCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.42
Consensus pattern (20 bp):
ATTTCTTTGAAAACCTTAAA
Found at i:14004628 original size:20 final size:20
Alignment explanation
Indices: 14004603--14004642 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14004593 CATGACGGAA
14004603 GCAGC-AACAGAAACAGAAAC
1 GCAGCAAACAGAAACA-AAAC
*
14004623 GCAGCAAACAGTAACAAAAC
1 GCAGCAAACAGAAACAAAAC
14004643 AACAATAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.55, C:0.25, G:0.17, T:0.03
Consensus pattern (20 bp):
GCAGCAAACAGAAACAAAAC
Found at i:14007671 original size:19 final size:20
Alignment explanation
Indices: 14007631--14007674 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
14007621 GTCTCTTTAG
* *
14007631 GCATT-CATTTCATGCATCT
1 GCATTACATTGCATGCATAT
14007650 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
14007669 GCATTA
1 GCATTA
14007675 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:14012096 original size:44 final size:44
Alignment explanation
Indices: 14012048--14012186 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 44
14012038 GACAAAAGAT
* *
14012048 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTACATTGACAGAGAAGCAGGTCGAAGACACAAAC
* * * ** * * * * *
14012092 CTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTCCTAC-ATTGACAGAGAAGCAGGTCGAAGACACAA-AC
* *
14012136 CTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAAC
1 CTTGCCTTCCTACATTGACAGAGAAGCAGGTCGAAGACACAAAC
14012180 CTTGCCT
1 CTTGCCT
14012187 CTCTCGGTTG
Statistics
Matches: 68, Mismatches: 23, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
43 18 0.26
44 31 0.46
45 19 0.28
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.24
Consensus pattern (44 bp):
CTTGCCTTCCTACATTGACAGAGAAGCAGGTCGAAGACACAAAC
Found at i:14012129 original size:43 final size:43
Alignment explanation
Indices: 14011992--14012142 Score: 124
Period size: 44 Copynumber: 3.4 Consensus size: 43
14011982 GGGACAGATC
*
14011992 GAAGACACAAATCTTGCCTCTTTCGGTTGTGATGGAGCTGGTT
1 GAAGACACAAATCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
* * * * * ** ** * * *
14012035 AAAGACAAAAGATCTTGCCTTCCTAC-ATTGACAGCGAAGCAGATC
1 GAAGACACAA-ATCTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTT
*
14012080 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
1 GAAGACACAAATCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
*
14012123 GAAGACAAAAGATCTTGCCT
1 GAAGACACAA-ATCTTGCCT
14012143 TCCTGCATTG
Statistics
Matches: 76, Mismatches: 27, Indels: 9
0.68 0.24 0.08
Matches are distributed among these distances:
43 26 0.34
44 33 0.43
45 17 0.22
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
GAAGACACAAATCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
Found at i:14012135 original size:88 final size:87
Alignment explanation
Indices: 14011986--14012386 Score: 474
Period size: 88 Copynumber: 4.6 Consensus size: 87
14011976 CCCCAAGGGA
* *
14011986 CAGATCGAAGACACAAATCTTGCCTCTTTCGGTTGT-GATGGAGCTGGTTAAAGACAAAAGATCT
1 CAGATCGAAGACACAAACCTTGCCTCTATCGGTTGTAG-TGGAGCTGGTTAAAGA-AAAAGATCT
*
14012050 TGCCTTCCTACATTGACAGCGAAG
64 TGCCTTCCTACATTAACAGCGAAG
* * *
14012074 CAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGT-GATAGAGCTGGTTGAAGACAAAAGATCT
1 CAGATCGAAGACACAAACCTTGCCTCTATCGGTTGTAG-TGGAGCTGGTTAAAGA-AAAAGATCT
* * *
14012138 TGCCTTCCTGCATTGACAGTGAAG
64 TGCCTTCCTACATTAACAGCGAAG
* * **
14012162 CAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTAAAGAAGCAGATCTTG
1 CAGATCGAAGACACAAACCTTGCCTCTATCGGTTGTAGTGGAGCTGGTTAAAGAAAAAGATCTTG
*
14012227 CCTTCTTACATTAACAGCGAAG
66 CCTTCCTACATTAACAGCGAAG
* * * * *
14012249 CAGATCGAA-A-ACAAAGCCTTGCATCCATCGATTGTAGTGGAGCGGGTTAAA-AAAGCAGATCT
1 CAGATCGAAGACACAAA-CCTTGCCTCTATCGGTTGTAGTGGAGCTGGTTAAAGAAA-AAGATCT
*
14012311 TGCCTTCTTACATTAACAGCGAAG
64 TGCCTTCCTACATTAACAGCGAAG
* * * *
14012335 CAGATC-AA-AAACAAAGCCTTGCCTCCATCGGTTGCATTGGAGCTGGTTAAAG
1 CAGATCGAAGACACAAA-CCTTGCCTCTATCGGTTGTAGTGGAGCTGGTTAAAG
14012387 GATACAGATT
Statistics
Matches: 281, Mismatches: 27, Indels: 11
0.88 0.08 0.03
Matches are distributed among these distances:
85 10 0.04
86 104 0.37
87 35 0.12
88 131 0.47
89 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (87 bp):
CAGATCGAAGACACAAACCTTGCCTCTATCGGTTGTAGTGGAGCTGGTTAAAGAAAAAGATCTTG
CCTTCCTACATTAACAGCGAAG
Found at i:14012174 original size:45 final size:45
Alignment explanation
Indices: 14012036--14012174 Score: 124
Period size: 45 Copynumber: 3.1 Consensus size: 45
14012026 GAGCTGGTTA
* *
14012036 AAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCG
1 AAGACAAAAGATCTTGCCTTCCTACATTGACAGTGAAGCAGGTCG
* * * * * ** * *
14012081 AAGACACAA-ACCTTGCC-TCTTTCGGTTGTGA-T-AGAGCTGGTTG
1 AAGACAAAAGATCTTGCCTTCCTAC-ATTGACAGTGA-AGCAGGTCG
*
14012124 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCG
1 AAGACAAAAGATCTTGCCTTCCTACATTGACAGTGAAGCAGGTCG
14012169 AAGACA
1 AAGACA
14012175 CAAACCTTGC
Statistics
Matches: 68, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
42 1 0.01
43 18 0.26
44 22 0.32
45 26 0.38
46 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (45 bp):
AAGACAAAAGATCTTGCCTTCCTACATTGACAGTGAAGCAGGTCG
Found at i:14012270 original size:43 final size:43
Alignment explanation
Indices: 14012223--14012358 Score: 107
Period size: 43 Copynumber: 3.2 Consensus size: 43
14012213 AGAAGCAGAT
*
14012223 CTTGCCTTCTTACATTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCTTACATTAACAGCGAAGCAGATCAAAAACAAAGC
* * * ** * * * * * * *
14012266 CTTGCATCCAT-CGATT-GTAGTGGAGCGGGTTAAAAA-AGCAGAT
1 CTTGCCTTCTTAC-ATTAACAGCGAAGCAGATCAAAAACA-AAG-C
14012309 CTTGCCTTCTTACATTAACAGCGAAGCAGATCAAAAACAAAGC
1 CTTGCCTTCTTACATTAACAGCGAAGCAGATCAAAAACAAAGC
14012352 CTTGCCT
1 CTTGCCT
14012359 CCATCGGTTG
Statistics
Matches: 62, Mismatches: 25, Indels: 12
0.63 0.25 0.12
Matches are distributed among these distances:
41 1 0.02
42 15 0.24
43 29 0.47
44 16 0.26
45 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (43 bp):
CTTGCCTTCTTACATTAACAGCGAAGCAGATCAAAAACAAAGC
Found at i:14013533 original size:20 final size:20
Alignment explanation
Indices: 14013508--14013547 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14013498 CATGACGGAA
14013508 GCAGC-AACAGAAACAGAAAC
1 GCAGCAAACAGAAACA-AAAC
*
14013528 GCAGCAAACAGTAACAAAAC
1 GCAGCAAACAGAAACAAAAC
14013548 AACAATAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.55, C:0.25, G:0.17, T:0.03
Consensus pattern (20 bp):
GCAGCAAACAGAAACAAAAC
Found at i:14015989 original size:63 final size:63
Alignment explanation
Indices: 14015911--14016037 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
14015901 TCCCAACCCC
*
14015911 TATATCATATTCTATTATAAGGCAAACTATACCCGAGGTCCCTAATTTTTATTAAATTTATGT
1 TATATCATATTCTATTATAAGGCAAACTATACCCAAGGTCCCTAATTTTTATTAAATTTATGT
14015974 TATATCATATTCTATTATAAGGCAAACTATACCCAAGGTCCCTAATTTTTATTAAATTTATGT
1 TATATCATATTCTATTATAAGGCAAACTATACCCAAGGTCCCTAATTTTTATTAAATTTATGT
14016037 T
1 T
14016038 CTAGTCATTC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.42
Consensus pattern (63 bp):
TATATCATATTCTATTATAAGGCAAACTATACCCAAGGTCCCTAATTTTTATTAAATTTATGT
Found at i:14016515 original size:5 final size:5
Alignment explanation
Indices: 14016505--14016564 Score: 111
Period size: 5 Copynumber: 12.0 Consensus size: 5
14016495 TAGTTAACCC
14016505 TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT
1 TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT
*
14016555 TGTGT TGTAT
1 TGTAT TGTAT
14016565 GGTTTGACTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 53 1.00
ACGTcount: A:0.18, C:0.00, G:0.22, T:0.60
Consensus pattern (5 bp):
TGTAT
Found at i:14017078 original size:14 final size:12
Alignment explanation
Indices: 14017047--14017084 Score: 51
Period size: 11 Copynumber: 3.1 Consensus size: 12
14017037 TCTATTTTAT
14017047 GTCTCAAGACAA
1 GTCTCAAGACAA
14017059 -TCTCAAGACTAAA
1 GTCTCAAGAC--AA
14017072 GTCTCAAGACAA
1 GTCTCAAGACAA
14017084 G
1 G
14017085 CCTCCTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
11 9 0.39
12 3 0.13
13 2 0.09
14 9 0.39
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (12 bp):
GTCTCAAGACAA
Found at i:14019932 original size:15 final size:15
Alignment explanation
Indices: 14019898--14019940 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
14019888 AATTGGATTG
14019898 ATTT-AATTTAAATA
1 ATTTAAATTTAAATA
*
14019912 ATTTTAAATTTTAATA
1 A-TTTAAATTTAAATA
14019928 ATTTAAATTTAAA
1 ATTTAAATTTAAA
14019941 CTTGCTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 14 0.56
16 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTTAAATTTAAATA
Found at i:14029168 original size:20 final size:19
Alignment explanation
Indices: 14029127--14029168 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
14029117 TTAATTAAAT
*
14029127 AAATTATTAAAAATACATA
1 AAATTATTAAAAATACAAA
*
14029146 AAATTATTTAAAAATAGAAA
1 AAATTA-TTAAAAATACAAA
14029166 AAA
1 AAA
14029169 CCAACTATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AAATTATTAAAAATACAAA
Found at i:14030612 original size:16 final size:17
Alignment explanation
Indices: 14030576--14030617 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
14030566 CAATAATATG
*
14030576 TTTAATATTATTTAAAA
1 TTTATTATTATTTAAAA
14030593 -TTATTATT-TTTAAAA
1 TTTATTATTATTTAAAA
14030608 TTTATTATTA
1 TTTATTATTA
14030618 AAATAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTATTATTATTTAAAA
Found at i:14031950 original size:40 final size:40
Alignment explanation
Indices: 14031914--14031992 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 40
14031904 CACTAAAGAT
*
14031914 TGAGCATTAGTGGCGTTTTT-AAAAAAATGCCGCTAAAAA
1 TGAGCATTAGCGGCGTTTTTCAAAAAAATGCCGCTAAAAA
* *
14031953 TGAGCATTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
1 TGAGCATTAGCGGCGTTTTTCAAAAAAATGCCGCTAAAAA
14031993 CCTTAGCCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 19 0.53
40 17 0.47
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (40 bp):
TGAGCATTAGCGGCGTTTTTCAAAAAAATGCCGCTAAAAA
Found at i:14031968 original size:39 final size:39
Alignment explanation
Indices: 14031839--14031992 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 39
14031829 AGCGGCACTT
** * *
14031839 TTAGCGGCGTTTGGACAAAAAACGCCGGTAAAAATCAAGCA
1 TTAGCGGCGTTTTTA-AAAAAACGCCGCTAAAAAT-GAGCA
* ** * * *
14031880 TTAGCGGCGCTTTCT-GGAAATCGCCACTAAAGATTGAGCA
1 TTAGCGGCG-TTTTTAAAAAAACGCCGCTAAA-AATGAGCA
* *
14031920 TTAGTGGCGTTTTTAAAAAAATGCCGCTAAAAATGAGCA
1 TTAGCGGCGTTTTTAAAAAAACGCCGCTAAAAATGAGCA
*
14031959 TTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
1 TTAGCGGCGTTTTT-AAAAAAACGCCGCTAAAAA
14031993 CCTTAGCCCA
Statistics
Matches: 89, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
39 24 0.27
40 51 0.57
41 11 0.12
42 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (39 bp):
TTAGCGGCGTTTTTAAAAAAACGCCGCTAAAAATGAGCA
Found at i:14032093 original size:41 final size:40
Alignment explanation
Indices: 14032028--14032143 Score: 144
Period size: 41 Copynumber: 2.8 Consensus size: 40
14032018 AACATTTCGT
*
14032028 GGCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCCT-GG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATG-CTAGG
* * *
14032069 GTCTTTAGCGGCGTTTTTGGAAAAGCGCCGTTAATGGTAGG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTAGG
*
14032110 GGCTTTAGCCGCGTTTTTGATAAAGCGCCGCTAA
1 GGCTTTAGCGGCGTTTTTGA-AAAGCGCCGCTAA
14032144 AAACATTTTA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
40 3 0.05
41 62 0.95
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (40 bp):
GGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTAGG
Found at i:14032386 original size:22 final size:22
Alignment explanation
Indices: 14032361--14032435 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
14032351 GAGTTACTGT
14032361 TTTAAGGTTTATGGAGTATGGA
1 TTTAAGGTTTATGGAGTATGGA
* * *
14032383 TTTAAGGATTATGGATTAGGGA
1 TTTAAGGTTTATGGAGTATGGA
* *
14032405 -TTATGGTTTAAGG-GT-TGAGA
1 TTTAAGGTTTATGGAGTATG-GA
14032425 TTTAAGGTTTA
1 TTTAAGGTTTA
14032436 GGGGTTAGTG
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 19 0.45
22 19 0.45
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (22 bp):
TTTAAGGTTTATGGAGTATGGA
Found at i:14032407 original size:14 final size:15
Alignment explanation
Indices: 14032377--14032417 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
14032367 GTTTATGGAG
14032377 TATGGATTTAAGGAT
1 TATGGATTTAAGGAT
*
14032392 TATGGA-TTAGGGAT
1 TATGGATTTAAGGAT
14032406 TATGG-TTTAAGG
1 TATGGATTTAAGG
14032418 GTTGAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
TATGGATTTAAGGAT
Found at i:14032456 original size:22 final size:22
Alignment explanation
Indices: 14032430--14032492 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
14032420 TGAGATTTAA
*
14032430 GGTTTAGGGGTT-AGTGGTTAGG
1 GGTTTAGGGGTTAAG-AGTTAGG
14032452 GGTTTAGGGGTTAAGAGTTAGG
1 GGTTTAGGGGTTAAGAGTTAGG
* * *
14032474 GATTTAGGGTTTATGAGTT
1 GGTTTAGGGGTTAAGAGTT
14032493 CATGGGTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 34 0.94
23 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.38
Consensus pattern (22 bp):
GGTTTAGGGGTTAAGAGTTAGG
Found at i:14032544 original size:12 final size:12
Alignment explanation
Indices: 14032523--14032565 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
14032513 TGGGTTTAGA
14032523 TTAA-TTATTTT
1 TTAATTTATTTT
14032534 TTAATTTATTTT
1 TTAATTTATTTT
* *
14032546 TAAATAT-TTTT
1 TTAATTTATTTT
14032557 TTAATTTAT
1 TTAATTTAT
14032566 ATATTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 13 0.50
12 13 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTAATTTATTTT
Found at i:14032560 original size:23 final size:24
Alignment explanation
Indices: 14032522--14032575 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
14032512 TTGGGTTTAG
*
14032522 ATTAATTA-TTTTTTAATTTAT-T
1 ATTAAATATTTTTTTAATTTATAT
*
14032544 TTTAAATATTTTTTTAATTTATAT
1 ATTAAATATTTTTTTAATTTATAT
14032568 ATTAAATA
1 ATTAAATA
14032576 ATTTCATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 6 0.22
23 13 0.48
24 8 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTAAATATTTTTTTAATTTATAT
Found at i:14032797 original size:21 final size:21
Alignment explanation
Indices: 14032773--14032813 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
14032763 GATTTAAGGT
14032773 TTAGGGATTAAGAGTTAGGGG
1 TTAGGGATTAAGAGTTAGGGG
*
14032794 TTAGGGGTTAAGAGTTAGGG
1 TTAGGGATTAAGAGTTAGGG
14032814 ATTTAGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.44, T:0.29
Consensus pattern (21 bp):
TTAGGGATTAAGAGTTAGGGG
Found at i:14032822 original size:21 final size:20
Alignment explanation
Indices: 14032770--14032823 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
14032760 TAGGATTTAA
14032770 GGTTTAGGGATTAAGAGTTAG
1 GGTTTAGGG-TTAAGAGTTAG
*
14032791 GGGTTAGGGGTTAAGAGTTAG
1 GGTTTA-GGGTTAAGAGTTAG
14032812 GGATTTAGGGTT
1 GG-TTTAGGGTT
14032824 TCAAGGGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (20 bp):
GGTTTAGGGTTAAGAGTTAG
Found at i:14034348 original size:40 final size:40
Alignment explanation
Indices: 14034312--14034390 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 40
14034302 CACTAAAGAT
*
14034312 TGAGCATTAGTGGCGTTTTT-AAAAAAATGCCGCTAAAAA
1 TGAGCATTAGCGGCGTTTTTCAAAAAAATGCCGCTAAAAA
* *
14034351 TGAGCATTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
1 TGAGCATTAGCGGCGTTTTTCAAAAAAATGCCGCTAAAAA
14034391 CCTTAGCCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 19 0.53
40 17 0.47
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (40 bp):
TGAGCATTAGCGGCGTTTTTCAAAAAAATGCCGCTAAAAA
Found at i:14034366 original size:39 final size:39
Alignment explanation
Indices: 14034237--14034390 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 39
14034227 AGCGGCACTT
** * *
14034237 TTAGCGGCGTTTGGACAAAAAACGCCGGTAAAAATCAAGCA
1 TTAGCGGCGTTTTTA-AAAAAACGCCGCTAAAAAT-GAGCA
* ** * * *
14034278 TTAGCGGCGCTTTCT-GGAAATCGCCACTAAAGATTGAGCA
1 TTAGCGGCG-TTTTTAAAAAAACGCCGCTAAA-AATGAGCA
* *
14034318 TTAGTGGCGTTTTTAAAAAAATGCCGCTAAAAATGAGCA
1 TTAGCGGCGTTTTTAAAAAAACGCCGCTAAAAATGAGCA
*
14034357 TTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
1 TTAGCGGCGTTTTT-AAAAAAACGCCGCTAAAAA
14034391 CCTTAGCCCA
Statistics
Matches: 89, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
39 24 0.27
40 51 0.57
41 11 0.12
42 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (39 bp):
TTAGCGGCGTTTTTAAAAAAACGCCGCTAAAAATGAGCA
Found at i:14034491 original size:41 final size:40
Alignment explanation
Indices: 14034426--14034541 Score: 162
Period size: 41 Copynumber: 2.8 Consensus size: 40
14034416 AACATTTCGT
*
14034426 GGCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCCT-GG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATG-CTAGG
* *
14034467 GTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGGTAGG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTAGG
14034508 GGCTTTAGCGGCGTTTTTGATAAAGCGCCGCTAA
1 GGCTTTAGCGGCGTTTTTGA-AAAGCGCCGCTAA
14034542 AAACATTTTA
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
40 3 0.04
41 65 0.96
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (40 bp):
GGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTAGG
Found at i:14034783 original size:22 final size:22
Alignment explanation
Indices: 14034758--14034832 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
14034748 GAGTTACTGT
14034758 TTTAAGGTTTATGGAGTATGGA
1 TTTAAGGTTTATGGAGTATGGA
* * *
14034780 TTTAAGGATTATGGATTAGGGA
1 TTTAAGGTTTATGGAGTATGGA
* *
14034802 -TTATGGTTTAAGG-GT-TGAGA
1 TTTAAGGTTTATGGAGTATG-GA
14034822 TTTAAGGTTTA
1 TTTAAGGTTTA
14034833 GGGGTTAGTG
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 19 0.45
22 19 0.45
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (22 bp):
TTTAAGGTTTATGGAGTATGGA
Found at i:14034804 original size:14 final size:15
Alignment explanation
Indices: 14034774--14034814 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
14034764 GTTTATGGAG
14034774 TATGGATTTAAGGAT
1 TATGGATTTAAGGAT
*
14034789 TATGGA-TTAGGGAT
1 TATGGATTTAAGGAT
14034803 TATGG-TTTAAGG
1 TATGGATTTAAGG
14034815 GTTGAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
TATGGATTTAAGGAT
Found at i:14034853 original size:22 final size:22
Alignment explanation
Indices: 14034827--14034889 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
14034817 TGAGATTTAA
*
14034827 GGTTTAGGGGTT-AGTGGTTAGG
1 GGTTTAGGGGTTAAG-AGTTAGG
14034849 GGTTTAGGGGTTAAGAGTTAGG
1 GGTTTAGGGGTTAAGAGTTAGG
* * *
14034871 GATTTAGGGTTTATGAGTT
1 GGTTTAGGGGTTAAGAGTT
14034890 CATGGGTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 34 0.94
23 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.38
Consensus pattern (22 bp):
GGTTTAGGGGTTAAGAGTTAGG
Found at i:14034941 original size:12 final size:12
Alignment explanation
Indices: 14034920--14034962 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
14034910 TGGGTTTAGA
14034920 TTAA-TTATTTT
1 TTAATTTATTTT
14034931 TTAATTTATTTT
1 TTAATTTATTTT
* *
14034943 TAAATAT-TTTT
1 TTAATTTATTTT
14034954 TTAATTTAT
1 TTAATTTAT
14034963 ATATTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 13 0.50
12 13 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTAATTTATTTT
Found at i:14034957 original size:23 final size:24
Alignment explanation
Indices: 14034919--14034972 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
14034909 TTGGGTTTAG
*
14034919 ATTAATTA-TTTTTTAATTTAT-T
1 ATTAAATATTTTTTTAATTTATAT
*
14034941 TTTAAATATTTTTTTAATTTATAT
1 ATTAAATATTTTTTTAATTTATAT
14034965 ATTAAATA
1 ATTAAATA
14034973 ATTTCATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 6 0.22
23 13 0.48
24 8 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTAAATATTTTTTTAATTTATAT
Found at i:14035189 original size:14 final size:14
Alignment explanation
Indices: 14035149--14035201 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
14035139 GGATTATAGT
*
14035149 TTAAGTGTTA-GGA
1 TTAAGAGTTAGGGA
14035162 TTTAAG-GTTTAGGGA
1 -TTAAGAG-TTAGGGA
*
14035177 TTAAGAGTTAGGGG
1 TTAAGAGTTAGGGA
14035191 TTAAGAGTTAG
1 TTAAGAGTTAG
14035202 CAGTTAGGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
13 1 0.03
14 30 0.86
15 4 0.11
ACGTcount: A:0.30, C:0.00, G:0.34, T:0.36
Consensus pattern (14 bp):
TTAAGAGTTAGGGA
Found at i:14039543 original size:42 final size:43
Alignment explanation
Indices: 14039425--14039669 Score: 260
Period size: 43 Copynumber: 5.7 Consensus size: 43
14039415 ATGGCACTTT
* ** * * * *
14039425 TAGCGGCGTTTGCGAAAAAAACGTCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* * *** *
14039468 TAGCGGTGTTTATAAAAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* * *
14039511 TAGCGGTGTTTGT-GTAAAAGTGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* ** *
14039553 T-GCGGCGTTTGTGGGAAAAGTGTTGCTAAAGGTTCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* * *
14039595 TAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
*
14039638 TAGCGGCGTTTATGGGAAAAGCGCCGCTAAAG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
14039670 TTAGCGATGC
Statistics
Matches: 173, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
41 10 0.06
42 52 0.30
43 111 0.64
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
Found at i:14039592 original size:84 final size:86
Alignment explanation
Indices: 14039425--14039658 Score: 249
Period size: 85 Copynumber: 2.7 Consensus size: 86
14039415 ATGGCACTTT
* ** * * * * * *** *
14039425 TAGCGGCGTTTGCGAAAAAAACGTCGCTAAAAGTCATGATCTATAGCGGTGTTTATAAAAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTATGGGAAAAGT
**
14039490 GCCGCTAAAGGTCTTGATCTA
66 GTTGCTAAAGGTCTTGATCTA
* * * *
14039511 TAGCGGTGTTTGT-GTAAAAGTGCCGCTAAAGGTCCTGATCTAT-GCGGCGTTTGTGGGAAAAGT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTATGGGAAAAGT
14039574 GTTGCTAAAGGT-TCTGATCTA
66 GTTGCTAAAGGTCT-TGATCTA
* * *
14039595 TAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCCTGGTCTTTAGCGGCGTTTATGGGAAAAG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTATGGGAAAAG
14039659 CGCCGCTAAA
Statistics
Matches: 121, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
83 1 0.01
84 43 0.36
85 48 0.40
86 29 0.24
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (86 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTATGGGAAAAGT
GTTGCTAAAGGTCTTGATCTA
Found at i:14039769 original size:22 final size:22
Alignment explanation
Indices: 14039741--14039783 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
14039731 CAGCGGCGCT
* *
14039741 AAAAAGCGCCGTTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
14039763 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
14039784 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:14041265 original size:23 final size:23
Alignment explanation
Indices: 14041239--14041287 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
14041229 AAATTCTAAA
*
14041239 TTAAAGCAAATAATAATAATTAT
1 TTAAAGAAAATAATAATAATTAT
* *
14041262 TTAAAGAAAATTATAATATTTAT
1 TTAAAGAAAATAATAATAATTAT
14041285 TTA
1 TTA
14041288 CTTTACATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (23 bp):
TTAAAGAAAATAATAATAATTAT
Found at i:14043820 original size:8 final size:8
Alignment explanation
Indices: 14043807--14043831 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14043797 ACCCTAATAA
14043807 TATAAATT
1 TATAAATT
14043815 TATAAATT
1 TATAAATT
14043823 TATAAATT
1 TATAAATT
14043831 T
1 T
14043832 CCGATCACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TATAAATT
Found at i:14043930 original size:22 final size:21
Alignment explanation
Indices: 14043889--14043930 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
14043879 TGATCAATTT
*
14043889 TAAATTTTTATTATATAAATA
1 TAAATTTTTATTATAAAAATA
14043910 TAAATATTTTA-TATGAAAAAT
1 TAAAT-TTTTATTAT-AAAAAT
14043931 TGTTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TAAATTTTTATTATAAAAATA
Found at i:14045689 original size:36 final size:36
Alignment explanation
Indices: 14045642--14045714 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
14045632 CGGTTACTGA
14045642 TAACGTTGTTAATTGATTCTTTGCCTTGGATATCAT
1 TAACGTTGTTAATTGATTCTTTGCCTTGGATATCAT
14045678 TAACGTTGTTAATTGATTCTTTGCCTTGGATATCAT
1 TAACGTTGTTAATTGATTCTTTGCCTTGGATATCAT
14045714 T
1 T
14045715 CTTACCTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.14, G:0.16, T:0.48
Consensus pattern (36 bp):
TAACGTTGTTAATTGATTCTTTGCCTTGGATATCAT
Found at i:14060109 original size:24 final size:24
Alignment explanation
Indices: 14060082--14060133 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
14060072 TTAGTAAGTC
*
14060082 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
14060106 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
14060130 AAAT
1 AAAT
14060134 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:14071836 original size:20 final size:21
Alignment explanation
Indices: 14071792--14071843 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
14071782 TCTAAACACT
* *
14071792 TGTGTTTAGACATGTAACATA
1 TGTGTTGAGATATGTAACATA
*
14071813 TGTGTTGAGATATGTAA-TTA
1 TGTGTTGAGATATGTAACATA
14071833 TGTGTTGAGAT
1 TGTGTTGAGAT
14071844 TCCGACCCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.29, C:0.04, G:0.25, T:0.42
Consensus pattern (21 bp):
TGTGTTGAGATATGTAACATA
Found at i:14072571 original size:2 final size:2
Alignment explanation
Indices: 14072566--14072600 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
14072556 ATATATATAA
*
14072566 AC AC AC AC GC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
14072601 TATATATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.49, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:14073089 original size:19 final size:19
Alignment explanation
Indices: 14073065--14073127 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
14073055 AAAGTTTTGA
14073065 AATTTTTTAATTAAACTTT
1 AATTTTTTAATTAAACTTT
** *
14073084 AA-TTTTTAAAAAAATTATT
1 AATTTTTTAATTAAACT-TT
*
14073103 AAATTTTTAATTAAACTTT
1 AATTTTTTAATTAAACTTT
14073122 AATTTT
1 AATTTT
14073128 AAAAAAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
18 11 0.31
19 13 0.37
20 11 0.31
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
AATTTTTTAATTAAACTTT
Found at i:14073128 original size:37 final size:39
Alignment explanation
Indices: 14073068--14073142 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 39
14073058 GTTTTGAAAT
14073068 TTTTTAATTAAACTTTAATTTTTAAAAAAA-TTATTAAA
1 TTTTTAATTAAACTTTAATTTTTAAAAAAATTTATTAAA
14073106 TTTTTAATTAAACTTTAA-TTTTAAAAAAATTTATTAA
1 TTTTTAATTAAACTTTAATTTTTAAAAAAATTTATTAA
14073143 GTCCCACTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 11 0.31
38 25 0.69
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (39 bp):
TTTTTAATTAAACTTTAATTTTTAAAAAAATTTATTAAA
Found at i:14080692 original size:4 final size:4
Alignment explanation
Indices: 14080683--14080710 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
14080673 GGGGTTCCAC
14080683 CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA
14080711 TATATATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:14081499 original size:20 final size:20
Alignment explanation
Indices: 14081474--14081511 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14081464 TACAACAAAC
14081474 AATAAATCAAAT-ATATATGA
1 AATAAAT-AAATAATATATGA
14081494 AATAAATAAATAATATAT
1 AATAAATAAATAATATAT
14081512 AGCAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (20 bp):
AATAAATAAATAATATATGA
Found at i:14083555 original size:32 final size:32
Alignment explanation
Indices: 14083516--14083578 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
14083506 AACCTTTTTA
14083516 AAAAACAGTTAAAGAAAAAAAAGGTCTCGCTT
1 AAAAACAGTTAAAGAAAAAAAAGGTCTCGCTT
*
14083548 AAAAACAGTTAAAGAAAAGAAAGGTCTCGCT
1 AAAAACAGTTAAAGAAAAAAAAGGTCTCGCT
14083579 GTACTTACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.52, C:0.13, G:0.17, T:0.17
Consensus pattern (32 bp):
AAAAACAGTTAAAGAAAAAAAAGGTCTCGCTT
Found at i:14086469 original size:24 final size:24
Alignment explanation
Indices: 14086416--14086470 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
14086406 AACTCTAAAT
* **
14086416 AAAATAAACATAAACAAATAAGTA
1 AAAATAAACATAAAAAAATAAACA
*
14086440 ATAAT-AACAATAAAAAAATAAACA
1 AAAATAAAC-ATAAAAAAATAAACA
14086464 AAAATAA
1 AAAATAA
14086471 TAAAGTGGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 3 0.12
24 20 0.83
25 1 0.04
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (24 bp):
AAAATAAACATAAAAAAATAAACA
Found at i:14088219 original size:46 final size:44
Alignment explanation
Indices: 14088165--14088585 Score: 330
Period size: 46 Copynumber: 9.6 Consensus size: 44
14088155 TTTTAATCCG
* *
14088165 CTCCACTGTAACCTCAGGGGGATAAGATCTGCAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG--ATTCTTCGATCTA
* * *
14088211 CTCCACTGTAACCTCAGAGAGATAAGACCTGA---TGCGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGATTCTTCGATCTA
* * * * * **
14088252 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATT-TT-AATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-C-TGATTCTTCGATCTA
* * *
14088296 CTCCACTGTAACTTCAGGGAGATAGGAT-T-ATATCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAT-TCTTCGATCTA
* *
14088339 CTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG--ATTCTTCGATCTA
* * *
14088385 CTCCGCTGTAACCTCAGGGAGATAAGACCTGA---TGCGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGATTCTTCGATCTA
* * * * * **
14088426 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATT-TT-AATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-C-TGATTCTTCGATCTA
* * *
14088470 CTCCACTGTAACTTCAGGGAGATAGGAT-TG-TATCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAT-TCTTCGATCTA
* *
14088513 CTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG--ATTCTTCGATCTA
* *
14088559 TTCCACTGTAATCTCAGGGAGATAAGA
1 CTCCACTGTAACCTCAGGGAGATAAGA
14088586 CCTGTATAAT
Statistics
Matches: 303, Mismatches: 50, Indels: 44
0.76 0.13 0.11
Matches are distributed among these distances:
40 3 0.01
41 66 0.22
42 6 0.02
43 62 0.20
44 61 0.20
45 2 0.01
46 100 0.33
47 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCTGATTCTTCGATCTA
Found at i:14088233 original size:131 final size:128
Alignment explanation
Indices: 14088078--14088365 Score: 418
Period size: 131 Copynumber: 2.2 Consensus size: 128
14088068 GGCTTCAATG
* *
14088078 TACTCCACTGTAACCACAGGGAGATAA-ATCCTGATGCGATCTACTCTACTATAATTTCAGAGAG
1 TACTCCACTGTAACCTCAGGGAGATAAGA-CCTGATGCGATCTACTCTACTATAACTTCAGAGAG
* *
14088142 ATAAGATCCTTTGTTTTAATCCGCTCCACTGTAACCTCAGGGGGATAAGATCTGCA-ATTCTTCG
65 ATAAGATCCTTTATTTTAATCCGCTCCACTGTAACCTCAGGGAGATAAGAT-T--ATA-TCTTCG
*
14088206 GTC
126 ATC
* *
14088209 TACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGA
1 TACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTATAACTTCAGAGAGA
* *
14088274 TAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATC
66 TAAGATCCTTTATTTTAATCCGCTCCACTGTAACCTCAGGGAGATAAGATTATATCTTCGATC
* *
14088337 TGCTCCGCTGTAACCTCAGGGAGATAAGA
1 TACTCCACTGTAACCTCAGGGAGATAAGA
14088366 TCTGCAATTC
Statistics
Matches: 143, Mismatches: 12, Indels: 7
0.88 0.07 0.04
Matches are distributed among these distances:
128 35 0.24
129 1 0.01
130 1 0.01
131 105 0.73
132 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (128 bp):
TACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTATAACTTCAGAGAGA
TAAGATCCTTTATTTTAATCCGCTCCACTGTAACCTCAGGGAGATAAGATTATATCTTCGATC
Found at i:14088318 original size:85 final size:85
Alignment explanation
Indices: 14088211--14088493 Score: 327
Period size: 87 Copynumber: 3.3 Consensus size: 85
14088201 CTTCGGTCTA
*
14088211 CTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
1 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
14088276 AGATCCTTTATTTTAATCCG
66 AGATCCTTTATTTTAATCCG
* * * * * * ** * *
14088296 CTCCACTGTAACTTCAGGGAGATAGGA-TTATATCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
1 CTCCACTGTAACCTCAGGGAGATAAGACCT-GA--TGCGATCTACTCTACTGTAACTTCAGAGAG
** ** **
14088360 ATAAGAT-CTGCAATTCTTCGGTCTA
63 ATAAGATCCT-TTATT-TT-AATCCG
*
14088385 CTCCGCTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
1 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
14088450 AGATCCTTTATTTTAATCCG
66 AGATCCTTTATTTTAATCCG
*
14088470 CTCCACTGTAACTTCAGGGAGATA
1 CTCCACTGTAACCTCAGGGAGATA
14088494 GGATTGTATC
Statistics
Matches: 154, Mismatches: 36, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
84 1 0.01
85 49 0.32
86 4 0.03
87 68 0.44
88 4 0.03
89 27 0.18
90 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (85 bp):
CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
AGATCCTTTATTTTAATCCG
Found at i:14088336 original size:87 final size:86
Alignment explanation
Indices: 14088245--14088541 Score: 321
Period size: 87 Copynumber: 3.4 Consensus size: 86
14088235 AGACCTGATG
* *
14088245 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
1 CGATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
14088310 CAGGGAGATAGGATTATATCTT
66 CAGGGAGATAGGATT-TATCTT
* * * ** ** ** *
14088332 CGATCTGCTCCGCTGTAACCTCAGGGAGATAAGAT-CTGCAATTCTTCGGTCTACTCCGCTGTAA
1 CGATCTACTCCACTGTAACCTCAGAGAGATAAGATCCT-TTATT-TT-AATCCGCTCCACTGTAA
* * * * *
14088396 CCTCAGGGAGATAAGACCTGA--TG
63 CTTCAGGGAGATAGGA-TTTATCTT
* *
14088419 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
1 CGATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
14088484 CAGGGAGATAGGATTGTATCTT
66 CAGGGAGATAGGATT-TATCTT
* * *
14088506 CGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATC
1 CGATCTACTCCACTGTAACCTCAGAGAGATAAGATC
14088542 TGCAATTCTT
Statistics
Matches: 163, Mismatches: 39, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
84 1 0.01
85 27 0.17
86 4 0.02
87 99 0.61
88 4 0.02
89 27 0.17
90 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (86 bp):
CGATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
CAGGGAGATAGGATTTATCTT
Found at i:14088377 original size:174 final size:174
Alignment explanation
Indices: 14088164--14088589 Score: 789
Period size: 174 Copynumber: 2.4 Consensus size: 174
14088154 GTTTTAATCC
* * *
14088164 GCTCCACTGTAACCTCAGGGGGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGA
1 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGG
14088229 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATC
66 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATC
14088294 CGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
131 CGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
*
14088338 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCGCTGTAACCTCAGG
1 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGG
14088403 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATC
66 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATC
*
14088468 CGCTCCACTGTAACTTCAGGGAGATAGGATTGTATCTTCGATCT
131 CGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
* *
14088512 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTATTCCACTGTAATCTCAGG
1 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGG
14088577 GAGATAAGACCTG
66 GAGATAAGACCTG
14088590 TATAATAAAC
Statistics
Matches: 244, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 244 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (174 bp):
GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGG
GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATC
CGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
Found at i:14089865 original size:31 final size:31
Alignment explanation
Indices: 14089829--14089891 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
14089819 ATTTTTTTTA
14089829 TTTTAGGAAGCAAAGCGCCCTTTACGGGTTT
1 TTTTAGGAAGCAAAGCGCCCTTTACGGGTTT
*
14089860 TTTTAGGAAGTAAAGCGCCCTTTACGGGTTT
1 TTTTAGGAAGCAAAGCGCCCTTTACGGGTTT
14089891 T
1 T
14089892 CACTTTGGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (31 bp):
TTTTAGGAAGCAAAGCGCCCTTTACGGGTTT
Found at i:14093483 original size:1 final size:1
Alignment explanation
Indices: 14093479--14093525 Score: 85
Period size: 1 Copynumber: 47.0 Consensus size: 1
14093469 TGAAAAATAT
*
14093479 AAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14093526 GACTGATCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.98, C:0.00, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:14097742 original size:48 final size:48
Alignment explanation
Indices: 14097682--14097777 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
14097672 AGGCGACTTC
14097682 TCGAGCTCGAGTATCCTGAAATTTCTTTTCCCATTGATTAGCTCTCGT
1 TCGAGCTCGAGTATCCTGAAATTTCTTTTCCCATTGATTAGCTCTCGT
* *
14097730 TCGAGC-CTGAGTATCCTGGAATTTCTTTTCCCATTGATTAGCTTTCGT
1 TCGAGCTC-GAGTATCCTGAAATTTCTTTTCCCATTGATTAGCTCTCGT
14097778 CTTTTCCTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 1 0.02
48 44 0.98
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.41
Consensus pattern (48 bp):
TCGAGCTCGAGTATCCTGAAATTTCTTTTCCCATTGATTAGCTCTCGT
Found at i:14100518 original size:58 final size:58
Alignment explanation
Indices: 14100428--14100542 Score: 221
Period size: 58 Copynumber: 2.0 Consensus size: 58
14100418 ATGAATGCCA
14100428 GAATTTTACTTATTTAAAAGATATTTTATTATCTCGAGTTTAGAAATAAATCAGGCCC
1 GAATTTTACTTATTTAAAAGATATTTTATTATCTCGAGTTTAGAAATAAATCAGGCCC
*
14100486 GAATTTTACTTATTTAAAAGATATTTTATTATCTCGGGTTTAGAAATAAATCAGGCC
1 GAATTTTACTTATTTAAAAGATATTTTATTATCTCGAGTTTAGAAATAAATCAGGCC
14100543 TAGTAAGTTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (58 bp):
GAATTTTACTTATTTAAAAGATATTTTATTATCTCGAGTTTAGAAATAAATCAGGCCC
Found at i:14105538 original size:73 final size:74
Alignment explanation
Indices: 14105413--14105560 Score: 235
Period size: 73 Copynumber: 2.0 Consensus size: 74
14105403 AAAGAATGGA
* *
14105413 AAAGGAAGGTGAGTGCAGGCCACATAAAAATGGGTGTTACAAAGAAGCAAACGCAGAGCAGATGA
1 AAAGCAAGGTGAGTGAAGGCCACATAAAAATGGGTGTTACAAAGAAGCAAACGCAGAGCAGATGA
14105478 GAGAAACAT
66 GAGAAACAT
* * * *
14105487 AAAGCAAGGTGCGTGAAGGCCACGTAGAAAT-GGTGTTACAATGAAGCAAACGCAGAGCAGATGA
1 AAAGCAAGGTGAGTGAAGGCCACATAAAAATGGGTGTTACAAAGAAGCAAACGCAGAGCAGATGA
14105551 GAGAAACAT
66 GAGAAACAT
14105560 A
1 A
14105561 TACGCTACTT
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
73 42 0.62
74 26 0.38
ACGTcount: A:0.43, C:0.14, G:0.30, T:0.13
Consensus pattern (74 bp):
AAAGCAAGGTGAGTGAAGGCCACATAAAAATGGGTGTTACAAAGAAGCAAACGCAGAGCAGATGA
GAGAAACAT
Found at i:14109189 original size:26 final size:26
Alignment explanation
Indices: 14109160--14109222 Score: 92
Period size: 26 Copynumber: 2.4 Consensus size: 26
14109150 AACGAATTTC
14109160 TCAAAATTTTATTAG-GGGTAAAATCA
1 TCAAAATTTTA-TAGAGGGTAAAATCA
**
14109186 TCAAAATTTTATAGAGGGTAAAATTG
1 TCAAAATTTTATAGAGGGTAAAATCA
14109212 TCAAAATTTTA
1 TCAAAATTTTA
14109223 CTCAAGTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 3 0.09
26 31 0.91
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (26 bp):
TCAAAATTTTATAGAGGGTAAAATCA
Found at i:14111527 original size:7 final size:7
Alignment explanation
Indices: 14111515--14111539 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14111505 ATGTCAATTG
14111515 TATTGTT
1 TATTGTT
14111522 TATTGTT
1 TATTGTT
14111529 TATTGTT
1 TATTGTT
14111536 TATT
1 TATT
14111540 TTTTTTTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (7 bp):
TATTGTT
Found at i:14112549 original size:18 final size:18
Alignment explanation
Indices: 14112506--14112549 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
14112496 ACTCAATCCA
* *
14112506 AACCCAAGTATCCAACCC
1 AACCCAATTACCCAACCC
14112524 AACCCAATTACCCAACCC
1 AACCCAATTACCCAACCC
14112542 AACCCAAT
1 AACCCAAT
14112550 CATAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.41, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
AACCCAATTACCCAACCC
Found at i:14112804 original size:25 final size:27
Alignment explanation
Indices: 14112776--14112830 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
14112766 CATTTCAATT
14112776 ATGTGTTAAT-TTC-AAGACTTATGTA
1 ATGTGTTAATATTCAAAGACTTATGTA
*
14112801 A--TGTTAGTGATTCAAAGACTTATGTA
1 ATGTGTTAAT-ATTCAAAGACTTATGTA
14112827 ATGT
1 ATGT
14112831 TTTTAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
23 6 0.25
25 4 0.17
26 13 0.54
28 1 0.04
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (27 bp):
ATGTGTTAATATTCAAAGACTTATGTA
Found at i:14112865 original size:9 final size:9
Alignment explanation
Indices: 14112851--14112881 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
14112841 GTAGTGATTC
14112851 AATTCGGTT
1 AATTCGGTT
*
14112860 AATTCGGGT
1 AATTCGGTT
14112869 AATTCGGTT
1 AATTCGGTT
14112878 AATT
1 AATT
14112882 TTTAACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:14127229 original size:23 final size:23
Alignment explanation
Indices: 14127202--14127255 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
14127192 AGAATAAATT
14127202 ATAAATAATAAT-TATAAAATTAA
1 ATAAATAATAATAT-TAAAATTAA
* * * *
14127225 GTAAAAAATTATATTAATATTAA
1 ATAAATAATAATATTAAAATTAA
14127248 ATAAATAA
1 ATAAATAA
14127256 AACCGTCCCC
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
ATAAATAATAATATTAAAATTAA
Found at i:14128716 original size:17 final size:14
Alignment explanation
Indices: 14128683--14128728 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
14128673 ATTTCAGATA
14128683 TTTGAATAAATATT
1 TTTGAATAAATATT
14128697 TTTGAACTAGAATCATT
1 TTTGAA-TA-AAT-ATT
14128714 TTT--ATAAATATT
1 TTTGAATAAATATT
14128726 TTT
1 TTT
14128729 TTAGGTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 6 0.21
13 3 0.10
14 8 0.28
15 3 0.10
16 3 0.10
17 6 0.21
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTGAATAAATATT
Found at i:14133544 original size:8 final size:7
Alignment explanation
Indices: 14133520--14133558 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
14133510 AAAGTATTTT
14133520 AAAATTA
1 AAAATTA
14133527 AAAATTA
1 AAAATTA
14133534 AAAATTA
1 AAAATTA
*
14133541 AAAAATA
1 AAAATTA
14133548 AAAA-TA
1 AAAATTA
14133554 AAAAT
1 AAAAT
14133559 ATATATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAATTA
Found at i:14142055 original size:19 final size:20
Alignment explanation
Indices: 14142012--14142056 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
14142002 ATCAAACAAG
14142012 ATAAAAACAAGATTAAACAT
1 ATAAAAACAAGATTAAACAT
*
14142032 A-AAAAACACGA-TAAA-AT
1 ATAAAAACAAGATTAAACAT
14142049 AATAAAAA
1 -ATAAAAA
14142057 TAAAAGAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 2 0.09
18 5 0.23
19 14 0.64
20 1 0.05
ACGTcount: A:0.71, C:0.09, G:0.04, T:0.16
Consensus pattern (20 bp):
ATAAAAACAAGATTAAACAT
Found at i:14147333 original size:24 final size:24
Alignment explanation
Indices: 14147305--14147368 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
14147295 TTTTTTCTTT
14147305 AATTTTTTAATATGTTTAAATT-TA
1 AATTTTTTAATAT-TTTAAATTCTA
*
14147329 AATTTTTCT-ATATTTTAATTTCTA
1 AATTTTT-TAATATTTTAAATTCTA
*
14147353 AGTTTTTTAATATTTT
1 AATTTTTTAATATTTT
14147369 TATAGCCTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 8 0.23
24 26 0.74
25 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (24 bp):
AATTTTTTAATATTTTAAATTCTA
Found at i:14153268 original size:16 final size:16
Alignment explanation
Indices: 14153247--14153278 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14153237 ATTACAGAAA
*
14153247 AAAATAAAAATAAAAT
1 AAAATAAAAAGAAAAT
14153263 AAAATAAAAAGAAAAT
1 AAAATAAAAAGAAAAT
14153279 CTCCCAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (16 bp):
AAAATAAAAAGAAAAT
Found at i:14155855 original size:11 final size:11
Alignment explanation
Indices: 14155839--14155864 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14155829 CGAACTCAGT
14155839 AGGTAGAAAAC
1 AGGTAGAAAAC
14155850 AGGTAGAAAAC
1 AGGTAGAAAAC
14155861 AGGT
1 AGGT
14155865 GGTTTGGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.31, T:0.12
Consensus pattern (11 bp):
AGGTAGAAAAC
Found at i:14156139 original size:6 final size:6
Alignment explanation
Indices: 14156128--14156155 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
14156118 TGGCTTTTTG
14156128 ATCCCT ATCCCT ATCCCT ATCCCT ATCC
1 ATCCCT ATCCCT ATCCCT ATCCCT ATCC
14156156 TATAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.50, G:0.00, T:0.32
Consensus pattern (6 bp):
ATCCCT
Found at i:14164870 original size:27 final size:26
Alignment explanation
Indices: 14164802--14164854 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
14164792 TTAAATACAT
* *
14164802 TTTAATAATTAATAAATTATTTATAAA
1 TTTAATGA-TAATAAAATATTTATAAA
14164829 TTTAATGATACATAAAATATTT-TAAA
1 TTTAATGATA-ATAAAATATTTATAAA
14164855 ATTTCAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
TTTAATGATAATAAAATATTTATAAA
Found at i:14166737 original size:30 final size:31
Alignment explanation
Indices: 14166703--14166767 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
14166693 AAATAAGTAT
14166703 ATATGTATGTACACTTATATTT-TACA-ATAC
1 ATATGTATGTAC-CTTATATTTGTACATATAC
* * *
14166733 ATATGTATTTTCCTTATTTTTGTACATATAC
1 ATATGTATGTACCTTATATTTGTACATATAC
14166764 ATAT
1 ATAT
14166768 TTTCTTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 8 0.27
30 14 0.47
31 8 0.27
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.49
Consensus pattern (31 bp):
ATATGTATGTACCTTATATTTGTACATATAC
Found at i:14169905 original size:670 final size:670
Alignment explanation
Indices: 14168625--14169965 Score: 2664
Period size: 670 Copynumber: 2.0 Consensus size: 670
14168615 GACAAAATTG
14168625 ACACCCAAAAATCTGCTCATTCTCTTCTCTATGCTGCAGAAATTTTCAAAAAGTCATGGCTAGGG
1 ACACCCAAAAATCTGCTCATTCTCTTCTCTATGCTGCAGAAATTTTCAAAAAGTCATGGCTAGGG
14168690 TTTCAAGCTTTTTCAAAGTTCAATTGTAAGTGCATTTGAGCCCCATTTTTAATGTTCTTCGTATT
66 TTTCAAGCTTTTTCAAAGTTCAATTGTAAGTGCATTTGAGCCCCATTTTTAATGTTCTTCGTATT
*
14168755 TTTGATATCCTAGAAGCTTAACCTTTCTATTTTTACCATTTATTTGCATGAAAAATGAAGTTTAA
131 TTTGAGATCCTAGAAGCTTAACCTTTCTATTTTTACCATTTATTTGCATGAAAAATGAAGTTTAA
14168820 AAATTGACCCATGCTAGATATTTGTGCATTTTGATGTTTAATGGTAGAATAAGAGTGCACGAGGT
196 AAATTGACCCATGCTAGATATTTGTGCATTTTGATGTTTAATGGTAGAATAAGAGTGCACGAGGT
14168885 TAGGAGAAAGATTTTTGCTAAGTGATTTTCGTTGAAAATAGTTAAAACAGGTTAATTAGTAAAAG
261 TAGGAGAAAGATTTTTGCTAAGTGATTTTCGTTGAAAATAGTTAAAACAGGTTAATTAGTAAAAG
14168950 TTGTAAATGGTCATAAAAGTGTGAAATAATAACAATTTGAGGTTGCTTTAGAAGAGAAAAAGGTT
326 TTGTAAATGGTCATAAAAGTGTGAAATAATAACAATTTGAGGTTGCTTTAGAAGAGAAAAAGGTT
14169015 TGGATAACCTTGAATGTTATGGAAATTGAATAAAAATCATATTACGAGCCTAGGGGTAAAATTGT
391 TGGATAACCTTGAATGTTATGGAAATTGAATAAAAATCATATTACGAGCCTAGGGGTAAAATTGT
14169080 AATTATGAGAAAGTTTAGGGGCAAAATTGTAAATTTTCCATAGTATAGTTTTTGTATTAAAATGA
456 AATTATGAGAAAGTTTAGGGGCAAAATTGTAAATTTTCCATAGTATAGTTTTTGTATTAAAATGA
14169145 GTAATGTGAGTGATAATTAAGTGAAATGTGACATTTTAGATAAAATAAATCGAGATTTGGACCAA
521 GTAATGTGAGTGATAATTAAGTGAAATGTGACATTTTAGATAAAATAAATCGAGATTTGGACCAA
14169210 GTATGGGGAAATATAAATCAAAATTATCGATTCGCGTTGAGGTAAGTTCATATGGTTAGTCTAAG
586 GTATGGGGAAATATAAATCAAAATTATCGATTCGCGTTGAGGTAAGTTCATATGGTTAGTCTAAG
14169275 TGATCGATTATTAAATTTGA
651 TGATCGATTATTAAATTTGA
14169295 ACACCCAAAAATCTGCTCATTCTCTTCTCTATGCTGCAGAAATTTTCAAAAAGTCATGGCTAGGG
1 ACACCCAAAAATCTGCTCATTCTCTTCTCTATGCTGCAGAAATTTTCAAAAAGTCATGGCTAGGG
14169360 TTTCAAGCTTTTTCAAAGTTCAATTGTAAGTGCATTTGAGCCCCATTTTTAATGTTCTTCGTATT
66 TTTCAAGCTTTTTCAAAGTTCAATTGTAAGTGCATTTGAGCCCCATTTTTAATGTTCTTCGTATT
14169425 TTTGAGATCCTAGAAGCTTAACCTTTCTATTTTTACCATTTATTTGCATGAAAAATGAAGTTTAA
131 TTTGAGATCCTAGAAGCTTAACCTTTCTATTTTTACCATTTATTTGCATGAAAAATGAAGTTTAA
14169490 AAATTGACCCATGCTAGATATTTGTGCATTTTGATGTTTAATGGTAGAATAAGAGTGCACGAGGT
196 AAATTGACCCATGCTAGATATTTGTGCATTTTGATGTTTAATGGTAGAATAAGAGTGCACGAGGT
14169555 TAGGAGAAAGATTTTTGCTAAGTGATTTTCGTTGAAAATAGTTAAAACAGGTTAATTAGTAAAAG
261 TAGGAGAAAGATTTTTGCTAAGTGATTTTCGTTGAAAATAGTTAAAACAGGTTAATTAGTAAAAG
14169620 TTGTAAATGGTCATAAAAGTGTGAAATAATAACAATTTGAGGTTGCTTTAGAAGAGAAAAAGGTT
326 TTGTAAATGGTCATAAAAGTGTGAAATAATAACAATTTGAGGTTGCTTTAGAAGAGAAAAAGGTT
14169685 TGGATAACCTTGAATGTTATGGAAATTGAATAAAAATCATATTACGAGCCTAGGGGTAAAATTGT
391 TGGATAACCTTGAATGTTATGGAAATTGAATAAAAATCATATTACGAGCCTAGGGGTAAAATTGT
14169750 AATTATGAGAAAGTTTAGGGGCAAAATTGTAAATTTTCCATAGTATAGTTTTTGTATTAAAATGA
456 AATTATGAGAAAGTTTAGGGGCAAAATTGTAAATTTTCCATAGTATAGTTTTTGTATTAAAATGA
14169815 GTAATGTGAGTGATAATTAAGTGAAATGTGACATTTTAGATAAAATAAATCGAGATTTGGACCAA
521 GTAATGTGAGTGATAATTAAGTGAAATGTGACATTTTAGATAAAATAAATCGAGATTTGGACCAA
14169880 GTATGGGGAAATATAAATCAAAATTATCGATTCGCGTTGAGGTAAGTTCATATGGTTAGTCTAAG
586 GTATGGGGAAATATAAATCAAAATTATCGATTCGCGTTGAGGTAAGTTCATATGGTTAGTCTAAG
*
14169945 TGATTGATTATTAAATTTGA
651 TGATCGATTATTAAATTTGA
14169965 A
1 A
14169966 TTGAGATGAT
Statistics
Matches: 669, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
670 669 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (670 bp):
ACACCCAAAAATCTGCTCATTCTCTTCTCTATGCTGCAGAAATTTTCAAAAAGTCATGGCTAGGG
TTTCAAGCTTTTTCAAAGTTCAATTGTAAGTGCATTTGAGCCCCATTTTTAATGTTCTTCGTATT
TTTGAGATCCTAGAAGCTTAACCTTTCTATTTTTACCATTTATTTGCATGAAAAATGAAGTTTAA
AAATTGACCCATGCTAGATATTTGTGCATTTTGATGTTTAATGGTAGAATAAGAGTGCACGAGGT
TAGGAGAAAGATTTTTGCTAAGTGATTTTCGTTGAAAATAGTTAAAACAGGTTAATTAGTAAAAG
TTGTAAATGGTCATAAAAGTGTGAAATAATAACAATTTGAGGTTGCTTTAGAAGAGAAAAAGGTT
TGGATAACCTTGAATGTTATGGAAATTGAATAAAAATCATATTACGAGCCTAGGGGTAAAATTGT
AATTATGAGAAAGTTTAGGGGCAAAATTGTAAATTTTCCATAGTATAGTTTTTGTATTAAAATGA
GTAATGTGAGTGATAATTAAGTGAAATGTGACATTTTAGATAAAATAAATCGAGATTTGGACCAA
GTATGGGGAAATATAAATCAAAATTATCGATTCGCGTTGAGGTAAGTTCATATGGTTAGTCTAAG
TGATCGATTATTAAATTTGA
Found at i:14170197 original size:50 final size:51
Alignment explanation
Indices: 14170137--14170272 Score: 188
Period size: 50 Copynumber: 2.7 Consensus size: 51
14170127 GCGAGTGTGC
* * *
14170137 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCGCAGACCGA-GA-AGTG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGAGAGTG
* *
14170186 CTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGACAGAGGAGAGT-
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGAGAGTG
*
14170237 CAGTGTAAGGCCATGTCTGGGACATGGCATCGGCAC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
14170273 CGATATGTGA
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
49 1 0.01
50 70 0.91
51 3 0.04
52 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.34, T:0.18
Consensus pattern (51 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGAGAGTG
Found at i:14170869 original size:45 final size:44
Alignment explanation
Indices: 14170708--14170880 Score: 168
Period size: 45 Copynumber: 3.8 Consensus size: 44
14170698 TATAGGTGGA
** * * ** *
14170708 TGCTATGTGCTGATCCCACCGGATATTAATGAAAATAAAGGTGAT
1 TGCTATGTGCTGATTTCACCGG-TACTATTGAGTATAAAAGTGAT
* * * *
14170753 TGCTATGTGCTGATTTCACCGGATGCCAATG-GTTATATAAGTGAT
1 TGCTATGTGCTGATTTCACCGG-TACTATTGAG-TATAAAAGTGAT
* *
14170798 TGCTATGTGCTGAATTCACCCGGTACTATTGAGTATAAAAGTGGT
1 TGCTATGTGCTGATTTCA-CCGGTACTATTGAGTATAAAAGTGAT
*
14170843 TGCTATGTGCTGATTTCACCGAGTACTATTGACTATAA
1 TGCTATGTGCTGATTTCACCG-GTACTATTGAGTATAA
14170881 GGGTGGTATT
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
44 3 0.03
45 99 0.93
46 5 0.05
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (44 bp):
TGCTATGTGCTGATTTCACCGGTACTATTGAGTATAAAAGTGAT
Found at i:14174464 original size:18 final size:19
Alignment explanation
Indices: 14174430--14174466 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
14174420 TGGTTGCTAA
14174430 AATTATAATATTATTAATC
1 AATTATAATATTATTAATC
14174449 AATTA-AATAGTT-TTAATC
1 AATTATAATA-TTATTAATC
14174467 TGATATGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (19 bp):
AATTATAATATTATTAATC
Found at i:14176262 original size:7 final size:7
Alignment explanation
Indices: 14176245--14176276 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
14176235 CGGGGGCGAT
14176245 TTTTTCA
1 TTTTTCA
14176252 -TTTTCA
1 TTTTTCA
14176258 TTTTT-A
1 TTTTTCA
14176264 TTTTTCA
1 TTTTTCA
14176271 TTTTTC
1 TTTTTC
14176277 TGTAAATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 12 0.52
7 11 0.48
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTCA
Found at i:14187254 original size:35 final size:35
Alignment explanation
Indices: 14187189--14187375 Score: 171
Period size: 35 Copynumber: 5.3 Consensus size: 35
14187179 AATCCAACCA
* * * *
14187189 AAACACACCAGATGCTTAGAAAAGCCAATCCATCTG
1 AAACACACCA-ATGCTCATAAGAGCTAATCCATCTG
* * * *
14187225 AAACATACCAATGCTAATAAGAGCTAATCCCT-TC
1 AAACACACCAATGCTCATAAGAGCTAATCCATCTG
* * * * *
14187259 AAA-ACACTTTAATGCTCGTAAGAGTTAATCCCTCCG
1 AAACACAC--CAATGCTCATAAGAGCTAATCCATCTG
* *
14187295 AAACACACCAATGCTCGTAAGAGCTAATCCAACTG
1 AAACACACCAATGCTCATAAGAGCTAATCCATCTG
* * *
14187330 AAACACACTAATGCTCATAAGAGCTAATCCAACCG
1 AAACACACCAATGCTCATAAGAGCTAATCCATCTG
14187365 AAACACACCAA
1 AAACACACCAA
14187376 AATAGAGAGT
Statistics
Matches: 124, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
33 3 0.02
34 4 0.03
35 101 0.81
36 12 0.10
37 4 0.03
ACGTcount: A:0.41, C:0.28, G:0.12, T:0.19
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAATCCATCTG
Found at i:14187298 original size:70 final size:69
Alignment explanation
Indices: 14187215--14187375 Score: 191
Period size: 70 Copynumber: 2.3 Consensus size: 69
14187205 TAGAAAAGCC
* * *
14187215 AATCCATCTGAAACATACCAATGCTAATAAGAGCTAATCC-CTTCAAA-ACACTTTAATGCTCGT
1 AATCCATCCGAAACACACCAATGCTAATAAGAGCTAATCCAC-TCAAACACAC--TAATGCTCAT
*
14187278 AAGAGTT
63 AAGAGCT
* ** *
14187285 AATCCCTCCGAAACACACCAATGCTCGTAAGAGCTAATCCAACTGAAACACACTAATGCTCATAA
1 AATCCATCCGAAACACACCAATGCTAATAAGAGCTAATCC-ACTCAAACACACTAATGCTCATAA
14187350 GAGCT
65 GAGCT
*
14187355 AATCCAACCGAAACACACCAA
1 AATCCATCCGAAACACACCAA
14187376 AATAGAGAGT
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
70 69 0.88
71 4 0.05
72 5 0.06
ACGTcount: A:0.40, C:0.28, G:0.11, T:0.20
Consensus pattern (69 bp):
AATCCATCCGAAACACACCAATGCTAATAAGAGCTAATCCACTCAAACACACTAATGCTCATAAG
AGCT
Found at i:14190312 original size:69 final size:67
Alignment explanation
Indices: 14190238--14190373 Score: 209
Period size: 69 Copynumber: 2.0 Consensus size: 67
14190228 TTTAGATTAA
* *
14190238 TTCAAAATCTTAAATTTTAAATATTTTAATTTCCAAAAAAAAATTGAAAATAATAAATTATCCAA
1 TTCAAAATCTTAAAATTTAAATATTTTAATTTCCAAAAAAAAATTGAAAAAAATAAATTA--CAA
14190303 AATT
64 AATT
* * *
14190307 TTCAAAATCTTAAAATTTAAATATTTTAATTTCTAAAAGAAATTTGAAAAAAATAAATTACAAAA
1 TTCAAAATCTTAAAATTTAAATATTTTAATTTCCAAAAAAAAATTGAAAAAAATAAATTACAAAA
14190372 TT
66 TT
14190374 AAAATATAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
67 7 0.11
69 55 0.89
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (67 bp):
TTCAAAATCTTAAAATTTAAATATTTTAATTTCCAAAAAAAAATTGAAAAAAATAAATTACAAAA
TT
Found at i:14195953 original size:13 final size:12
Alignment explanation
Indices: 14195932--14195971 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
14195922 CCCGACCCAT
14195932 TTTAAATATATA
1 TTTAAATATATA
14195944 TTTAATATATATA
1 TTTAA-ATATATA
*
14195957 TATAAAATATATA
1 T-TTAAATATATA
14195970 TT
1 TT
14195972 AGATTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 6 0.24
13 16 0.64
14 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTAAATATATA
Found at i:14195957 original size:15 final size:15
Alignment explanation
Indices: 14195937--14195970 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
14195927 CCCATTTTAA
**
14195937 ATATATATTTAATAT
1 ATATATATAAAATAT
14195952 ATATATATAAAATAT
1 ATATATATAAAATAT
14195967 ATAT
1 ATAT
14195971 TAGATTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATAAAATAT
Found at i:14203876 original size:21 final size:21
Alignment explanation
Indices: 14203850--14203890 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14203840 AGACGAGCAA
* *
14203850 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
14203871 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
14203891 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:14216852 original size:29 final size:28
Alignment explanation
Indices: 14216820--14216889 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 28
14216810 TGGAAGAGAT
*
14216820 TTGTCAGGCGGCACCCAGGTGGAGGGACA
1 TTGTCAGGCGGCA-CCAGGTGGAGGAACA
* * ** **
14216849 TTGTCAAGCGACACCATTTGGAGGAATG
1 TTGTCAGGCGGCACCAGGTGGAGGAACA
14216877 TTGTCAGGCGGCA
1 TTGTCAGGCGGCA
14216890 TCAGACCCCT
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
28 21 0.66
29 11 0.34
ACGTcount: A:0.23, C:0.21, G:0.36, T:0.20
Consensus pattern (28 bp):
TTGTCAGGCGGCACCAGGTGGAGGAACA
Found at i:14222469 original size:12 final size:12
Alignment explanation
Indices: 14222452--14222476 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14222442 CAGGATGCTC
14222452 TCTCTCGAGCCA
1 TCTCTCGAGCCA
14222464 TCTCTCGAGCCA
1 TCTCTCGAGCCA
14222476 T
1 T
14222477 ATAACAGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.40, G:0.16, T:0.28
Consensus pattern (12 bp):
TCTCTCGAGCCA
Found at i:14222504 original size:25 final size:25
Alignment explanation
Indices: 14222470--14222623 Score: 111
Period size: 25 Copynumber: 6.3 Consensus size: 25
14222460 GCCATCTCTC
*
14222470 GAGCCATATAACAGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATAT
* *
14222495 GAGCCATATAACAGGAAGCTTATCT
1 GAGCCATATAACAGGAAGCTCATAT
* ** * *
14222520 GGGCTGTATAACGGGAAGCTCATAA
1 GAGCCATATAACAGGAAGCTCATAT
* *
14222545 GAGCCATA-ATCAGGAAGCTCATAC
1 GAGCCATATAACAGGAAGCTCATAT
* * * *
14222569 GAGCTA-ATAACGGGTAGCTCCA-AA
1 GAGCCATATAACAGGAAGCT-CATAT
**
14222593 GAGCCAT-TAACAGGTGGCTTCATAT
1 GAGCCATATAACAGGAAGC-TCATAT
14222618 -AGCCAT
1 GAGCCAT
14222624 CTATCGGGAA
Statistics
Matches: 100, Mismatches: 24, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
23 1 0.01
24 49 0.49
25 50 0.50
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATAT
Found at i:14222587 original size:24 final size:23
Alignment explanation
Indices: 14222527--14222596 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 23
14222517 TCTGGGCTGT
*
14222527 ATAACGGGAAGCTCATAAGAGCC
1 ATAACGGGAAGCTCATAAGAGCA
* *
14222550 ATAATCAGGAAGCTCATACGAGCTA
1 ATAA-CGGGAAGCTCATAAGAGC-A
*
14222575 ATAACGGGTAGCTCCA-AAGAGC
1 ATAACGGGAAGCT-CATAAGAGC
14222597 CATTAACAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
23 4 0.11
24 28 0.74
25 6 0.16
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (23 bp):
ATAACGGGAAGCTCATAAGAGCA
Found at i:14222694 original size:27 final size:26
Alignment explanation
Indices: 14222664--14222724 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
14222654 GAAGTTCTGG
*
14222664 AGAGCCATTAATCAAGAAGATCATGAA
1 AGAGCCATTAATCAAGAAGATCACG-A
* * *
14222691 AGAGCCTTTAATCGAGAAGCTCACGA
1 AGAGCCATTAATCAAGAAGATCACGA
14222717 AGAGCCAT
1 AGAGCCAT
14222725 ATATCGGGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCAAGAAGATCACGA
Found at i:14235712 original size:26 final size:26
Alignment explanation
Indices: 14235659--14235712 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
14235649 TTCTAAATTG
* * *
14235659 GTGCTTAATCCATTTTTTGGTGAAAA
1 GTGCTTAATCCATATTTTGATCAAAA
14235685 GTGCTTAATCCA-ATTTTGATCAATAA
1 GTGCTTAATCCATATTTTGATCAA-AA
14235711 GT
1 GT
14235713 CATTAACTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (26 bp):
GTGCTTAATCCATATTTTGATCAAAA
Found at i:14237169 original size:20 final size:21
Alignment explanation
Indices: 14237144--14237182 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
14237134 AACCTCTCAT
14237144 TCTTT-AGCAAACT-TTTTGGC
1 TCTTTAAG-AAACTATTTTGGC
14237164 TCTTTAAGAAACTATTTTG
1 TCTTTAAGAAACTATTTTG
14237183 ACCGTCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (21 bp):
TCTTTAAGAAACTATTTTGGC
Found at i:14246403 original size:31 final size:31
Alignment explanation
Indices: 14246337--14246404 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
14246327 TAAAATGGGG
* ****
14246337 TTTTAAGTTCCTTAAAAGTTGGAGAAATTTT
1 TTTTAAGTCCCTTAAAAGTTGGAGAAAAAAA
14246368 TTTTAAGTCCCTTAAAAGTTGGTA-AAAAAAA
1 TTTTAAGTCCCTTAAAAGTTGG-AGAAAAAAA
14246399 TTTTAA
1 TTTTAA
14246405 CTTTTAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.41
Consensus pattern (31 bp):
TTTTAAGTCCCTTAAAAGTTGGAGAAAAAAA
Found at i:14248351 original size:21 final size:20
Alignment explanation
Indices: 14248319--14248364 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
14248309 AGTTTTTAAA
* *
14248319 TTTTATGATTTTTTAATTAT
1 TTTTATGATTTTCTAATAAT
14248339 TTTTATAGATTTTCTAATAAT
1 TTTTAT-GATTTTCTAATAAT
14248360 TTTTA
1 TTTTA
14248365 GCCTAAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTTATGATTTTCTAATAAT
Found at i:14252396 original size:26 final size:25
Alignment explanation
Indices: 14252360--14252409 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
14252350 TTTAAGAAAA
*
14252360 ATTTTGATAGGGTTAGGGCTTTTTTT
1 ATTTTGATAGGGTTAAGG-TTTTTTT
*
14252386 ATTTTGTTAGGGTTAAGGTTTTTT
1 ATTTTGATAGGGTTAAGGTTTTTT
14252410 AGGAATTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.16, C:0.02, G:0.26, T:0.56
Consensus pattern (25 bp):
ATTTTGATAGGGTTAAGGTTTTTTT
Found at i:14254686 original size:28 final size:28
Alignment explanation
Indices: 14254648--14254704 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
14254638 AGCACTGTAT
14254648 AGGAGAAAGTGTAACCATCATAATGTGG
1 AGGAGAAAGTGTAACCATCATAATGTGG
14254676 AGGAGAAAGTGTAACCATCATAATGTGG
1 AGGAGAAAGTGTAACCATCATAATGTGG
14254704 A
1 A
14254705 AAAAGCAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.11, G:0.28, T:0.21
Consensus pattern (28 bp):
AGGAGAAAGTGTAACCATCATAATGTGG
Done.